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
A1 F50 I1 R1 775 316.5 10245680 97.2% 9958800 138.8

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑CAATTGATTTTTATGTCTTTTGAAATTCATCAATCCTGTTGACAATTAATCATCGGCATAGTATATCGGCATAGTATAATACGACAAGGTGAGGAACTAAACCCA  >  NZ_CP025268/3743140‑3743394
                                                                                                                                                       |                                                                                                        
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGCTGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.2365872/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCCAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.1157246/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.1186678/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.121475/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.4553071/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.4235581/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.2565614/151‑1 (MQ=60)
CGCGAAACAGACTCTGGCTTCCGGCCGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑C                                                                                                          <  SRR14920169.4670068/151‑1 (MQ=60)
 GCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTATCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑CC                                                                                                         <  SRR14920169.4577187/151‑1 (MQ=60)
         GACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATT                                                                                                  >  SRR14920169.791906/1‑151 (MQ=60)
         GACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGGGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATT                                                                                                  <  SRR14920169.4937741/151‑1 (MQ=60)
               GGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATG                                                                                            <  SRR14920169.2941230/151‑1 (MQ=60)
               GGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATG                                                                                            <  SRR14920169.2940762/151‑1 (MQ=60)
                               CTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCCTTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATTTCTTTTGAAATTCATC                                                                            >  SRR14920169.2841601/1‑151 (MQ=60)
                               CTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCTTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATC                                                                            >  SRR14920169.1881214/1‑151 (MQ=60)
                               CTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATC                                                                            >  SRR14920169.14956/1‑151 (MQ=60)
                                     TTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCag                                                                      >  SRR14920169.2428010/1‑149 (MQ=60)
                                         TGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattg                                                                  <  SRR14920169.999958/151‑7 (MQ=60)
                                            GCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgcct                                                               >  SRR14920169.3069558/1‑142 (MQ=60)
                                                      TCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaag                                                     <  SRR14920169.3532993/151‑20 (MQ=60)
                                                         CTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtga                                                  >  SRR14920169.1356834/1‑129 (MQ=60)
                                                              TTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgat                                             <  SRR14920169.506603/151‑28 (MQ=60)
                                                              TTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgat                                             <  SRR14920169.3201883/151‑28 (MQ=60)
                                                                     TCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttg                                      <  SRR14920169.1190942/151‑35 (MQ=60)
                                                                     TCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttg                                      <  SRR14920169.4188356/151‑35 (MQ=60)
                                                                     TCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttg                                      >  SRR14920169.3383017/1‑117 (MQ=60)
                                                                     TCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttg                                      <  SRR14920169.1297544/151‑35 (MQ=60)
                                                                     ACACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttg                                      <  SRR14920169.4514575/151‑35 (MQ=60)
                                                                         TTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaat                                  <  SRR14920169.3343380/151‑39 (MQ=60)
                                                                                   ATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgc                        <  SRR14920169.3973039/151‑49 (MQ=60)
                                                                                            CGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaa               >  SRR14920169.4588129/1‑94 (MQ=60)
                                                                                             GTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcagattgaaat              >  SRR14920169.4795848/1‑93 (MQ=60)
                                                                                              TCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaatt             >  SRR14920169.851766/1‑92 (MQ=60)
                                                                                              TCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaatt             >  SRR14920169.555330/1‑92 (MQ=60)
                                                                                               CCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattt            >  SRR14920169.1844419/1‑91 (MQ=60)
                                                                                                  GATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTTATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtggtcgatatatttgaaatcaagtttcgcatattgaaattttaa         >  SRR14920169.2089429/1‑88 (MQ=60)
                                                                                                  GATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTATTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattttaa         >  SRR14920169.2089741/1‑88 (MQ=60)
                                                                                                    TGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattttaagc       >  SRR14920169.1747690/1‑86 (MQ=60)
                                                                                                         GCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATCagattgccttgttaaaaagtgatcgatatatttgaaatcaagtttcgcatattgaaattttaagccaaaa  >  SRR14920169.979203/1‑81 (MQ=60)
                                                                                                                GTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.951017/1‑74 (MQ=60)
                                                                                                                GTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.2795655/1‑74 (MQ=60)
                                                                                                                  GTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.1265621/1‑72 (MQ=60)
                                                                                                                  GTGCCGTAGTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.1265457/1‑72 (MQ=60)
                                                                                                                          GTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.4339917/1‑64 (MQ=60)
                                                                                                                          GTTCACGATCTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.614607/1‑64 (MQ=60)
                                                                                                                                   CTCGACAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.3149005/1‑55 (MQ=60)
                                                                                                                                        CAGATAATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        <  SRR14920169.3703032/50‑1 (MQ=60)
                                                                                                                                             AATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        <  SRR14920169.139729/45‑1 (MQ=60)
                                                                                                                                              ATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.1075516/1‑44 (MQ=60)
                                                                                                                                              ATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.4220949/1‑44 (MQ=60)
                                                                                                                                              ATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.173772/1‑44 (MQ=60)
                                                                                                                                              ATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.2025508/1‑44 (MQ=60)
                                                                                                                                              ATTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.2350230/1‑44 (MQ=60)
                                                                                                                                               TTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.4393352/1‑43 (MQ=60)
                                                                                                                                               TTTATAACCAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        >  SRR14920169.1687385/1‑43 (MQ=60)
                                                                                                                                                       CAATTGATTTTTATGTCTTTTGAAATTCATCAATC                                                                        <  SRR14920169.5073331/35‑1 (MQ=60)
                                                                                                                                                       |                                                                                                        
CGCGAAACAGACTCTGGCTTCCGGCTGGACGCTCTTTTTCCTGCGCCATCTCGTTCTCTTTTTTTCCCATCACTTCTTTCCCCATTTTGTCGCGTCCTGATGGTAGCGCAAAGTGTGCCGTAGTTCACGATCTCGACAGATAATTTATAA‑CAATTGATTTTTATGTCTTTTGAAATTCATCAATCCTGTTGACAATTAATCATCGGCATAGTATATCGGCATAGTATAATACGACAAGGTGAGGAACTAAACCCA  >  NZ_CP025268/3743140‑3743394

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑