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
A4 F1 I1 R1 765 39.6 1867486 94.4% 1762906 108.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,970,351 G→A *230* (TAG→TAA)  mutH → methyl‑directed mismatch repair protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,970,3510GA100.0% 70.2 / NA 23*230* (TAG→TAA) mutHmethyl‑directed mismatch repair protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (11/12);  total (11/12)

ACCGAAGCCATTGGTGCCCGGGGCGAACGGATTCTGACGCTGCCACGCGGCTTTTATTTGAAGAAGAATTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAGCCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCGGTACGCTGACGCTGCTGGAG  >  NC_000913/2970241‑2970485
                                                                                                              |                                                                                                                                      
aCCGAAGCCATTGGTGCCCGGGGCGAACGGATTCTGACGCTGCCACGCGGCTTTTATTTGAAGAAGAATTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCggg                                                                                                            <  2:122172/139‑1 (MQ=255)
                             gATTCTGACGCTGCCACGCGGCTTTTATTTGAAGAAGAATTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCa                                                                               <  1:638347/139‑1 (MQ=255)
                                                    tttATTTGAAGAAGAATTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCa                                                        <  1:222096/139‑1 (MQ=255)
                                                            aagaagaaTTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTc                                                                                           <  2:58378/96‑1 (MQ=255)
                                                            aagaagaaTTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTc                                                                                           >  1:58378/1‑96 (MQ=255)
                                                                         ccAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGcc                                   <  1:701640/139‑1 (MQ=255)
                                                                               cACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGc                                                                           >  2:433694/1‑93 (MQ=255)
                                                                               cACTACTGGCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGc                                                                           <  1:433694/93‑1 (MQ=255)
                                                                                  tactGGCGCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTgcg                          <  2:20251/139‑1 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCggg                                                                                                            <  2:774659/52‑1 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCggg                                                                                                            >  1:774659/1‑52 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTa                                                                     <  2:234342/91‑1 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTa                                                                     >  1:234342/1‑91 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGc                                                         <  1:647785/103‑1 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGc                                                         >  2:647785/1‑103 (MQ=255)
                                                                                       gCCCGTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCgg                     >  1:174284/1‑139 (MQ=255)
                                                                                           gTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTcc                                                                                                               <  1:783805/45‑1 (MQ=255)
                                                                                           gTCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTcc                                                                                                               >  2:783805/1‑45 (MQ=255)
                                                                                            tCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCggg                                                                                                            >  2:900386/1‑47 (MQ=255)
                                                                                            tCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCggg                                                                                                            <  1:900386/47‑1 (MQ=255)
                                                                                            tCATTTTCTGATCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCGGTacgc                >  1:305829/1‑139 (MQ=255)
                                                                                                      aTCCAGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCACATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCGGTACGCTGACgctgct      >  2:846909/1‑139 (MQ=255)
                                                                                                          aGTAACCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCGGTACGCTGACGCTGCTGgag  >  2:666637/1‑139 (MQ=255)
                                                                                                              |                                                                                                                                      
ACCGAAGCCATTGGTGCCCGGGGCGAACGGATTCTGACGCTGCCACGCGGCTTTTATTTGAAGAAGAATTTCACCAGTGCACTACTGGCCCGTCATTTTCTGATCCAGTAGCCATCGCTTTGACCTGCCGCTTTCCGGGCATATAATTACCGCTTCATTTTTTTGGCAGGGCTTTTTAGATGTTATTTGCATGGATAACCGATCCTAACGCCTGGCTTGCGCTCGGTACGCTGACGCTGCTGGAG  >  NC_000913/2970241‑2970485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A