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
A10 F28 I1 R1 116 72.9 2471836 99.3% 2454533 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,783,509 T→C intergenic (‑205/+129) pinH ← / ← ypjB putative invertase fragment/DUF5508 domain‑containing protein YpjB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,783,5090TC100.0% 202.6 / NA 56intergenic (‑205/+129)pinH/ypjBputative invertase fragment/DUF5508 domain‑containing protein YpjB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (23/33);  total (23/33)

GTAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGTAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTATCTCTTTGTAAAAATTGCCATTTATTAATCATTG  >  NC_000913/2783379‑2783643
                                                                                                                                  |                                                                                                                                       
gTAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCttt                                                                                                                                <  2:718153/140‑1 (MQ=255)
gTAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCttt                                                                                                                                <  1:157719/140‑1 (MQ=255)
 tAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCt                                                                                                                                  >  2:738560/1‑137 (MQ=255)
 tAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCt                                                                                                                                  <  1:738560/137‑1 (MQ=255)
    gATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCt                                                                                                                            <  1:801254/140‑1 (MQ=255)
    gATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCt                                                                                                                            <  2:1052304/140‑1 (MQ=255)
    gATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCt                                                                                                                            >  2:378287/1‑140 (MQ=255)
         aaaaaCTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCGAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGt                                                                                                                       >  1:494753/1‑140 (MQ=255)
         aaaaaCTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGt                                                                                                                       >  1:1039046/1‑140 (MQ=255)
         aaaaaCTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGt                                                                                                                       >  2:571102/1‑140 (MQ=255)
            aaCTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGt                                                                                                                    <  1:370952/140‑1 (MQ=255)
            aaCTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGt                                                                                                                    <  2:1039046/140‑1 (MQ=255)
              cTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCGAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGa                                                                                                                  <  2:494753/140‑1 (MQ=255)
                 tCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGacac                                                                                                               >  1:1098307/1‑140 (MQ=255)
                       aGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAAt                                                                                                         <  2:397629/140‑1 (MQ=255)
                           aaGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGAt                                                                                                     <  1:937001/140‑1 (MQ=255)
                            aGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATg                                                                                                    >  2:1200766/1‑140 (MQ=255)
                            aGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATg                                                                                                    <  2:481885/140‑1 (MQ=255)
                            aGGAAAGTTGAACCAGACATTAGATGAAATATTTCAAACAATTACAGCACCAATTCAGTCACTGCCAACCCACCAAATAAATCAAGGGGTTACATCAAAACGCAGCCCCTTTTTCTTTGATAGTGACACTAAAATAGATg                                                                                                    <  2:1161812/140‑1 (MQ=255)
                              gAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCTACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTa                                                                                                  <  1:416780/140‑1 (MQ=255)
                                aaGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAgt                                                                                                <  1:571102/140‑1 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTa                                                                                                  <  2:1230556/135‑1 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTa                                                                                                  >  1:1230556/1‑135 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGtgtg                                                                                             <  2:1219087/140‑1 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGtgtg                                                                                             <  2:426244/140‑1 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGtgtg                                                                                             <  2:906315/140‑1 (MQ=255)
                                   ttGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGtgtg                                                                                             <  1:378287/140‑1 (MQ=255)
                                        ccAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTgaagaa                                                                                        >  1:386668/1‑140 (MQ=255)
                                          aGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGaata                                                                                      <  1:363643/140‑1 (MQ=255)
                                                   aTGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGttt                                                                             <  2:1098307/140‑1 (MQ=255)
                                                      aaaTATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACt                                                                          >  1:749910/1‑140 (MQ=255)
                                                      aaaTATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACt                                                                          <  2:135484/140‑1 (MQ=255)
                                                       aaTATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACt                                                                          <  2:613929/139‑1 (MQ=255)
                                                       aaTATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACt                                                                          >  1:613929/1‑139 (MQ=255)
                                                          atTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACtcaat                                                                      <  1:748970/140‑1 (MQ=255)
                                                          atTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACtcaat                                                                      <  2:288250/140‑1 (MQ=255)
                                                            ttCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACtcaatca                                                                    <  1:326097/140‑1 (MQ=255)
                                                              cAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTcaatcaat                                                                  <  2:749910/140‑1 (MQ=255)
                                                                aCCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACtcaat                                                                      >  1:612875/1‑134 (MQ=255)
                                                                aCCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACtcaat                                                                      <  2:612875/134‑1 (MQ=255)
                                                                           cACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTgat                                                    >  2:1141489/1‑138 (MQ=255)
                                                                           cACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGtt                                                    <  2:902812/140‑1 (MQ=255)
                                                                                aTTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAAt                                               >  1:471549/1‑140 (MQ=255)
                                                                                aTTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAAt                                               >  2:1147378/1‑140 (MQ=255)
                                                                                aTTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAAt                                               >  1:375374/1‑140 (MQ=255)
                                                                                    aGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTAc                                           <  1:1147378/140‑1 (MQ=255)
                                                                                    aGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTAc                                           <  2:386668/140‑1 (MQ=255)
                                                                                    aGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTAc                                           <  2:300928/140‑1 (MQ=255)
                                                                                     gTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCCTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACg                                          >  2:626944/1‑140 (MQ=255)
                                                                                           gCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGttatta                                    >  2:1016749/1‑140 (MQ=255)
                                                                                            ccAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAATAAATACATATTGTTTCAATCTACGttatta                                    >  2:818294/1‑140 (MQ=255)
                                                                                              aGCCCACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTAtct                                 <  1:1141489/140‑1 (MQ=255)
                                                                                                cccACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTAc                                           >  1:1090144/1‑128 (MQ=255)
                                                                                                cccACCAAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTAc                                           <  2:1090144/128‑1 (MQ=255)
                                                                                                    ccaAATAAATCAAGGGGTTACATGAAAACGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTATCTCTTTGt                           >  2:237865/1‑140 (MQ=255)
                                                                                                                            aaaaCGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTATCTCTTTGTAAAAATTGCCATTTATTAATCAtt   >  1:1178129/1‑140 (MQ=255)
                                                                                                                             aaaCGCAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTATCTCTTTGTAAAAATTGCCATTTATTAATCATTg  >  2:1011363/1‑140 (MQ=255)
                                                                                                                                  |                                                                                                                                       
GTAAGATCAAAAAACTTTCAGGCAGCTAAGGAAAGTTGAACCAGACATTAGATGAAATATTTCAACCAATTACAGCACCAATTCAGTCACTGCCAGCCCACCAAATAAATCAAGGGGTTACATGAAAACGTAGCCCCTTTTTCTTTGGTAGTGACACTAAAATGGATGTAGTGTGAAGAATAATCCCGTTTACTCAATCAAT‑AATACATATTGTTTCAATCTACGTTATTATCTCTTTGTAAAAATTGCCATTTATTAATCATTG  >  NC_000913/2783379‑2783643

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A