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
A13 F32 I40 R1 13 46.7 1511635 98.1% 1482913 146.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP009273 3,304,872 G→T R58S (CGC→AGC)  rpsO ← 30S ribosomal subunit protein S15

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092733,304,8720GT97.8% 131.7 / NA 46R58S (CGC→AGC) rpsO30S ribosomal subunit protein S15
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base T (26/18);  minor base C (0/1);  total (27/19)
Fisher's exact test for biased strand distribution p-value = 4.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTGAAAAAAGGGGCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCGCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCAGAAACGATTTTA  >  CP009273/3304727‑3305017
                                                                                                                                                 |                                                                                                                                                 
ttGAAAAAAGGGGCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCtcag                                                                                                                                                >  1:78010/1‑149 (MQ=255)
    aaaaaGGGGCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGa                                                                                                                                            >  1:43574/1‑149 (MQ=255)
     aaaaGGGGCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCTACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACATGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACTCTGAGAAACCATGCtca                                                                                                                                                 <  2:523361/143‑1 (MQ=255)
         ggggCCACTCAGGCCCCCTTTTCTGAAACTCACAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGCAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTcagcag                                                                                                                                             >  2:168764/1‑143 (MQ=255)
          gggCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTGACGTTTCAGGTAGTCGGGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCacga                                                                                                                                      >  1:263032/1‑149 (MQ=255)
           ggCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGCAACCATGCTCAGCAGaa                                                                                                                                           >  2:562689/1‑142 (MQ=255)
            gCCACTCAGGCCCCCTTTTTTTTTTTTTTCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTCGTCGAGCCGCTTACGACGCTGAGAACCCATGCTCAGCAGAcc                                                                                                                                          >  2:94210/1‑143 (MQ=255)
             ccACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACgg                                                                                                                                   >  1:656524/1‑149 (MQ=255)
                      cccccTTTTCTGAACCTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCCTGCTCAGCAGACCACGACGGCTGTGGTGa                                                                                                                          <  1:497677/149‑1 (MQ=255)
                             ttCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGAt                                                                                                                         <  2:439613/143‑1 (MQ=255)
                               cTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCCGTCCACGACGGGTGTGGTGATCTTTTTtg                                                                                                                 >  1:146701/1‑149 (MQ=255)
                                tGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTtgt                                                                                                                >  1:411198/1‑149 (MQ=255)
                                 gAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGCGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGGTCGTTCGtgtg                                                                                                               >  1:360802/1‑149 (MQ=255)
                                  aaaCTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAACCCATGCTCAGCAGACCACGACGGCTGTGGTGATCtttt                                                                                                                    >  2:201314/1‑143 (MQ=255)
                                  aaaCTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGc                                                                                                              >  1:550269/1‑149 (MQ=255)
                                     cTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTtg                                                                                                                 >  2:550513/1‑143 (MQ=255)
                                     cTCCCAAGAATTAGCCACGCAGCCCCAGGCGCTCCATGAGCTGGGCTTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCATGTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTtg                                                                                                                 <  2:258332/143‑1 (MQ=255)
                                             aaTTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGATGGCTGTGGTTATCTTTTTTGTGCTCTGCAAAGTg                                                                                                   <  1:399823/149‑1 (MQ=255)
                                                             ccAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCCCTGCAAAGTGGCCCTGCAgg                                                                                         >  2:617244/1‑143 (MQ=255)
                                                                       gATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCt                                                                               >  2:650346/1‑143 (MQ=255)
                                                                         tGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTc                                                                       >  1:483226/1‑149 (MQ=255)
                                                                           aGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTGGTCGGGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTcag                                                                     <  1:105536/149‑1 (MQ=255)
                                                                            gCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCa                                                                          <  2:78946/143‑1 (MQ=255)
                                                                            gCTGGGTGTAACGGGCTACGTATTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGATCTGCGAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTccgc                                                                    >  1:559482/1‑149 (MQ=255)
                                                                             ccgggTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTcagca                                                                   <  1:228521/147‑1 (MQ=255)
                                                                             cTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTcagca                                                                   <  1:707394/149‑1 (MQ=255)
                                                                             cTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTcagca                                                                   >  1:310792/1‑149 (MQ=255)
                                                                             cTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGGGGTTGATCTGTGCAGTcagca                                                                   >  1:389791/1‑149 (MQ=255)
                                                                                    gaaCGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTAc                                                            <  1:710718/148‑1 (MQ=255)
                                                                                      aCGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTg                                                                <  2:579089/143‑1 (MQ=255)
                                                                                            tACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCGGCGGTGCTCCCTGAACtt                                                    >  1:511994/1‑149 (MQ=255)
                                                                                               gTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGaa                                                       <  2:217183/143‑1 (MQ=255)
                                                                                               gTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCACAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCgg                                                 >  1:543869/1‑149 (MQ=255)
                                                                                                      cGTTTCAGGTAGTCGGGCAGTTTCCGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGt                                                <  2:381390/143‑1 (MQ=255)
                                                                                                           cAGGTAGTCGAGCAGTTTACGACGCTGCGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTGGATCTGTGCAGTCAGCAGTGCTACCTCATCTTGGGTAGAAc                                           <  2:222469/143‑1 (MQ=255)
                                                                                                              gTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTGGATCTGTGCCATCAGCAGGGCTACCTGAACTTCGCTGGAACggg                                        >  2:86314/1‑143 (MQ=255)
                                                                                                               tAGTCGAGCAGTTTACGACGCTGAGAAACCATGATCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCGGGTGGTTGATCTGTGCCGGCAGCAGTGCGACCTGAACTTGGGTCGAACCGgt                                       >  2:147373/1‑143 (MQ=255)
                                                                                                                aGTCGAGCAGTTTACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGttt                                <  1:63280/149‑1 (MQ=255)
                                                                                                                  tCGAGCAGTTTACGACCCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGc                              <  1:627013/149‑1 (MQ=255)
                                                                                                                       caacttACGACGCCCAGAAACCACGCCCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCAc                         <  1:288469/145‑1 (MQ=255)
                                                                                                                            tACGACGCTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCa                          <  2:490309/143‑1 (MQ=255)
                                                                                                                                   cTGAGAAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGATGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTGGCGCCGCGCCCAAACTCAg             >  1:706075/1‑149 (MQ=255)
                                                                                                                                     gagaAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCAGaa           >  1:216059/1‑149 (MQ=255)
                                                                                                                                      agaAACCATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGTTGTCGTTTGCGTCACGACCAAACTCAGaaa          <  1:414658/149‑1 (MQ=255)
                                                                                                                                        aaaCCATGCTGAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCa              <  2:68920/143‑1 (MQ=255)
                                                                                                                                           ccATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCAGAAACGAtt     >  1:550250/1‑149 (MQ=255)
                                                                                                                                            cATGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCAGAAACGAttt    >  1:205251/1‑149 (MQ=255)
                                                                                                                                              tGCTCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTGTGCGTCACGCCCAAACTCAGAGACGATTTTa  >  1:658371/1‑149 (MQ=255)
                                                                                                                                                 |                                                                                                                                                 
TTGAAAAAAGGGGCCACTCAGGCCCCCTTTTCTGAAACTCGCAAGAATTAGCGACGCAGACCCAGGCGCTCGATGAGCTGGGTGTAACGTGCTACGTCTTTACGTTTCAGGTAGTCGAGCAGTTTACGACGCTGAGAAACCATGCGCAGCAGACCACGACGGCTGTGGTGATCTTTTTTGTGCTCTGCAAAGTGGCCCTGCAGGTGGTTGATCTGTGCAGTCAGCAGTGCTACCTGAACTTCGGTAGAACCGGTGTCGTTTGCGTCACGACCAAACTCAGAAACGATTTTA  >  CP009273/3304727‑3305017

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