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
A5 F50 I2 R1 139 64.5 2139856 92.7% 1983646 149.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,213,764 C→T R240C (CGC→TGC)  rpoD → RNA polymerase, sigma 70 (sigma D) factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,213,7640CT100.0% 215.4 / NA 56R240C (CGC→TGC) rpoDRNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (25/31);  total (25/31)

GATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTGATCATGA  >  NC_000913/3213620‑3213911
                                                                                                                                                |                                                                                                                                                   
taTGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTc                                                                                                                                               >  2:734198/2‑151 (MQ=255)
gATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTc                                                                                                                                               >  1:15577/1‑151 (MQ=255)
gATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTc                                                                                                                                               >  1:837265/1‑151 (MQ=255)
   gACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACg                                                                                                                                            <  2:542267/151‑1 (MQ=255)
    aCGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGc                                                                                                                                           <  1:437305/151‑1 (MQ=255)
        aGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTAcc                                                                                                                                       <  1:572422/151‑1 (MQ=255)
        aGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTAcc                                                                                                                                       >  2:669767/1‑151 (MQ=255)
                 cGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGaa                                                                                                                              <  2:239653/151‑1 (MQ=255)
                  gaagaaGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGa                                                                                                                               >  1:911369/1‑149 (MQ=255)
                   aagaagATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAaga                                                                                                                            <  1:657409/151‑1 (MQ=255)
                   aagaagATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTAAGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAgg                                                                                                                                >  2:1029072/1‑147 (MQ=255)
                      aagaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAag                                                                                                                             >  2:471997/1‑147 (MQ=255)
                       agaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAag                                                                                                                             >  1:440779/1‑146 (MQ=255)
                        gaTGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATc                                                                                                                        <  2:924685/150‑1 (MQ=255)
                            gCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGa                                                                                                                    >  2:970889/1‑150 (MQ=255)
                             cGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGaaa                                                                                                                  <  2:108364/151‑1 (MQ=255)
                                              atgatgACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGGGGAACTACGCGCTCAGGAAGTTGTAAAGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGCGATCCTGAAACTGTCTGAAGTATTCa                                                                                                  >  2:1016414/1‑150 (MQ=255)
                                                gatgaCAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCaaa                                                                                                <  2:69520/150‑1 (MQ=255)
                                                 atgaCAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAAc                                                                                               >  2:295312/1‑150 (MQ=255)
                                                   gaCAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAg                                                                                             <  1:102047/150‑1 (MQ=255)
                                                   gaCAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGt                                                                                            >  1:1004838/1‑151 (MQ=255)
                                                       acaGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCg                                                                                        <  2:618324/151‑1 (MQ=255)
                                                              cGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTg                                                                                 <  1:472022/151‑1 (MQ=255)
                                                              cGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTg                                                                                 <  2:111953/151‑1 (MQ=255)
                                                                aCCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGcc                                                                               >  2:349221/1‑151 (MQ=255)
                                                                 cccGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCg                                                                              <  2:200483/151‑1 (MQ=255)
                                                                     gAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGc                                                                          <  1:1056288/151‑1 (MQ=255)
                                                                          ggCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGttt                                                                     <  1:474576/151‑1 (MQ=255)
                                                                          ggCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGttt                                                                     <  2:7947/151‑1 (MQ=255)
                                                                           gCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTg                                                                    >  2:1018380/1‑151 (MQ=255)
                                                                              cgcgAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGAc                                                                  <  1:858382/150‑1 (MQ=255)
                                                                                   aaaaTTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTg                                                            <  1:237360/151‑1 (MQ=255)
                                                                                     aaTTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGt                                                          >  2:206711/1‑151 (MQ=255)
                                                                                                  aCGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATgcgc                                             >  1:477196/1‑151 (MQ=255)
                                                                                                   cgcgCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGcgcg                                            <  1:675798/151‑1 (MQ=255)
                                                                                                      gcTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCa                                                                         <  1:983201/119‑1 (MQ=255)
                                                                                                      gcTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCa                                                                         >  2:983149/1‑119 (MQ=255)
                                                                                                             aCGTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATgg                                   >  1:1069205/1‑150 (MQ=255)
                                                                                                               gTTGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGAcc                                <  1:728482/151‑1 (MQ=255)
                                                                                                                 tGTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACcgc                              >  1:1041498/1‑151 (MQ=255)
                                                                                                                  gTAACGCGTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACcgc                              <  2:368492/150‑1 (MQ=255)
                                                                                                                       gcgTGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGt                        <  2:924568/151‑1 (MQ=255)
                                                                                                                          tGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACg                     >  2:252251/1‑151 (MQ=255)
                                                                                                                          tGACACCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACg                     >  1:771293/1‑151 (MQ=255)
                                                                                                                              acCATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCa                   >  1:303425/1‑149 (MQ=255)
                                                                                                                                cATCAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGa                >  1:651712/1‑150 (MQ=255)
                                                                                                                                   cAAAGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGt            <  2:965291/151‑1 (MQ=255)
                                                                                                                                    aaaGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTc           <  1:715881/151‑1 (MQ=255)
                                                                                                                                     aaGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACa                                                     >  1:930333/1‑108 (MQ=255)
                                                                                                                                     aaGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACa                                                     <  2:930286/108‑1 (MQ=255)
                                                                                                                                     aaGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCt          <  2:898490/151‑1 (MQ=255)
                                                                                                                                      aGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTg         <  1:170245/151‑1 (MQ=255)
                                                                                                                                      aGCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTg         <  2:1041443/151‑1 (MQ=255)
                                                                                                                                       gCGAAAGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTg         >  2:914367/1‑150 (MQ=255)
                                                                                                                                           aaGGTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTGATCAt    <  1:630230/151‑1 (MQ=255)
                                                                                                                                             ggTTGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTGATCATGa  <  2:537319/151‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                                   
GATGACGAAGATGAAGACGAAGAAGATGGCGATGACGACAGCGCCGATGATGACAACAGCATCGACCCGGAACTGGCTCGCGAAAAATTTGCGGAACTACGCGCTCAGTACGTTGTAACGCGTGACACCATCAAAGCGAAAGGTCGCAGTCACGCTACCGCTCAGGAAGAGATCCTGAAACTGTCTGAAGTATTCAAACAGTTCCGCCTGGTGCCGAAGCAGTTTGACTACCTGGTCAACAGCATGCGCGTCATGATGGACCGCGTTCGTACGCAAGAACGTCTGATCATGA  >  NC_000913/3213620‑3213911

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A