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
A16 F57 I0 R4 226 68.5 3221688 95.0% 3060603 125.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,897 C→T 100% N237N (AAC→AAT)  U712_19195 → putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,8970CT100.0% 197.9 / ‑6.6 60N237N (AAC→AAT) U712_19195putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base T (30/29);  minor base G (0/1);  total (30/30)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTTCATTTCCGGCTTCGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTCATGATGGGCTGGATGTATTACACGCTCAATCCCGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTG  >  CP006881/3723768‑3724022
                                                                                                                                 |                                                                                                                             
ctttATTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACcgcg                                                                                                                      >  4:151475/1‑139 (MQ=255)
   taTTTCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCggg                                                                                                                    <  2:277068/137‑1 (MQ=255)
     tttCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGGACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTTCGCTCGGCAATCTGACCGCGGGaa                                                                                                                  <  1:46410/138‑1 (MQ=255)
     tttCCGGCTTTGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATAGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGaa                                                                                                                  <  6:159786/138‑1 (MQ=255)
            cTTTGAACACAGCATTGACAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTatg                                                                                                          <  8:396948/139‑1 (MQ=255)
                 aaCACAGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATggg                                                                                                     <  4:347179/139‑1 (MQ=255)
                   cacaTCATTGCCTATATGTGCACATTCTCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCt                                                                                                   <  7:338065/139‑1 (MQ=255)
                   cacaGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCt                                                                                                   <  1:260799/139‑1 (MQ=255)
                   cacaGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCt                                                                                                   <  4:269693/139‑1 (MQ=255)
                     caGCATTGCCTATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 <  3:317369/139‑1 (MQ=255)
                     caGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 <  3:151475/139‑1 (MQ=255)
                     caGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 <  5:307755/139‑1 (MQ=255)
                     caGCATTGCCAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTg                                                                                                  >  7:390974/1‑138 (MQ=255)
                       gCATTGACAATATGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGAt                                                                                               <  6:42779/139‑1 (MQ=255)
                          ttGCCAATCTGTGCACATTCGCCAGCTCGCGTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTa                                                                                            <  8:340813/139‑1 (MQ=255)
                                atatGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGAt                                                                                               >  8:238013/1‑130 (MQ=255)
                                atatGTGCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGAt                                                                                               <  7:238013/130‑1 (MQ=255)
                                      gCACATTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGaa                                                                                >  5:162441/1‑139 (MQ=255)
                                       cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 >  1:116100/1‑121 (MQ=255)
                                       cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 <  2:116100/121‑1 (MQ=255)
                                       cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAAt                                                                               >  3:268857/1‑139 (MQ=255)
                                       cacaTTCGCCATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAAt                                                                               >  7:345228/1‑139 (MQ=255)
                                               ccATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATgg                                                                                                      >  8:136955/1‑108 (MQ=255)
                                               ccATCTCGCTTTTGATCGAGCACCCTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATgg                                                                                                      <  7:136955/108‑1 (MQ=255)
                                                      gcTTTTGATCGAGCACCCTGATACAGTGACACTGAGGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTCACCGCGGTAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATaaaaa                                                                <  8:250680/138‑1 (MQ=255)
                                                                       cTGATACAGTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACt                                               <  5:361582/139‑1 (MQ=255)
                                                                               gTGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGc                                         >  7:108979/1‑137 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACcgc                                                                                                                       >  1:64579/1‑58 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACcgc                                                                                                                       <  2:64579/58‑1 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGaa                                                                                                                  <  5:256795/63‑1 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 >  8:76599/1‑80 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTgg                                                                                                 <  7:76599/80‑1 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCa                                                        >  1:347590/1‑121 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCa                                                        <  2:347590/121‑1 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACt                                               <  3:268375/130‑1 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACt                                               >  4:268375/1‑130 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg                                      >  8:137790/1‑139 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg                                      >  4:235552/1‑139 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg                                      >  4:94546/1‑139 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg                                      >  6:7679/1‑139 (MQ=255)
                                                                                tGACACTGATGGGAGCAGTCAGAAACTTAATCCCCGTTACGATCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAg                                      >  5:305555/1‑139 (MQ=255)
                                                                                  acactgaTGGGAGCAGTCAGAACCTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGt                                     >  8:25092/7‑138 (MQ=255)
                                                                                  acactgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGt                                     >  6:233140/7‑138 (MQ=255)
                                                                                  acactgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGt                                     >  5:403471/7‑138 (MQ=255)
                                                                                    actgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCa                                                        <  8:253040/113‑1 (MQ=255)
                                                                                    actgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCa                                                        >  7:253040/5‑117 (MQ=255)
                                                                                    actgaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCaa                                  <  3:94546/135‑1 (MQ=255)
                                                                                       gaTGGGAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTACCAGAGATCACTCCCGGCAAGTCAAAGc                               >  3:231135/2‑139 (MQ=255)
                                                                                          gtgAGCAGGCAGACACTTAATCCCGGTTACGCTCGGCAAGCTGCCCGCGGTATTCGTTATGATGGGCGGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGt                            <  6:22052/137‑1 (MQ=255)
                                                                                           ggAGCAGTCAGAAACTTAATCCCCGTTACGCTCGGCAATATGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGt                            <  7:137790/138‑1 (MQ=255)
                                                                                                  tCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTcc                      >  1:79273/1‑137 (MQ=255)
                                                                                                  tCAGAAACTTAATCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTcc                      >  5:22052/1‑137 (MQ=255)
                                                                                                  tCAGAAACTTAATCACCGTTACGCTCGCCAATCTGACCGCGGGAATAGATATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGTTAATTcc                      >  5:327813/1‑137 (MQ=255)
                                                                                                            aaTCCCCGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTg           >  3:261922/1‑138 (MQ=255)
                                                                                                                cccGTTACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGAc      <  4:261922/139‑1 (MQ=255)
                                                                                                                  cGTTACGCGCGGCAATCTGACCGCGGGAATAGTTATGAGGGGCTGTATGTACTACACACTGAATCCTGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGc    <  6:162441/139‑1 (MQ=255)
                                                                                                                    ttACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAACACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGa          <  4:390093/131‑1 (MQ=255)
                                                                                                                    ttACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGa          >  3:390093/1‑131 (MQ=255)
                                                                                                                    ttACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTg  >  7:220292/1‑139 (MQ=255)
                                                                                                                    ttACGCTCGGCAATCTGACCGCGGGAATAGTTATGATGGGCTGGATGTACTACACACTGAATCCTGATCAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTg  >  1:397764/1‑139 (MQ=255)
                                                                                                                                 |                                                                                                                             
CTTCATTTCCGGCTTCGAACACAGCATTGCCAATATGTGCACATTCGCCATCTCACTTTTGATCGAGCACCCTGATACAGTGACAGTAATGGGAGCAGTCAGAAACTTAATTCCCGTTACACTCGGCAACCTGACCGCGGGAATGGTCATGATGGGCTGGATGTATTACACGCTCAATCCCGATAAATAAAAAAACTTCCAGAGATCACTCCCTGCAAGTCAAAGCGGTTATTCCGAGAGATCTTGAAGACGCTG  >  CP006881/3723768‑3724022

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A