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
A3 F21 I0 R1 44 97.4 2221552 95.8% 2128246 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,416,458 A→T 100% I216N (ATT→AAT)  oppD_4 ← Oligopeptide transport ATP‑binding protein OppD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,416,4580AT100.0% 231.1 / NA 74I216N (ATT→AAT) oppD_4Oligopeptide transport ATP‑binding protein OppD
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (36/38);  total (36/38)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGG  >  USA300TCH1516_ALE/1416326‑1416591
                                                                                                                                    |                                                                                                                                      
aCTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTAGCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGa                                                                                                                                <  2:591160/141‑1 (MQ=255)
   cAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACaa                                                                                                                             >  1:1083987/1‑141 (MQ=255)
   cAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACaa                                                                                                                             >  2:6408/1‑141 (MQ=255)
   cAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACaa                                                                                                                             >  1:426686/1‑141 (MQ=255)
    aaTCATAGTAATCCCTCTTTAATTGTGTTCTCTATTTTATTTTACTTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAat                                                                                                                            >  1:1093339/1‑141 (MQ=255)
          aGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATACTTGTACTGACAATATTTCa                                                                                                                      >  2:964510/1‑141 (MQ=255)
               tCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACa                                                                                                                 >  1:980679/1‑141 (MQ=255)
               tCCCTCTTTAATTGTGTTCTATATTCAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACa                                                                                                                 <  1:314929/141‑1 (MQ=255)
                   tctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GAc                                                                                                            >  2:949599/1‑141 (MQ=255)
                    ctTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAAAATAATTGTACTGACAATATTTAAATACAT‑GACt                                                                                                           >  2:389694/1‑141 (MQ=255)
                    ctTTAATTGTGTTCTATATTAAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACATTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GAcg                                                                                                           >  1:776173/1‑140 (MQ=255)
                        taTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAg                                                                                                       <  2:598143/140‑1 (MQ=255)
                        aaTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAGTTGTACTGACAATATTTCAATACAT‑GACTTAAg                                                                                                       >  2:615466/1‑141 (MQ=255)
                        aaTTGTGTTCTATATTTAATTAGACGTTCAGTATACGCATGCAAATGCTTATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAg                                                                                                       <  1:853248/141‑1 (MQ=255)
                         aTTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGt                                                                                                      <  2:766038/141‑1 (MQ=255)
                          ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGtt                                                                                                     >  1:117775/1‑141 (MQ=255)
                          ttGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTGAAAACATAATTGTACTGAGAATATCTCAATACAT‑GACTTAAGtt                                                                                                     <  1:606251/141‑1 (MQ=255)
                            gtgtTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTAt                                                                                                   <  1:416862/141‑1 (MQ=255)
                            gtgtTCTATATTTAATTAGACGTTCAGCATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTAt                                                                                                   <  1:161195/141‑1 (MQ=255)
                              tttCTATTTTTAATTAGTCGTTCAGAATCCCGATGCTGATCCTCCTACTTGCATTGATGAAAAGTTCCACGTTCAATTAGTTGACCTTCTTTTAAAACGTAATGGTTCTGACAATATTTCAATACAT‑GACTTAAGTTAtgt                                                                                                 <  2:640791/140‑1 (MQ=255)
                                        tAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCACT‑CATAGACTTAAGTTATGTGTGAtaataa                                                                                       >  2:1110250/1‑141 (MQ=255)
                                         aaTTAGACGTTCAGTATACGGATGCAAATGATCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATaataaa                                                                                      <  2:774770/141‑1 (MQ=255)
                                            tAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACAATTAGTACTTATTTTACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAataaataa                                                                                   <  1:254486/141‑1 (MQ=255)
                                                    cAGTATACGGCTGCGAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGAc                                                                           >  2:750007/1‑141 (MQ=255)
                                                    cAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGAc                                                                           >  1:1051445/1‑141 (MQ=255)
                                                    cAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGAc                                                                           >  1:407791/1‑141 (MQ=255)
                                                     aGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                          <  2:104678/141‑1 (MQ=255)
                                                     aGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAG‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGAcc                                                                          <  1:759917/141‑1 (MQ=255)
                                                      gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCa                                                                         >  2:613330/1‑141 (MQ=255)
                                                      gTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCa                                                                         >  2:923324/1‑141 (MQ=255)
                                                       tataCGTGTGCAAATGCTCATACTTGAAATGATTAATAGTACCTCGTTCAATGGTTTGACCTTCTTTTAAAACATAATTGGACTGACAATATGTGGGTGGTG‑GGGGGGAGTTATGTGTGATAATAAATAATGTTTGACCAt                                                                        <  2:1009943/141‑1 (MQ=255)
                                                        ataCGGGTGAAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATg                                                                       <  2:896691/141‑1 (MQ=255)
                                                        ataCGGATGCAAATGCTCACACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑TACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATg                                                                       <  2:896097/141‑1 (MQ=255)
                                                           tggATGTAAATGCTCATGTTTGAAATGATTAATATTACGTCGTTCCATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATAGTTCAATACAT‑GACTTAAGTTATGTGTTATAATAAATAATGTTTGACCATGTTc                                                                    <  1:51820/140‑1 (MQ=255)
                                                                 ccaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAc                                                              <  1:95435/139‑1 (MQ=255)
                                                                  aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGGCCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACa                                                             <  1:49267/141‑1 (MQ=255)
                                                                  aaaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAGTACa                                                             >  2:916754/1‑141 (MQ=255)
                                                                   aaTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTCATACaa                                                            >  2:398968/1‑141 (MQ=255)
                                                                    aTGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAat                                                           >  1:675097/1‑141 (MQ=255)
                                                                               tGAAACGTTTGATCTTACCTCGTTTACTTATTTGACCTTCTTTTAAAACATAATTGGTCTGGCAAGATTTCAATACAT‑TACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATAGTATATGCTGtaata                                                <  2:326420/141‑1 (MQ=255)
                                                                                gAAATGATTAATATTACCTTGATCTGTGATTTGGCCGTCTGTTAATACATAATTTTACTGACGATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGtaataa                                               >  2:925686/1‑141 (MQ=255)
                                                                                        tAATATTTCATTATTCAATGAATTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTAAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCa                                       <  2:74966/141‑1 (MQ=255)
                                                                                        tAATATTATCTCGCTCAATTATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCa                                       <  1:448191/141‑1 (MQ=255)
                                                                                        tAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTATGACCATGTTCTAATACAATATGCTGTAATAAATCCATCa                                       <  1:788362/141‑1 (MQ=255)
                                                                                              tACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTCGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGag                                 >  1:776934/1‑140 (MQ=255)
                                                                                               aCCTCGTTCAATGATTTGACCATCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GAGTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTACTAAATCCATCACTTGAtt                                <  2:638473/141‑1 (MQ=255)
                                                                                                 tccGTTCAATGATTTGTCCTTCTTTGCACACATAATTGTACTTACAAGATCTCAATAGAG‑GACTTAATTTATTTGTGATACTAAATAAGGTTGGACCATGTTCTAATACAATATGCTTTAATAAATCCATCACTTGATTAc                              <  2:110748/139‑1 (MQ=255)
                                                                                                 cTCGTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGAAAATATTTAAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCTTGTTCTAATACTATATGCTGTAATAAATCCATCACTTGATTAc                              <  2:217816/141‑1 (MQ=255)
                                                                                                 cTCGTTCAATGATTTGACCTGTTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTAc                              <  2:614595/141‑1 (MQ=255)
                                                                                                    gTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACAATGTTCTAATACAATATGCTGTAATAAGTCCATCACTTGATTACCGt                           >  1:921823/1‑141 (MQ=255)
                                                                                                    gTTCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTCACCATATTCTAATACAATATACTGTAATAAATCCATCACTTGTTTACCGt                           >  2:776307/1‑141 (MQ=255)
                                                                                                     ttCAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGtt                          >  2:540253/1‑141 (MQ=255)
                                                                                                       cAATGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCa                        <  2:675097/141‑1 (MQ=255)
                                                                                                        aaTGCTTTGACTTTCTTTTAAAACATAATTATACTGACAATATTTCAATACAT‑GCCATAAGATATTTGTGATAATAAATAATTTTTGCCCATTTTATAATACAATATGCTATAATAAATCTATAACTTATTTACCTTTCaa                       >  2:372160/1‑141 (MQ=255)
                                                                                                        aaTGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaa                       >  2:578447/1‑141 (MQ=255)
                                                                                                        aaTGATTTGACCTTCTATTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaa                       >  1:567095/1‑141 (MQ=255)
                                                                                                         aTGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaaa                      >  2:848689/1‑141 (MQ=255)
                                                                                                         aTGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaaa                      >  2:44639/1‑141 (MQ=255)
                                                                                                         aTGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCaaa                      >  2:801807/1‑141 (MQ=255)
                                                                                                          tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAGTAAATAATGTTTGACCATGTTCTAATCCAATATGCTGTAATAAATCAATCACTGCATTACCGTGCAAAg                     >  1:279199/1‑141 (MQ=255)
                                                                                                          tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACAGTTaaaac                     >  1:652172/1‑140 (MQ=255)
                                                                                                          tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTATAATAAATCCATCACTTGATTAACGTTCcaaa                     >  2:427694/1‑140 (MQ=255)
                                                                                                          tGATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACGTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAg                     >  1:733735/1‑141 (MQ=255)
                                                                                                           gATTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGc                    <  1:294173/141‑1 (MQ=255)
                                                                                                            aTTTGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTTATTTGCGGATGACTTGATTACCGTTCAAAGCa                   <  1:264337/141‑1 (MQ=255)
                                                                                                             tttGACCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCAt                  <  2:491347/141‑1 (MQ=255)
                                                                                                                 aCCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCaa              <  1:938796/141‑1 (MQ=255)
                                                                                                                 aCCTTCTTTTAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCaa              <  1:292895/141‑1 (MQ=255)
                                                                                                                         ttAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCaa      <  1:964510/141‑1 (MQ=255)
                                                                                                                          tAAAACATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAAc     <  2:29779/141‑1 (MQ=255)
                                                                                                                           aaaaCATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACt    <  1:863503/141‑1 (MQ=255)
                                                                                                                           aaaaCATAATTGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTCATAATAAATAATCTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCAGCCAATGATGCAACt    <  2:756401/141‑1 (MQ=255)
                                                                                                                             aaCATAATTGTACTGACAATCTTTCAATACAT‑GACTTAAGTTATGTGTGCTAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTgg  >  2:467185/1‑141 (MQ=255)
                                                                                                                             aaCATAATTGTACTGACAATATTTCAATACAT‑GTCTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTgg  <  1:750007/141‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                      
ACTCAATCATAGTAATCCCTCTTTAATTGTGTTCTATATTTAATTAGACGTTCAGTATACGGATGCAAATGCTCATACTTGAAATGATTAATATTACCTCGTTCAATGATTTGACCTTCTTTTAAAACATAAATGTACTGACAATATTTCAATACAT‑GACTTAAGTTATGTGTGATAATAAATAATGTTTGACCATGTTCTAATACAATATGCTGTAATAAATCCATCACTTGATTACCGTTCAAAGCATCCAATGATGCAACTGG  >  USA300TCH1516_ALE/1416326‑1416591

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A