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 F28 I1 R1 157 47.3 1607120 99.4% 1597477 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,093,358 (G)6→7 coding (483/1359 nt) dgcT → putative diguanylate cyclase DgcT

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,093,3521.G97.5% 135.3 / ‑3.3 40coding (477/1359 nt)dgcTputative diguanylate cyclase DgcT
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base G (19/20);  total (20/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01

CAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCATATGTTACCATAATGATTTTCATGTGGT  >  NC_000913/1093213‑1093485
                                                                                                                                            |                                                                                                                                      
cAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTtgttttttgttttt                                                                                                                                         >  1:706875/1‑140 (MQ=255)
   tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑ggg                                                                                                                                    >  2:196596/1‑140 (MQ=255)
   tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑ggg                                                                                                                                    <  2:15111/140‑1 (MQ=255)
    cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑gggg                                                                                                                                   <  2:520161/140‑1 (MQ=255)
        tattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑gggggggc                                                                                                                               <  1:460430/140‑3 (MQ=255)
          tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑gggggggccg                                                                                                                             >  2:547625/1‑136 (MQ=255)
             gTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATa                                                                                                                           >  1:466241/1‑140 (MQ=255)
               ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGt                                                                                                                         >  2:85658/1‑140 (MQ=255)
               ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGt                                                                                                                         >  1:753916/1‑140 (MQ=255)
                 cGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAGCAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTg                                                                                                                       >  2:706666/1‑140 (MQ=255)
                              tgtgCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTc                                                                                                          <  1:196596/140‑1 (MQ=255)
                              tgtgCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTc                                                                                                          >  1:504755/1‑140 (MQ=255)
                                tgCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTa                                                                                                        <  1:569175/140‑1 (MQ=255)
                                            tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATgaga                                                                                            >  1:202658/1‑140 (MQ=255)
                                               cTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGTCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCt                                                                                         >  1:127817/1‑140 (MQ=255)
                                               cTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCt                                                                                         <  2:644157/140‑1 (MQ=255)
                                               cTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCt                                                                                         >  2:156799/1‑140 (MQ=255)
                                                tGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTa                                                                                        <  1:706666/140‑1 (MQ=255)
                                                 ggCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTAc                                                                                       <  1:373280/140‑1 (MQ=255)
                                                      tGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTa                                                                                        <  1:314948/134‑1 (MQ=255)
                                                      tGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTa                                                                                        >  2:314948/1‑134 (MQ=255)
                                                       ggTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTa                                                                                 >  1:176187/1‑140 (MQ=255)
                                                       ggTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTac                                                                                >  2:155140/1‑140 (MQ=255)
                                                         tGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTaca                                                                               <  2:800623/140‑1 (MQ=255)
                                                         tGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTaca                                                                               <  2:486999/140‑1 (MQ=255)
                                                                  ttAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGa                                                                      >  1:21734/1‑140 (MQ=255)
                                                                  ttAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGa                                                                      >  1:286682/1‑140 (MQ=255)
                                                                     gTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGtt                                                                   >  1:6726/1‑140 (MQ=255)
                                                                        aaaaCACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAAc                                                                <  2:21734/140‑1 (MQ=255)
                                                                          aaCACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTg                                                                          >  2:184820/1‑128 (MQ=255)
                                                                          aaCACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTg                                                                          <  1:184820/128‑1 (MQ=255)
                                                                           acacAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCaa                                                             <  2:504755/140‑1 (MQ=255)
                                                                               aaaaCAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTg                                                                          <  2:175937/123‑1 (MQ=255)
                                                                               aaaaCAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTg                                                                          >  1:175937/1‑123 (MQ=255)
                                                                                       gcAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCaa                                                             <  2:275933/128‑1 (MQ=255)
                                                                                       gcAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCaa                                                             >  1:275933/1‑128 (MQ=255)
                                                                                        cAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAg                                                <  1:430318/140‑1 (MQ=255)
                                                                                                tttCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCa                                                 <  1:389124/131‑1 (MQ=255)
                                                                                                tttCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCa                                                 >  2:389124/1‑131 (MQ=255)
                                                                                                   ccAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCa                                                 <  2:470871/128‑1 (MQ=255)
                                                                                                   ccAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCa                                                 >  1:470871/1‑128 (MQ=255)
                                                                                                   ccAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGaa                                     >  2:677761/1‑140 (MQ=255)
                                                                                                   ccAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGaa                                     <  1:547625/140‑1 (MQ=255)
                                                                                                         aaaTGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTc                               <  2:342958/140‑1 (MQ=255)
                                                                                                          aaTGACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCa                              <  1:537841/140‑1 (MQ=255)
                                                                                                             gACTTTGTGCATAAGTTTGTTTTTTGTTTTTG‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCatat                           <  2:46761/140‑1 (MQ=255)
                                                                                                                                 tttttgtttttggGGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCATATGTTACCATAATGATTTTCa        <  2:772217/140‑1 (MQ=255)
                                                                                                                                     tgtttttg‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCATATGTTACCATAATGATTTTCATGTgg   >  2:183644/1‑140 (MQ=255)
                                                                                                                                     gtttttg‑‑gGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCATATGTTACCATAATGATTTTCATGTGGt  <  2:466241/138‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                      
CAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTGCATAAGTTTGTTTTTTGTTTTT‑‑GGGGGGCCGATAGTTGCTCACATACTTTCTAGTCATTATGAGAGCTACAATTTACACATTGCCGAGTTAACCAATGAAAATGGTCAGGTGGTTTGGAAAGCCTCATATGTTACCATAATGATTTTCATGTGGT  >  NC_000913/1093213‑1093485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A