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
A12 F1 I2 R1 766 55.6 2631458 94.7% 2491990 109.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,178,015 G→A intergenic (‑105/‑100) nudF ← / → tolC ADP‑ribose pyrophosphatase/transport channel

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,178,0150GA100.0% 181.0 / NA 56intergenic (‑105/‑100)nudF/tolCADP‑ribose pyrophosphatase/transport channel
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (30/26);  total (30/26)

ACGGGCAGGTTGTCTGGCTTAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGGCACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCATTCTTATCGGCCT  >  NC_000913/3177885‑3178146
                                                                                                                                  |                                                                                                                                   
aCGGGCAGGTTGTCTGGCTTAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAAc                                                                                                                             >  2:568868/1‑139 (MQ=255)
            tCTGGCTTAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTg                                                                                                                 >  1:1224969/1‑139 (MQ=255)
                   tAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGc                                                                                                          >  2:334698/1‑139 (MQ=255)
                   tAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGc                                                                                                          >  2:501643/1‑139 (MQ=255)
                      gCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       <  1:568868/139‑1 (MQ=255)
                      gCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       <  1:410155/139‑1 (MQ=255)
                      gCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       >  1:1194015/1‑139 (MQ=255)
                      gCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       >  2:376413/1‑139 (MQ=255)
                          tGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCt                                                                                                   >  2:1084281/1‑139 (MQ=255)
                               aTGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAGCGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAg                                                                                              >  1:1068524/1‑139 (MQ=255)
                                   ccTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATc                                                                                          >  2:289427/1‑139 (MQ=255)
                                    cTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATcc                                                                                         >  1:902083/1‑139 (MQ=255)
                                     tGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCg                                                                                        >  2:65642/1‑139 (MQ=255)
                                      ggCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCtt                                                                                                                    >  1:1217210/1‑110 (MQ=255)
                                      ggCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCtt                                                                                                                    <  2:1217210/110‑1 (MQ=255)
                                      ggCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATccac                                                                                       >  2:95291/1‑137 (MQ=255)
                                        cACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCaa                                                                                     <  1:890593/139‑1 (MQ=255)
                                            aaTAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCaataat                                                                                 >  1:1198973/1‑139 (MQ=255)
                                             aTAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       <  2:553236/116‑1 (MQ=255)
                                             aTAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       >  1:553236/1‑116 (MQ=255)
                                              tAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAAttt                                                                               <  2:453837/139‑1 (MQ=255)
                                                gTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCACAATAATTTTa                                                                             <  1:95291/139‑1 (MQ=255)
                                                 tGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTAc                                                                            >  1:1209905/1‑139 (MQ=255)
                                                   aaTTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAg                                                                          >  1:917948/1‑139 (MQ=255)
                                                          tgtgAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATc                                                                   <  1:501643/139‑1 (MQ=255)
                                                             gAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       >  2:1203987/1‑100 (MQ=255)
                                                             gAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       <  1:1203987/100‑1 (MQ=255)
                                                             gAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATcgcg                                                                <  1:289427/139‑1 (MQ=255)
                                                               aTTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCt                                                              >  2:1064415/1‑139 (MQ=255)
                                                                   cAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAAt                                                          <  1:1084281/139‑1 (MQ=255)
                                                                     gCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATAc                                                        <  2:917948/139‑1 (MQ=255)
                                                                        aCGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCtt                                                                                                     >  1:1129508/1‑91 (MQ=255)
                                                                        aCGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCtt                                                                                                     <  2:1129508/91‑1 (MQ=255)
                                                                         cGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCt                                                    <  1:65642/139‑1 (MQ=255)
                                                                         cGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCt                                                    <  2:902083/139‑1 (MQ=255)
                                                                                 tGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACcaca                                            <  1:334698/139‑1 (MQ=255)
                                                                                    cGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAgg                                         <  1:1064415/139‑1 (MQ=255)
                                                                                      tttGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGaa                                       <  2:1209905/139‑1 (MQ=255)
                                                                                                       tAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACcaca                                            >  1:1305368/1‑117 (MQ=255)
                                                                                                       tAAATTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACcaca                                            <  2:1305368/117‑1 (MQ=255)
                                                                                                        aaaTTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       <  2:1204348/57‑1 (MQ=255)
                                                                                                        aaaTTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGc                                                                                                       >  1:1204348/1‑57 (MQ=255)
                                                                                                         aaTTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTcacc                                               <  1:794763/112‑1 (MQ=255)
                                                                                                         aaTTGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTcacc                                               >  2:794763/1‑112 (MQ=255)
                                                                                                            tGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTc                   <  1:984244/137‑1 (MQ=255)
                                                                                                            tGAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGAAAATGAAGAAATTGCTc                   >  2:984244/1‑137 (MQ=255)
                                                                                                             gAGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTcccc                >  2:615240/1‑139 (MQ=255)
                                                                                                              aGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCa               >  2:421971/1‑139 (MQ=255)
                                                                                                              aGGCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCa               >  1:697486/1‑139 (MQ=255)
                                                                                                               ggCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCAt              <  1:608022/139‑1 (MQ=255)
                                                                                                                gCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCg                                                                                                         <  1:1215300/47‑1 (MQ=255)
                                                                                                                gCACATTAACGCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCg                                                                                                         >  2:1215300/1‑47 (MQ=255)
                                                                                                                         cGCCCTATGACCCGTAACGCCAACCTTTTGCGGTAGCGGCTGCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCATTCTTATCGGc    <  1:718361/139‑1 (MQ=255)
                                                                                                                          gCCCTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCATTCTTATCGGcc   >  2:160967/1‑139 (MQ=255)
                                                                                                                           cccTATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCATTCTTATCGGCCt  <  2:528185/139‑1 (MQ=255)
                                                                                                                              tATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTa                                                             <  2:382622/77‑1 (MQ=255)
                                                                                                                              tATGACACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTa                                                             >  1:382622/1‑77 (MQ=255)
                                                                                                                                  |                                                                                                                                   
ACGGGCAGGTTGTCTGGCTTAAGCATTGTTAATGTCCTGGCACTAATAGTGAATTAAATGTGAATTTCAGCGACGTTTGACTGCCGTTTGAGCAGTCATGTGTTAAATTGAGGCACATTAACGCCCTATGGCACGTAACGCCAACCTTTTGCGGTAGCGGCTTCTGCTAGAATCCGCAATAATTTTACAGTTTGATCGCGCTAAATACTGCTTCACCACAAGGAATGCAAATGAAGAAATTGCTCCCCATTCTTATCGGCCT  >  NC_000913/3177885‑3178146

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A