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
A8 F28 I1 R1 182 57.1 1926220 99.1% 1908884 138.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,619,272 T→C R27R (CGT→CGC)  rhsB → rhs element protein RhsB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,619,2720TC100.0% 73.5 / NA 27R27R (CGT→CGC) rhsBrhs element protein RhsB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/15);  total (12/15)

CTTTTTCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGTATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCTGCT  >  NC_000913/3619142‑3619349
                                                                                                                                  |                                                                             
cTTTTTCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTTTTTAGGGGTTAGCCGGGGGACGCATTGGTGcc                                                                      >  2:469703/1‑140 (MQ=25)
    ttCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCa                                                                  <  1:295273/140‑1 (MQ=255)
    ttCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCa                                                                  <  1:351729/140‑1 (MQ=255)
    ttCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCa                                                                  <  1:103173/140‑1 (MQ=255)
           gAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTTAGGGTTGAGGCGGGGGACGCATTTGGGCCCCCACCcgcgg                                                           >  2:956151/1‑139 (MQ=21)
                  cTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGt                                                    <  2:74362/140‑1 (MQ=255)
                  cTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGt                                                    >  1:944243/1‑140 (MQ=255)
                   tGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTTTTCAAGGTTCAGCCGGGGGACGCATTGGTGCCCCCACCCGCGTGGGCCGtt                                                   >  2:887390/1‑140 (MQ=18)
                     tCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTTAGGGGTCAGCCGGGGGACGCATTGGTGCCCCCACCGGCGGGGCCTGTTCg                                                 >  2:435654/1‑140 (MQ=18)
                      cATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGGACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCgg                                                >  1:654013/1‑140 (MQ=255)
                       aTTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCCCCGGCGTGGCCTGTTCGgt                                               >  2:394611/1‑140 (MQ=255)
                        ttAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGgtg                                              <  1:664066/140‑1 (MQ=255)
                         tAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGgtgt                                             >  2:822919/1‑140 (MQ=255)
                         tAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAACATTGTTTCGGGGTCAGCCGGGGGACGCCTTGGTGCCCCCCCCCGCGTGGGCCGTTCggggg                                             >  2:236024/1‑137 (MQ=17)
                             ataataGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTgg                                                         >  1:516616/1‑124 (MQ=255)
                             ataataGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTgg                                                         <  2:516616/124‑1 (MQ=255)
                             ataataGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGccc                                         <  1:236024/140‑1 (MQ=255)
                               aataGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGGACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGGGTGccccc                                       >  2:880478/1‑139 (MQ=255)
                                 taGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCcggc                                     <  1:435654/140‑1 (MQ=255)
                                     aaaGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAg                                 >  1:909035/1‑140 (MQ=255)
                                              tACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGGACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGGGTGCCCCCGCGGGGTGACGTccc                        >  2:505973/1‑139 (MQ=11)
                                                   tGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCAt                   >  2:497650/1‑140 (MQ=25)
                                                         gAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTc             <  2:944243/140‑1 (MQ=21)
                                                          aaaaCCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCa            <  2:264608/140‑1 (MQ=21)
                                                          aaaaCCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCa            <  1:394611/140‑1 (MQ=21)
                                                          aaaaCCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCa            <  2:909035/140‑1 (MQ=21)
                                                               cggcggCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGGACGCCTTGGTGCCCCCCCCCGCGTGGGCTGTTCGGTGTGCCCCCGCGGAGGGACGGCCGGCCCTCCCGGCAATccc       >  2:5933/1‑140 (MQ=11)
                                                                 gcggcgCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGGTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCt     >  2:154722/1‑140 (MQ=21)
                                                                    gcgcGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCTGCt  <  1:880478/140‑1 (MQ=17)
                                                                    gcgcGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCTGCt  <  1:822919/140‑1 (MQ=17)
                                                                    gcgcGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGCATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCTGCt  <  1:956151/140‑1 (MQ=17)
                                                                                                                                  |                                                                             
CTTTTTCGTATGAAGATACTGTCATTAAAATAATAGAAAAGGATTTTACGATGAGCGGAAAACCGGCGGCGCGTCAGGGTGACATGACGCAGTATGGCGGTAGCATTGTTCAGGGTTCAGCCGGGGTACGTATTGGTGCCCCCACCGGCGTGGCCTGTTCGGTGTGCCCCGGCGGAGTGACGTCCGGCCATCCGGTCAATCCCCTGCT  >  NC_000913/3619142‑3619349

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A