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
A12 F48 I1 R1 76 74.1 2532288 99.0% 2506965 139.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,311,556 C→A E163* (GAG→TAG)  alsB ← D‑allose ABC transporter periplasmic binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,311,5560CA97.7% 147.4 / ‑2.4 43E163* (GAG→TAG) alsBD‑allose ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base A (21/21);  total (22/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.99e-01

GTGGCGACATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTCAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCTTTTTTCAGATTATCCATGT  >  NC_000913/4311420‑4311690
                                                                                                                                        |                                                                                                                                      
gTGGCGACATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAAt                                                                                                                                     >  1:920613/1‑140 (MQ=255)
    cGACATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGAtt                                                                                                                                 >  2:519525/1‑140 (MQ=255)
     gACATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTg                                                                                                                                >  1:721202/1‑140 (MQ=255)
      aCATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGc                                                                                                                               >  1:1176699/1‑140 (MQ=255)
      aCATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGc                                                                                                                               >  1:116285/1‑140 (MQ=255)
      aCATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGc                                                                                                                               <  2:985382/140‑1 (MQ=255)
        aTCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGa                                                                                                                             <  2:116285/140‑1 (MQ=255)
          ccAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACt                                                                                                                           <  2:920613/140‑1 (MQ=255)
          ccAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACt                                                                                                                           <  2:621890/140‑1 (MQ=255)
               gCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTcacc                                                                                                                      <  2:721202/140‑1 (MQ=255)
                   tAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCt                                                                                                                  >  2:990013/1‑140 (MQ=255)
                    aaTGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCtt                                                                                                                 <  2:136865/140‑1 (MQ=255)
                       gCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAg                                                                                                              >  2:822036/1‑140 (MQ=255)
                         ggTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAgcg                                                                                                            <  1:589624/140‑1 (MQ=255)
                         ggTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAgcg                                                                                                            <  1:76236/140‑1 (MQ=255)
                              cAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCaa                                                                                                       <  2:120041/140‑1 (MQ=255)
                                ggcGGCAGGGTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCAACACCATCAGCGCCCAAtt                                                                                                     <  2:1075881/138‑1 (MQ=255)
                                gTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAAtt                                                                                                     >  1:451868/1‑140 (MQ=255)
                                     cAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCTGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCa                                                                                                >  2:648416/1‑140 (MQ=255)
                                     cAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCa                                                                                                >  1:75437/1‑140 (MQ=255)
                                     aaGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCa                                                                                                <  2:33208/139‑1 (MQ=255)
                                       ggctggctGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCaat                                                                                              <  2:964234/140‑1 (MQ=255)
                                           ggctggcGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATg                                                                                          <  1:822036/140‑1 (MQ=255)
                                           ggctggcGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATg                                                                                          >  1:451269/1‑140 (MQ=255)
                                                  gACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAacgacg                                                                                   <  1:907055/140‑1 (MQ=255)
                                                          tGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTc                                                                           <  2:1149152/140‑1 (MQ=255)
                                                                 gcttgcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCgc                                                                    >  1:380584/1‑139 (MQ=255)
                                                                 gcttgcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGa                                                                    >  2:1117427/1‑140 (MQ=255)
                                                                 gcttgcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGa                                                                    >  1:462181/1‑140 (MQ=255)
                                                                  cttgcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGAc                                                                   <  2:895036/140‑1 (MQ=255)
                                                                  cttgcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGAc                                                                   >  2:1231734/1‑140 (MQ=255)
                                                                     gcttTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGc                                                                <  2:451868/140‑1 (MQ=255)
                                                                            ttaaGGCTTCGGAGGCACCATTACGCCGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCACTTTTGGCCCCGACAGCAACGTTa                                                         >  2:838727/3‑140 (MQ=255)
                                                                             gAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTAt                                                        <  1:249191/140‑1 (MQ=255)
                                                                                                      cgcgCTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACAtt                               >  2:957729/1‑140 (MQ=255)
                                                                                                        cgcTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTgc                             >  1:2763/1‑140 (MQ=255)
                                                                                                        cgcTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTgc                             >  2:711413/1‑140 (MQ=255)
                                                                                                        cgcTTCACCGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTgc                             >  1:19848/1‑140 (MQ=255)
                                                                                                               ccGGAGGCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGc                      <  1:957729/140‑1 (MQ=255)
                                                                                                                   aGGAGTTACCAGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCACCAAATTTGTAAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCtttt                  <  2:324731/140‑1 (MQ=255)
                                                                                                                    ggCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCttttt                 <  1:990013/140‑1 (MQ=255)
                                                                                                                     gCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCATATTGCCGCCAGCtttttt                >  2:73943/1‑140 (MQ=255)
                                                                                                                     gCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCtttttt                <  1:1231734/140‑1 (MQ=255)
                                                                                                                     gCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCtttttt                >  1:180448/1‑140 (MQ=255)
                                                                                                                     gCGTTACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCtttttt                <  1:838727/140‑1 (MQ=255)
                                                                                                                        ttACCGGCTTTACCCTAAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCTTTTTTCAg             >  1:531114/1‑140 (MQ=255)
                                                                                                                                 ttACCCTCAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCTTTTTTCAGATTATCCAt    >  2:187136/1‑140 (MQ=255)
                                                                                                                                   agccTAAATGATGGCGTCTTCACCACCTTCATGGCCCAATTTGTCAATAATGAACCAGGCACCTTTCGCCCCTACAGCAACGGGATCGGCTGGGACAAAAGCTTCCGCATTGCCGCCAGGTTTTTTCAGATTATCCATGt  >  2:845547/3‑140 (MQ=255)
                                                                                                                                        |                                                                                                                                      
GTGGCGACATCCAGTGCTTTAATGCGGTCCCAGTCGGCAGGCTGGCTGGCGACAAGCTTGATCTGGCTTGCTTTTTTGAAGGCTTCGGTGGCACCATTACGACGCGCTTCACCGGAGGCGTTACCGGCTTTACCCTCAATGATTGCGACTTCACCACCTTCAGCGCCCAATTTGTCAATAATGAACGACGCGCCTTTCGCCCCGACAGCAACGTTATCGGTGGTGACAAAAGCTTCCACATTGCCGCCAGCTTTTTTCAGATTATCCATGT  >  NC_000913/4311420‑4311690

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A