Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 1624 250.6 12620048 98.0% 12367647 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,130,334 A→G V30V (GTT→GTC)  b2983 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,130,3340AG100.0% 604.8 / NA 186V30V (GTT→GTC) b2983hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (87/99);  total (87/99)

Only 100 of 219 total aligned reads displayed.

CGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACAACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAA  >  NC_000913/3130244‑3130423
                                                                                           |                                                                                         
 gATTGCACAATCACCAGTAGGCCAAACATGGCGGGCGTCCTCCCTTTACCCGCACACGAGCACGCCAACAAACCCAGCAAGGCGCTC‑accaca                                                                                        >  1:2090696/1‑93 (MQ=255)
 gATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAAACCCCGCAAGGCGCTC‑acgaca                                                                                        >  1:1411688/1‑93 (MQ=255)
  aTTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACAt                                                                                       >  2:5442048/1‑93 (MQ=255)
  aTTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACAt                                                                                       <  1:2906608/93‑1 (MQ=255)
  aTTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCCGCACACGAGAGCGCCAACAGAACCCGCAAGGCGCTC‑ACGACAt                                                                                       >  1:1337049/1‑93 (MQ=255)
   ttGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACAtt                                                                                      <  2:3180827/93‑1 (MQ=255)
   ttGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACAtt                                                                                      <  2:5152606/93‑1 (MQ=255)
   ttGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGAACCAGCAAGGCGCTC‑ACGACAtt                                                                                      >  1:5529658/1‑93 (MQ=255)
    tGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTa                                                                                     >  2:2670892/1‑93 (MQ=255)
      cacaATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACt                                                                                   <  2:3692699/93‑1 (MQ=255)
       acaATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTg                                                                                  >  2:1710225/1‑93 (MQ=255)
           tCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGc                                                                              >  1:6298964/1‑93 (MQ=255)
           tCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAAGCGCTC‑ACGACATTACTGGAGc                                                                              >  2:4038360/1‑93 (MQ=255)
             aCCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGCGAGCGCCAACAGACCCAGCAAAGCGCTC‑ACGACATTTCTGTAGCCt                                                                            >  2:553604/1‑93 (MQ=255)
             aCCAGTACGCCAAACATGGCGGGCGTCATCCCTTTAACGGGACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGCCATTACTGGAGCCt                                                                            >  2:2506728/1‑93 (MQ=255)
              ccAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTa                                                                           >  1:1692114/1‑93 (MQ=255)
              ccAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTa                                                                           >  2:4796956/1‑93 (MQ=255)
                aGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGGACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACCTTACTGGAGCCTAAc                                                                         >  1:5216039/1‑93 (MQ=255)
                 gTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAAcc                                                                        >  1:4309085/1‑93 (MQ=255)
                  tACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCa                                                                       >  1:4752433/1‑93 (MQ=255)
                   aCGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAg                                                                      >  1:469939/1‑93 (MQ=255)
                    cGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAgg                                                                     <  1:276624/93‑1 (MQ=255)
                    cGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAgg                                                                     <  1:5997200/93‑1 (MQ=255)
                    cGCCAAACATGGCGGGCGTCACCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAgg                                                                     <  1:2705253/93‑1 (MQ=255)
                     gCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGGGCTC‑ACGACATTACTGGGGCCTAACCAGgc                                                                    >  2:5917762/1‑93 (MQ=255)
                     gCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGgc                                                                    <  2:6122634/93‑1 (MQ=255)
                      ccAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGgcg                                                                   >  2:4129366/1‑93 (MQ=255)
                       cAAACATGGCGGGCGTCATCCCCTTACCGGGACTCGAGAGCGCCAACAAACCCAGCAAGGCGCNC‑ANGACATTACTGGAGCCTANCCAGgcgc                                                                  >  2:5173229/1‑93 (MQ=255)
                       cAAACAGGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGgcgc                                                                  <  1:4801621/93‑1 (MQ=255)
                        aaaCATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCt                                                                 <  2:1598395/93‑1 (MQ=255)
                        aaaCATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAAAAGACCCAGCAAGGCGCTC‑CCGACATTACTGGAGCCTAAACAGGCGCt                                                                 >  1:3202937/1‑93 (MQ=255)
                          aCATGGCGGGCGTCATCCCTTTACCGGCACACGGGAGCGCCAACAGACCCAGCAAGGAGCTC‑ACGAAATTACTGGAGCCTTACCAGGCGCTAt                                                               >  1:3588856/1‑93 (MQ=255)
                          aCATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTAt                                                               <  1:5123515/93‑1 (MQ=255)
                          aCATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTAt                                                               <  1:6022605/93‑1 (MQ=255)
                           cATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTAtt                                                              <  2:6014564/93‑1 (MQ=255)
                            aTGGCGGGCGTCATCCCTTTACCGGCACACGAGGGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTg                                                             >  1:5022058/1‑93 (MQ=255)
                            aTGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTg                                                             <  1:4885185/93‑1 (MQ=255)
                              ggcgggcgTCATCCCTTTTCCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCg                                                           >  2:2163690/1‑93 (MQ=255)
                                 gggcgTCATCCCTTTACCCGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGaat                                                        >  2:2954962/1‑93 (MQ=255)
                                   gcgTCATCCCTTTCCCGGCACACGAGAGCCCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGaataa                                                      <  2:4591747/93‑1 (MQ=255)
                                   gcgTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGaataa                                                      <  2:6240367/93‑1 (MQ=255)
                                   gcgTCAGCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGaataa                                                      <  1:399832/93‑1 (MQ=255)
                                    cgTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGaataat                                                     <  2:4688412/93‑1 (MQ=255)
                                     gTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATg                                                    >  2:497650/1‑93 (MQ=255)
                                     gTCACCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATg                                                    <  2:3946991/93‑1 (MQ=255)
                                      tCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATgg                                                   >  2:672280/1‑93 (MQ=255)
                                       cATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGt                                                  <  1:3079116/93‑1 (MQ=255)
                                         tCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGc                                                >  2:3901141/1‑93 (MQ=255)
                                         tCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGATC‑ACGCCATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGc                                                >  1:3465536/1‑93 (MQ=255)
                                          cccTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCg                                               >  1:4826395/1‑93 (MQ=255)
                                            cTTTCCCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGaa                                             <  2:2885381/93‑1 (MQ=255)
                                            cTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGaa                                             >  2:891316/1‑93 (MQ=255)
                                             tttACCGCCACACGAGAGCGCCAACAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGaaa                                            <  2:3764688/93‑1 (MQ=255)
                                             ttcaCCGGCACACGAGAGCGCAAACAGACCCAGCAGGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGaaa                                            <  1:2262461/90‑1 (MQ=255)
                                              ttACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAc                                           >  1:439958/1‑93 (MQ=255)
                                               tACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAcg                                          >  1:2722281/1‑93 (MQ=255)
                                                aCCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAcgc                                         <  1:3031813/93‑1 (MQ=255)
                                                  cGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACgcgc                                       <  1:6262783/93‑1 (MQ=255)
                                                  cGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACgcgc                                       <  2:2004395/93‑1 (MQ=255)
                                                   ggCACACGAGAGCGCCAACAGACCCCGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGcc                                      >  1:4425360/1‑93 (MQ=255)
                                                     cacaCGACAGCCCCAACACCCCCAGCAGGCCCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCAt                                    <  2:2217341/93‑1 (MQ=255)
                                                      acgcGAGAGCCCCAACACCCCAGGCAGGGCCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATc                                   <  2:1225660/90‑1 (MQ=255)
                                                      acacGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATc                                   >  2:3213893/1‑93 (MQ=255)
                                                      acacGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATc                                   >  1:2169516/1‑93 (MQ=255)
                                                      acacGAGAGCCCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATc                                   <  1:3749121/93‑1 (MQ=255)
                                                         cGAGAGCGCCAACAGACCCAGCAAGGCTCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGc                                >  1:3128853/1‑93 (MQ=255)
                                                         cGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGc                                <  1:4169571/93‑1 (MQ=255)
                                                         cGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGc                                >  2:154201/1‑93 (MQ=255)
                                                              gcgcCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAAcc                           >  1:1088792/1‑93 (MQ=255)
                                                              gcgcCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAAcc                           <  1:989541/93‑1 (MQ=255)
                                                               cgcCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCa                          <  2:2963325/93‑1 (MQ=255)
                                                                gcCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCaa                         <  1:1014685/93‑1 (MQ=255)
                                                                gcCAACAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCaa                         <  1:6040095/93‑1 (MQ=255)
                                                                 ccAACAGCCCCAGCAAGGCCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAAt                        <  1:4909403/93‑1 (MQ=255)
                                                                   aaCAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGt                      >  2:5301551/1‑93 (MQ=255)
                                                                    aCAGACCCAGCAAGGCGCTCTACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGt                      <  1:421078/93‑1 (MQ=255)
                                                                    aCAGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGtt                     >  2:5237989/1‑93 (MQ=255)
                                                                     cAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGttt                    <  1:1457688/93‑1 (MQ=255)
                                                                     cAGCCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGttt                    <  1:322375/93‑1 (MQ=255)
                                                                      agccccAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTg                   <  2:803321/90‑1 (MQ=255)
                                                                      aGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTg                   >  2:2748947/1‑93 (MQ=255)
                                                                      aGACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGACGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTg                   >  1:3382927/1‑93 (MQ=255)
                                                                       gcgtcAGAAAGGCGCTC‑ACGATATTCTTGGAGCCTAATCAGTCGCTATTGCGAATAATGGTGGGAAACGCGGCATCTGCAAACCAATGTTTGa                  <  2:3065000/89‑1 (MQ=255)
                                                                       gACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGa                  <  1:799466/93‑1 (MQ=255)
                                                                       gACCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGa                  >  1:3887224/1‑93 (MQ=255)
                                                                        aCCCAGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGAt                 <  2:3842788/93‑1 (MQ=255)
                                                                           cAGCATGGCGCTG‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGtt              <  1:2350786/93‑1 (MQ=255)
                                                                            aGCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCAATCTGCAAACCAATGTTTGATGTTa             >  1:4944889/1‑93 (MQ=255)
                                                                             gCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTaa            <  1:406915/93‑1 (MQ=255)
                                                                             gCAAGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTaa            <  1:3797451/93‑1 (MQ=255)
                                                                             gCAAGGCCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTaa            <  2:4288330/93‑1 (MQ=255)
                                                                               aaGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCCATGTTTGATGTTaaaa          >  1:1529306/1‑93 (MQ=255)
                                                                               aaGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTaaaa          >  1:2421121/1‑93 (MQ=255)
                                                                               aaGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTaaaa          >  2:3716298/1‑93 (MQ=255)
                                                                                aGGCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCACACCAATGTTTGGTGTTAAAAc         >  2:4563774/1‑93 (MQ=255)
                                                                                    cccc‑acgACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGc     <  2:4480094/90‑1 (MQ=255)
                                                                                    cccc‑acgACATAACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGc     <  2:3588856/90‑1 (MQ=255)
                                                                                     cTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGcc    >  2:5642940/1‑93 (MQ=255)
                                                                                      tC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCa   >  2:3648018/1‑93 (MQ=255)
                                                                                       c‑acgACATGACTGGAGCCTAACCAGGCGCTATGGCGAATAATGGTCCGAAACGGGCCATCGGCAAACCAATTTTTGATGTTAAAACCCGCCaa  <  2:2793904/93‑1 (MQ=255)
                                                                                           |                                                                                         
CGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGGCGCTC‑ACAACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAA  >  NC_000913/3130244‑3130423

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GTACGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACAACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTCA  >  NC_000913/3130241‑3130427
                                                                                               |                                                                                             
GTACGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTTCCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACG                                                                                               >  SRR4302533.3991504/1‑94 (MQ=60)
   CGATTGCACAATCACCAGTAGGCCAAACATGGCGGGCGTCCTCCCTTTACCCGCACACGAGCACGCCAACAAACCCAGCAAGG‑CGCTC‑ACCACA                                                                                            >  SRR4302533.2103572/1‑94 (MQ=60)
   CGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACA                                                                                            >  SRR4302533.4155459/1‑94 (MQ=60)
   CGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAAACCCCGCAAGG‑CGCTC‑ACGACA                                                                                            >  SRR4302533.1420223/1‑94 (MQ=60)
    GATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCCAGG‑CGCTC‑ACCACAT                                                                                           >  SRR4302533.1603511/1‑94 (MQ=60)
    GATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCCGCACACGAGAGCGCCAACAGAACCCGCAAGG‑CGCTC‑ACGACAT                                                                                           >  SRR4302533.1345073/1‑94 (MQ=60)
     ATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATT                                                                                          <  SRR4302533.2924455/94‑1 (MQ=60)
     ATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGAACCAGCAAGG‑CGCTC‑ACGACATT                                                                                          >  SRR4302533.5563040/1‑94 (MQ=60)
      TTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTA                                                                                         >  SRR4302533.352863/1‑94 (MQ=60)
      TTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTA                                                                                         <  SRR4302533.6076170/94‑1 (MQ=60)
         CACAACCACCAGTCCGCAAAACAGGGCGGGCGTCACCCCTTACCCGGCACACGAGAGCGCCAACAGCCCCAGAAAGG‑CGCTC‑ACGACATTACTG                                                                                      <  SRR4302533.2482682/94‑1 (MQ=42)
           CAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGA                                                                                    <  SRR4302533.4085213/94‑1 (MQ=60)
             ATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGC                                                                                  >  SRR4302533.6336567/1‑94 (MQ=60)
              TCACCAGTACGCCAAATATGCCGGTCTTCATCCTTTGTCCGGCACACGAGAGCGCCAACAGCCCAAGCAAGG‑CCCTC‑ACGACATTACTGGAGCC                                                                                 <  SRR4302533.5744752/94‑1 (MQ=32)
                ACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTA                                                                               >  SRR4302533.1702363/1‑94 (MQ=60)
                ACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTA                                                                               >  SRR4302533.4270012/1‑94 (MQ=60)
                 CCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAA                                                                              <  SRR4302533.3226539/94‑1 (MQ=60)
                  CAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGGACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACCTTACTGGAGCCTAAC                                                                             >  SRR4302533.5247443/1‑94 (MQ=60)
                  CAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCCACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAAC                                                                             >  SRR4302533.1433558/1‑94 (MQ=60)
                  CAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAAC                                                                             <  SRR4302533.495632/94‑1 (MQ=60)
                  CAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAACAAAG‑CGCTC‑ACGACATTACTGGAGCCTAAC                                                                             >  SRR4302533.3458105/1‑94 (MQ=60)
                   AGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACC                                                                            <  SRR4302533.3841168/94‑1 (MQ=60)
                   AGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACC                                                                            >  SRR4302533.4335023/1‑94 (MQ=60)
                   AGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACC                                                                            >  SRR4302533.3440730/1‑94 (MQ=60)
                    GTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCA                                                                           >  SRR4302533.4781245/1‑94 (MQ=60)
                     TACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAG                                                                          >  SRR4302533.472747/1‑94 (MQ=60)
                     TACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAG                                                                          <  SRR4302533.6018599/94‑1 (MQ=60)
                      ACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGG                                                                         <  SRR4302533.2978088/94‑1 (MQ=60)
                       CGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGC                                                                        >  SRR4302533.4430104/1‑94 (MQ=60)
                       CGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGC                                                                        <  SRR4302533.278308/94‑1 (MQ=60)
                       CGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGC                                                                        <  SRR4302533.6033522/94‑1 (MQ=60)
                       CGCCAAACATGGCGGGCGTCACCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGC                                                                        <  SRR4302533.2721846/94‑1 (MQ=60)
                         CCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGC                                                                      >  SRR4302533.1417531/1‑94 (MQ=60)
                          CAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCT                                                                     >  SRR4302533.3124929/1‑94 (MQ=60)
                          CAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAAAAGACCCAGCAAGG‑CGCTC‑CCGACATTACTGGAGCCTAAACAGGCGCT                                                                     >  SRR4302533.3222650/1‑94 (MQ=60)
                          CAAACAGGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCT                                                                     <  SRR4302533.4830705/94‑1 (MQ=60)
                            AACATGGCGGGCGTCATCCCTTTACCGGCACACGGGAGCGCCAACAGACCCAGCAAGG‑AGCTC‑ACGAAATTACTGGAGCCTTACCAGGCGCTAT                                                                   >  SRR4302533.3610954/1‑94 (MQ=60)
                            AACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTAT                                                                   >  SRR4302533.4852658/1‑94 (MQ=60)
                             ACATGGCGGGCTTCATCCCTTTCCCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATT                                                                  <  SRR4302533.1471343/94‑1 (MQ=60)
                             ACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATT                                                                  <  SRR4302533.5154469/94‑1 (MQ=60)
                             ACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATT                                                                  <  SRR4302533.6059103/94‑1 (MQ=60)
                              CATGGGGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTG                                                                 <  SRR4302533.4004571/94‑1 (MQ=60)
                              CATGGCGGGCGTCATCCCTTTACCGGCACACGAGGGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTG                                                                 >  SRR4302533.5052471/1‑94 (MQ=60)
                              CATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTG                                                                 <  SRR4302533.722203/94‑1 (MQ=60)
                               ATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGC                                                                <  SRR4302533.4914780/94‑1 (MQ=60)
                                  gcgggcgccaccccttcccgGGCACACGAGAGCCCAACCAGCCCCAGCAGGG‑CCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAA                                                             <  SRR4302533.5481060/74‑1 (MQ=39)
                                   CGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAAT                                                            >  SRR4302533.4513514/1‑94 (MQ=60)
                                     GGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAA                                                          <  SRR4302533.214572/94‑1 (MQ=60)
                                     GGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAA                                                          <  SRR4302533.894866/94‑1 (MQ=60)
                                      GCGTCAGCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAAT                                                         <  SRR4302533.402245/94‑1 (MQ=60)
                                       gggtcctcctttccccgacacaggagggcacaaacacccccagcaggcCGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAAT                                                         <  SRR4302533.3323603/46‑1 (MQ=60)
                                       CGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATG                                                        >  SRR4302533.4235902/1‑94 (MQ=60)
                                        GTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGG                                                       <  SRR4302533.512520/94‑1 (MQ=60)
                                        GTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGG                                                       <  SRR4302533.6323169/94‑1 (MQ=60)
                                         TCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGT                                                      <  SRR4302533.6087757/94‑1 (MQ=60)
                                          cgtccatcgccgcGCACACGAGAGCGCCAACAGCCCAAGCAGCG‑CGGTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTG                                                     <  SRR4302533.1389242/81‑1 (MQ=60)
                                          CATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTG                                                     <  SRR4302533.3098011/94‑1 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    >  SRR4302533.3760162/1‑94 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    >  SRR4302533.2319175/1‑94 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    <  SRR4302533.1997535/94‑1 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    >  SRR4302533.6206486/1‑94 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    >  SRR4302533.6057632/1‑94 (MQ=60)
                                           ATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGATC‑ACGCCATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGC                                                    >  SRR4302533.3486925/1‑94 (MQ=60)
                                            TCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCG                                                   >  SRR4302533.4855641/1‑94 (MQ=60)
                                                TTTCCCGCCACACGAGAGCGCCAACAGCCCCAGCAGGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAC                                               <  SRR4302533.2755700/94‑1 (MQ=60)
                                                TTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAC                                               >  SRR4302533.3950571/1‑94 (MQ=60)
                                                TTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAC                                               >  SRR4302533.442584/1‑94 (MQ=60)
                                                TTTACCGGCACACGAGAGCACAACCAGCCCGAGCAAGG‑CCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAC                                               <  SRR4302533.2227413/94‑1 (MQ=60)
                                                TTCACCGGCACACGAGAGCGCAAACAGACCCAGCAGGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAAC                                               <  SRR4302533.2276455/94‑1 (MQ=60)
                                                 TTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACG                                              >  SRR4302533.2738988/1‑94 (MQ=60)
                                                   ACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCG                                            <  SRR4302533.3050363/94‑1 (MQ=60)
                                                     CGGCACACGAGAGCGCTAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCC                                          <  SRR4302533.5018512/94‑1 (MQ=60)
                                                     CGGCACACGAGAGCGCCAACAGACCCCGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCC                                          >  SRR4302533.4452109/1‑94 (MQ=60)
                                                     CGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCC                                          <  SRR4302533.6300219/94‑1 (MQ=60)
                                                       GCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCAT                                        >  SRR4302533.4918008/1‑94 (MQ=60)
                                                        CACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATC                                       >  SRR4302533.2182860/1‑94 (MQ=60)
                                                        CACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATC                                       >  SRR4302533.1302349/1‑94 (MQ=60)
                                                         ACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCT                                      >  SRR4302533.5176787/1‑94 (MQ=60)
                                                         ACACGAGAGCCCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCT                                      <  SRR4302533.3772105/94‑1 (MQ=60)
                                                          CCCGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTG                                     <  SRR4302533.1667725/94‑1 (MQ=60)
                                                          CACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTG                                     <  SRR4302533.3017559/94‑1 (MQ=60)
                                                           ACGAGAGCGCCAACAGACCCAGCAAGG‑CTCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGC                                    >  SRR4302533.3148087/1‑94 (MQ=60)
                                                            CGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCA                                   >  SRR4302533.4844319/1‑94 (MQ=60)
                                                            CGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCA                                   <  SRR4302533.4194838/94‑1 (MQ=60)
                                                             GAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAA                                  <  SRR4302533.3081172/94‑1 (MQ=60)
                                                                AGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACC                               >  SRR4302533.1095220/1‑94 (MQ=60)
                                                                 GCGCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCA                              <  SRR4302533.995330/94‑1 (MQ=60)
                                                                   GCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAAT                            <  SRR4302533.1020645/94‑1 (MQ=60)
                                                                   GCCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAAT                            <  SRR4302533.6076695/94‑1 (MQ=60)
                                                                    caaacgacCCCAGAAAGG‑CCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATG                           <  SRR4302533.73226/86‑1 (MQ=60)
                                                                    CCAACAGCCCCAGCAGGC‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATG                           <  SRR4302533.2431348/94‑1 (MQ=60)
                                                                    CCAACAGCCCCAGCAAGG‑CCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATG                           <  SRR4302533.4939145/94‑1 (MQ=60)
                                                                    CCAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATG                           >  SRR4302533.2387869/1‑94 (MQ=60)
                                                                     CAACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGT                          >  SRR4302533.5233607/1‑94 (MQ=60)
                                                                       acaccCCCAGCAAGG‑CCCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTT                        <  SRR4302533.2202459/89‑1 (MQ=60)
                                                                       ACAGACCCAGCAAGG‑CGCTCTACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTT                         <  SRR4302533.423597/94‑1 (MQ=60)
                                                                       ACAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTT                        <  SRR4302533.3189409/94‑1 (MQ=60)
                                                                        CAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTG                       <  SRR4302533.324344/94‑1 (MQ=60)
                                                                        CAGCCCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTG                       <  SRR4302533.1466479/94‑1 (MQ=60)
                                                                        CAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTG                       >  SRR4302533.1093009/1‑94 (MQ=60)
                                                                        CAGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGACGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTG                       >  SRR4302533.3403810/1‑94 (MQ=60)
                                                                        CAG‑CCCAGCAAGGCCGCCC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTG                       <  SRR4302533.4409323/94‑1 (MQ=60)
                                                                         AGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGA                      >  SRR4302533.3910940/1‑94 (MQ=60)
                                                                         AGACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGA                      <  SRR4302533.4873448/94‑1 (MQ=60)
                                                                          GACCCAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGAT                     <  SRR4302533.804169/94‑1 (MQ=60)
                                                                              CAGCATGG‑CGCTG‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTA                 <  SRR4302533.2365329/94‑1 (MQ=60)
                                                                              CAGCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCAATCTGCAAACCAATGTTTGATGTTA                 >  SRR4302533.4974817/1‑94 (MQ=60)
                                                                                GCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAA               <  SRR4302533.409361/94‑1 (MQ=60)
                                                                                GCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAA               <  SRR4302533.3820697/94‑1 (MQ=60)
                                                                                GCAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAA               <  SRR4302533.3252603/94‑1 (MQ=60)
                                                                                 CAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCCATGTTTGATGTTAAAA              >  SRR4302533.1538503/1‑94 (MQ=60)
                                                                                 CAAGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAA              >  SRR4302533.2436071/1‑94 (MQ=60)
                                                                                   AGG‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACC            <  SRR4302533.2737766/94‑1 (MQ=60)
                                                                                     G‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCG          <  SRR4302533.2832129/94‑1 (MQ=60)
                                                                                     G‑CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCG          <  SRR4302533.3776348/94‑1 (MQ=60)
                                                                                       CGCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGC         >  SRR4302533.4746674/1‑94 (MQ=60)
                                                                                        GCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCC        >  SRR4302533.4389218/1‑94 (MQ=60)
                                                                                        GCTC‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCC        >  SRR4302533.4803113/1‑94 (MQ=60)
                                                                                           C‑ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAAT     >  SRR4302533.490905/1‑94 (MQ=60)
                                                                                             ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATT    <  SRR4302533.597487/94‑1 (MQ=60)
                                                                                             ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATT    <  SRR4302533.2866411/94‑1 (MQ=60)
                                                                                             ACGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATT    <  SRR4302533.644336/94‑1 (MQ=60)
                                                                                              CGACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTC   <  SRR4302533.2791436/94‑1 (MQ=60)
                                                                                               GACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTCA  <  SRR4302533.4109890/94‑1 (MQ=60)
                                                                                               GACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTCA  >  SRR4302533.1393396/1‑94 (MQ=60)
                                                                                               GACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTCA  >  SRR4302533.4095142/1‑94 (MQ=60)
                                                                                               |                                                                                             
GTACGATTGCACAATCACCAGTACGCCAAACATGGCGGGCGTCATCCCTTTACCGGCACACGAGAGCGCCAACAGACCCAGCAAGG‑CGCTC‑ACAACATTACTGGAGCCTAACCAGGCGCTATTGCGAATAATGGTGCGAAACGCGCCATCTGCAAACCAATGTTTGATGTTAAAACCCGCCAATTCA  >  NC_000913/3130241‑3130427

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑