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
A3 F50 I1 R1 300 54.7 1718999 98.4% 1691495 149.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,925,611 T→C D8G (GAC→GGC)  mnmG ← 5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,925,6110TC97.9% 151.0 / ‑4.1 47D8G (GAC→GGC) mnmG5‑methylaminomethyl‑2‑thiouridine modification at tRNA U34
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (18/28);  total (18/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.12e-01

CCCTTCCCAATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAAAGAAGATCTATTTATTTAGA  >  NC_000913/3925464‑3925759
                                                                                                                                                   |                                                                                                                                                    
ccctcccaaaccccgccgATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCaa                                                                                                                                                   <  1:247148/139‑1 (MQ=255)
cccTTCCCAATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCa                                                                                                                                                    >  2:433194/1‑150 (MQ=255)
       cAATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATc                                                                                                                                            >  2:299260/1‑151 (MQ=255)
        aaccccgccgATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCGGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATcc                                                                                                                                           <  1:620296/147‑1 (MQ=255)
               ccgATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATaaa                                                                                                                                    <  2:72161/151‑1 (MQ=255)
                cgATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATaaaa                                                                                                                                   <  1:223387/151‑1 (MQ=255)
                cgATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATaaa                                                                                                                                    >  2:147919/1‑150 (MQ=255)
                 gATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAAc                                                                                                                                  >  2:859460/1‑151 (MQ=255)
                 gATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAAc                                                                                                                                  >  1:143342/1‑151 (MQ=255)
                 gATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAAc                                                                                                                                  >  2:388925/1‑151 (MQ=255)
                     gCCGGTTCGCAGCTCATCTGCTCCAGGGTATCGATATGGCGTGTCAAAATCAGAGTTTGTTGCCCCATACACGCCCGGTCCATCGCGACTGCGCTGCCTGCAACACCCCCGCCAATGATGCTGACGCCAAAAGGATCCGGATAAAAc                                                                                                                                  <  1:178333/147‑1 (MQ=255)
                               aGCTCACCTGCCCCAGGGTGCCGATATTGTGTCTCAAAAGCATGGCCTGTTGACCAATACGCGCCGCGTCCATCCCGGCCTCGGTGCCTCAATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCt                                                                                                                     <  1:265600/150‑1 (MQ=255)
                                         ccccAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAAcgcg                                                                                                          >  1:119954/1‑151 (MQ=255)
                                                 tgtCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGaa                                                                                                   >  2:255933/1‑150 (MQ=255)
                                                  gtCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGaaa                                                                                                  >  2:856522/1‑150 (MQ=255)
                                                    cGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATg                                                                                               <  2:118432/151‑1 (MQ=255)
                                                    cGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATg                                                                                               >  2:506782/1‑151 (MQ=255)
                                                     gATGTTGTGTAACAAAAGAAGAATCTCGTAGCCCATCCGGGCCGCGGCCAGCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATgg                                                                                              <  2:324404/151‑1 (MQ=255)
                                                          tgtgtgTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTg                                                                                          >  1:495514/1‑150 (MQ=255)
                                                           gtgtgtAAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTGGGTGCATGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGaa                                                                                        <  1:775227/151‑1 (MQ=255)
                                                                  aaaaGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCggg                                                                                 <  2:109022/151‑1 (MQ=255)
                                                                     aGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCg                                                                              >  1:591297/1‑151 (MQ=255)
                                                                        agagTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTgg                                                                           >  2:588412/1‑151 (MQ=255)
                                                                              tGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCt                                                                      >  1:781325/1‑150 (MQ=255)
                                                                              tGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGGGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGAATGAAAATGGATTGAAGCCCGGGCCGTGGATTCt                                                                      >  2:417983/1‑150 (MQ=255)
                                                                               gTTGACCCATACGCGCCGCGGCCAGCGCGGCCTCGGTGCCTGCATGCCCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCt                                                                      <  1:203601/149‑1 (MQ=255)
                                                                                          cgcgCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTc                                                         >  1:713914/1‑151 (MQ=255)
                                                                                           gcgcCGCGGCCATCGGGGCGTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTc                                                         <  1:632154/150‑1 (MQ=255)
                                                                                              ccgcGGCAATCGCGGCCTCGGTGCTTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGc                                                      <  1:845290/150‑1 (MQ=255)
                                                                                                  ggCCATCGCGGCCTCGGTGCCTGCTTGCCCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTgag                                                 <  1:789445/151‑1 (MQ=255)
                                                                                                  ggCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTCGTCGGCTTga                                                  <  2:282135/150‑1 (MQ=255)
                                                                                                    ccATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGaa                                               <  2:264549/151‑1 (MQ=255)
                                                                                                     cATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTgaga                                                <  2:565371/149‑1 (MQ=255)
                                                                                                     cATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGaaa                                              <  2:171303/151‑1 (MQ=255)
                                                                                                             ccTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTggg                                      >  2:449134/1‑151 (MQ=255)
                                                                                                                 ggtcccgacATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGAt                                    <  1:501678/141‑1 (MQ=255)
                                                                                                                 ggggccgccatcccccccGCCAATGATGATGACGCAAAAAGGATCCGGAAAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATGGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGTTTGAAAAAGCCCt                                         <  1:10832/131‑1 (MQ=255)
                                                                                                                 ggTGCCTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGAt                                    <  2:730320/149‑1 (MQ=255)
                                                                                                                     ccTGCATGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTg                                <  1:351346/149‑1 (MQ=255)
                                                                                                                          aTGACCCCCGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTa                         <  2:599968/151‑1 (MQ=255)
                                                                                                                              cccccGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTaaaa                      <  1:257883/150‑1 (MQ=255)
                                                                                                                              cccccGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTaaaa                      <  1:680015/150‑1 (MQ=255)
                                                                                                                                cccGCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAaaga                   <  2:540789/151‑1 (MQ=255)
                                                                                                                                   gCCAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAaaga                   >  2:335206/1‑148 (MQ=255)
                                                                                                                                    ccAATGATGATGACGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAAAGAAGAt               <  1:103645/151‑1 (MQ=255)
                                                                                                                                               gaCGCCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAAAGAAGATCTatttattt     <  1:403652/150‑1 (MQ=255)
                                                                                                                                                aCGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCACA‑AACGCGGTATGAAAATGGATTGAAGGCCGGGCCGTGGATTCTACTCACCTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAAAGAAGATCTATTTATTTaga  <  2:615466/151‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                                    
CCCTTCCCAATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGTGCCTGCATGACCCCCGCCAATGATGATGACGTCAAAAGGATCCGGATAAAACATGGTGATTGCCTCGCATAACGCGGTATGAAAATGGATTGAAGCCCGGGCCGTGGATTCTACTCAACTTTGTCGGCTTGAGAAAGACCTGGGATCCTGGGTATTAAAAAGAAGATCTATTTATTTAGA  >  NC_000913/3925464‑3925759

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A