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
A17 F172 I0 R1 42 33.2 716278 96.8% 693357 139.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,481,355 G→T 100% A6890E (GCA→GAA)  ebh ← extracellular matrix binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,481,3550GT100.0% 79.5 / NA 28A6890E (GCA→GAA) ebhextracellular matrix binding protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (14/14);  total (14/14)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGCAGC  >  CP000730/1481223‑1481491
                                                                                                                                    |                                                                                                                                        
gCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGtt                                                                                                                                   <  1:83003/140‑1 (MQ=255)
            tCCTGAGCGTTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTCGGTTTTCATAGTTTTTAGCATCTGt                                                                                                                       <  1:178093/140‑1 (MQ=255)
            tCCTGAGCGGTTTGAATGGCTTGCGTTTCTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATCTTTGGTTTTCATTGTTTTTATCATCTGt                                                                                                                       <  1:225762/140‑1 (MQ=255)
             ccTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGCGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGCTTTTAGCATCTGtt                                                                                                                      >  2:76393/1‑140 (MQ=255)
               tGAGCGGTTTGTATGGTTTGCGTTTCTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTAc                                                                                                                    <  1:173532/140‑1 (MQ=255)
                               cTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACAATTc                                                                                                    >  1:121435/1‑140 (MQ=255)
                                  gCGTTACTTCAGCTACAGTGGGTGCTTGATTGATGGTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAAc                                                                                                 <  2:175846/140‑1 (MQ=255)
                                           cagttgcAGGGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTc                                                                                        <  2:53669/134‑1 (MQ=255)
                                             gCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTCAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGt                                                                                      >  1:56942/1‑140 (MQ=255)
                                              cTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTa                                                                                     <  1:135934/140‑1 (MQ=255)
                                                       gcgcTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACa                                                                            >  2:124209/1‑140 (MQ=255)
                                                       gcgaaagattgttGTTTCCAGTAACAGCACATTACTGTGCATTGTTTAAGTTATCTAACGTAGTGAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGACTGTTTCGTAGTTGTTACa                                                                            >  2:162340/7‑140 (MQ=255)
                                                             gcttgatTTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGaa                                                                      <  2:86826/138‑1 (MQ=255)
                                                                 gatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTGTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtg                                                                  >  2:129294/1‑140 (MQ=255)
                                                                  atGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtgc                                                                 >  1:109691/1‑140 (MQ=255)
                                                                      ttCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTgctgct                                                             >  1:290706/1‑140 (MQ=255)
                                                                       tCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCtt                                                            >  1:69727/1‑140 (MQ=255)
                                                                        ccAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATACTGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTc                                                           >  1:54802/1‑140 (MQ=255)
                                                                                  ttccTTTTTGTGTATTGTTTAAGTTATCTAACGTAGATAATTTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGAt                                                 <  1:135546/138‑1 (MQ=255)
                                                                                       ttttGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGACAGTGCTGCTTCAACTTGTggttggtt                                            >  1:54779/1‑140 (MQ=255)
                                                                                                 tGTTTAAGTTATCTAACGTANANAATNTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTa                                  <  1:193393/140‑1 (MQ=255)
                                                                                                        gTTATTTAATGTAAATAATTTTTGGTTTTCATTTTTTTTAGCATTTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTg                           <  1:22858/140‑1 (MQ=255)
                                                                                                              tAACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGAt                     >  1:305735/1‑140 (MQ=255)
                                                                                                                accaaGATAATGTTGGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATGCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATta                   >  2:130089/5‑140 (MQ=255)
                                                                                                                    aGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATtaataa               <  1:76393/140‑1 (MQ=255)
                                                                                                                       tAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCGATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACTATTTGCTTGATTAATAatat            <  1:217254/140‑1 (MQ=255)
                                                                                                                        agtGTTTGGTTTTCATTGTTTTTAGCATCTGCTACTTTTCTATCATCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATAtt           <  1:220342/138‑1 (MQ=255)
                                                                                                                        aaTGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATAtt           >  2:183592/1‑140 (MQ=255)
                                                                                                                            tttggttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTca       >  1:53771/1‑140 (MQ=255)
                                                                                                                            tttggttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTca       >  1:55364/1‑140 (MQ=255)
                                                                                                                                 ttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTcagcagc  <  1:266192/140‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                        
GCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTAACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCAGCAGC  >  CP000730/1481223‑1481491

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