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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 371,542 C→T Q102* (CAA→TAA)  mhpC → 2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913371,5420CT100.0% 147.9 / NA 46Q102* (CAA→TAA) mhpC2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (25/21);  total (25/21)

GATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAG  >  NC_000913/371413‑371672
                                                                                                                                 |                                                                                                                                  
gATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGata                                                                                                                           >  1:190230/1‑139 (MQ=255)
               gCGGGCTATCGGGTGATCCTGCTGGATTGTCCTGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGACTCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                               <  2:338011/136‑1 (MQ=255)
               gCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                               >  1:338011/1‑136 (MQ=255)
               gCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCAcc                                                                                                            >  2:190746/1‑139 (MQ=255)
                 gggCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACctg                                                                                                          <  2:1254914/139‑1 (MQ=255)
                       tCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGc                                                                                                    >  1:1447027/1‑139 (MQ=255)
                              aTCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGa                                                                                             <  2:190230/139‑1 (MQ=255)
                                      ggATTGTCAGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGGAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGc                                                                                     <  1:912196/139‑1 (MQ=255)
                                            tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGat                                                                                                                            <  1:1324020/94‑1 (MQ=255)
                                            tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGat                                                                                                                            >  2:1324020/1‑94 (MQ=255)
                                            tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                               >  2:92451/1‑107 (MQ=255)
                                            tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATcc                                                                                                               <  1:92451/107‑1 (MQ=255)
                                                      ggCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGt                                                                     <  2:1447027/139‑1 (MQ=255)
                                                      ggCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGt                                                                     >  1:1240775/1‑139 (MQ=255)
                                                      gacAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGt                                                                     <  2:1297082/137‑1 (MQ=255)
                                                           gagCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCAcc                                                                >  1:234246/1‑139 (MQ=255)
                                                                aTTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGTCAAAATcc                                                                                                               <  1:429250/87‑1 (MQ=255)
                                                                aTTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGTCAAAATcc                                                                                                               >  2:429250/1‑87 (MQ=255)
                                                                     gTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATa                                                                                 >  1:1053206/1‑112 (MQ=255)
                                                                     gTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATa                                                                                 <  2:1053206/112‑1 (MQ=255)
                                                                                tGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTc                                           >  2:479510/1‑139 (MQ=255)
                                                                                  gTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTggg                                                                                                     >  1:94577/1‑79 (MQ=255)
                                                                                  gTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTggg                                                                                                     <  2:94577/79‑1 (MQ=255)
                                                                                  gTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                         <  2:569540/139‑1 (MQ=255)
                                                                                  gTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                         >  1:569540/1‑139 (MQ=255)
                                                                                   ttCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTT‑AATGGCCGGAgcg                                               >  2:81934/1‑131 (MQ=255)
                                                                                   ttCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTT‑AATGGCCGGAgcg                                               <  1:81934/131‑1 (MQ=255)
                                                                                      gcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCaaa                                     >  1:1420279/1‑139 (MQ=255)
                                                                                                  tAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATg                         <  2:1240775/139‑1 (MQ=255)
                                                                                                    aTGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCa                                                                                   <  2:1100066/79‑1 (MQ=255)
                                                                                                    aTGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCa                                                                                   >  1:1100066/1‑79 (MQ=255)
                                                                                                        aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCAcc                                                                <  1:9045/94‑1 (MQ=255)
                                                                                                        aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCAcc                                                                >  2:9045/1‑94 (MQ=255)
                                                                                                        aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGggcggc                   >  2:1294933/1‑139 (MQ=255)
                                                                                                            aTCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTa               <  1:1294933/139‑1 (MQ=255)
                                                                                                             tCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTAc              >  2:419262/1‑139 (MQ=255)
                                                                                                                 gAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                         <  2:1032105/108‑1 (MQ=255)
                                                                                                                 gAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                         >  1:1032105/1‑108 (MQ=255)
                                                                                                                 gAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGggc          >  1:123722/1‑139 (MQ=255)
                                                                                                                       cGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGggcggc       <  2:1348217/136‑1 (MQ=255)
                                                                                                                       cGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGggcggc       >  1:1348217/1‑136 (MQ=255)
                                                                                                                         tggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCaaa                                     >  2:105708/1‑104 (MQ=255)
                                                                                                                         tggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCaaa                                     <  1:105708/104‑1 (MQ=255)
                                                                                                                         tggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAg  >  1:243036/1‑139 (MQ=255)
                                                                                                                          ggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCa                                                                                   >  1:982863/1‑57 (MQ=255)
                                                                                                                          ggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCa                                                                                   <  2:982863/57‑1 (MQ=255)
                                                                                                                                 |                                                                                                                                  
GATCCGCTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAG  >  NC_000913/371413‑371672

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A