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 F1 I1 R1	6081	0.0	0	0.0%	0	0.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output

AATTCACAAATATCTAATGAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATTAAAAGGGCCAATAAAAGTATCATTCAGGTGTTCAGTACTTTAGGAAATGATGAAAATATTTAACTAGCTCAAAAGTA‑AATGAAGTTTAATAACTATTAGTTTCTTGCTTGACATGGATTTGCCCTACGATTCAGGATATTTTAAAAAGTTCTTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑T‑C‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATTTACGTTAAAACAGTGAAAATACCACATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTTTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGGACGTCTCTCTAGAGGTCGTCTCTCCGTCTGAACATACGCACTGTT  >  BK006934/382435‑383012

AATTCACAAATATCTAATGAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑T‑C‑Ccta                                                                                                                                                                                                                                                                                         >  SRR13385771.986423/1‑297 (MQ=60)

        AATATCTAATGAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATCATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCAC                                                                                                                                                                                                                                                                               <  SRR13385771.56662/301‑1 (MQ=60)

          TATCTAATGAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTATAGTAGTACATGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACAT                                                                                                                                                                                                                                                                             >  SRR13385771.25840/1‑301 (MQ=60)

              TAATGAGTATTACTAATGATATCCTCAATATATTTTATAACCAGAGTTCTTATTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTATCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑T‑CAC‑T‑AATCGTCCACATACCC                                                                                                                                                                                                                                                                         >  SRR13385771.1395930/1‑301 (MQ=60)

                  GAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCATGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTT                                                                                                                                                                                                                                                                     >  SRR13385771.1513854/1‑301 (MQ=60)

                                    CCTCAATATATTTTCTAACCAGAGTTCTTATTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCC                                                                                                                                                                                                                                                                         <  SRR13385771.1745934/279‑1 (MQ=60)

                                                                  TTATAAGGGCCAATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAAC                                                                                                                                                                                                                       >  SRR13385771.412789/1‑299 (MQ=60)

                                                                        GGGACAATAAAAGTATCCTTCAGGTGTTAAGTACTTTGAGAAATGATGAAAATATTTAGCTAGATCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAA                                                                                                                                                                                                               <  SRR13385771.1299552/301‑1 (MQ=60)

                                                                             AATAAAAGTATCCTTCAGGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACC                                                                                                                                                                                                           >  SRR13385771.721007/1‑300 (MQ=60)

                                                                                      ATCCTTCATGTGTTCAGTACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTA                                                                                                                                                                                                 <  SRR13385771.1307593/301‑1 (MQ=60)

                                                                                                       TACTTTGAGAAATGATGAAAATATTTAGCTAGCTCAAACGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTATTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAAC                                                                                                                                                                                >  SRR13385771.697386/1‑301 (MQ=60)

                                                                                                           ttgaGAAATGAGGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAAT                                                                                                                                                                             <  SRR13385771.1128106/296‑1 (MQ=60)

                                                                                                                AAATGATGAAAATATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTCATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTCTTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGCAAATACCATATCAATTAAGATATACATTGTCAACAATATGGCT                                                                                                                                                                       >  SRR13385771.121899/1‑301 (MQ=60)

                                                                                                                AAATGATGAAAATATTGAGCTAGCTCAAAAGTAGAATGAAGTTGAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAAGTACACTCTCACGCCCTAATGGAGATAAATAACATGGTGTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGAGTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGAT                                                                                                                                                                       <  SRR13385771.1793386/301‑1 (MQ=60)

                                                                                                                             ATTTAGCTAGCTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGT                                                                                                                                                           <  SRR13385771.93835/300‑1 (MQ=60)

                                                                                                                                       CTCAAAAGTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACG                                                                                                                                                >  SRR13385771.533988/1‑301 (MQ=60)

                                                                                                                                              GTAGAATGAAGTTTAATAACTATTAAATTCTTGCTTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATT                                                                                                                                         <  SRR13385771.894626/301‑1 (MQ=60)

                                                                                                                                                                                TTGACATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCGGAGTTCATTTCTACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCC                                                                                                       >  SRR13385771.908247/1‑301 (MQ=60)

                                                                                                                                                                                     ATGGATTTGCCTTACGATTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGCTTGTCTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATACTTCTACCTCTCTTGCTGGACAGCCTTCCCTCCCCCTGGCGG                                                                                                  >  SRR13385771.1605034/1‑301 (MQ=60)

                                                                                                                                                                                                      TTCAGGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATC                                                                                       <  SRR13385771.1111162/295‑1 (MQ=60)

                                                                                                                                                                                                          GGATATTTTAAAA‑‑TTTCTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCGAAGGGAGATAAATAACATGGTTGGTTTAT‑T‑A‑T‑TGAATCGTCCACATACCCATTATTACTGATGGGTTTTTTGAGTAATCTCCTTCAATATAAGTTAAAACAGTGAAAATAACATATCAATGAAGATATAAATTGTCAACAATATGGATGTATATATGATGTAATTTAGATGAATAATTCTACCTCTCTTGGTGGAAAGCCTTagctgatggcggcggaacaaataatattgctcaat                                                                              >  SRR13385771.1339845/1‑265 (MQ=60)

                                                                                                                                                                                                                             TTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTT                                                            >  SRR13385771.506991/1‑301 (MQ=60)

                                                                                                                                                                                                                                            TACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑T‑C‑CAT‑AATCGTCCACATACACATTATTACTGATTGATTTTTTGATTAATATAATTAAATCTACGTTAAAACAGTGAAAATACCATATCAATTACGCACTACATCGTCAACAATATGGATGTATCTATGAGTTCATTTCGACGAATAATTATAACTCTCTTGGTGGAAAACCTTCCCTCCCCCTGGCGGAACCCATCATAACGTCGAACAACTAAACCGTCAGCGTTGCCGCACCAACGAAC                                             >  SRR13385771.1866997/1‑301 (MQ=60)

                                                                                                                                                                                                                                                  TGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCCATTAAGATATAAATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGcacgacccc                                       >  SRR13385771.1207619/1‑292 (MQ=60)

                                                                                                                                                                                                                                                         ATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGAACGTCTCTCTAGAGG                                >  SRR13385771.937449/1‑301 (MQ=60)

                                                                                                                                                                                                                                                           TACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCGTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAAAAACTAAACCGTCAGCGTTGCCGCACCGACGAACGTCTCTCTAGAGGT                               <  SRR13385771.925927/300‑1 (MQ=60)

                                                                                                                                                                                                                                                                     CGCCCTAATGGAGATAAATAACATGGTTTGTCTATGC‑C‑C‑T‑AATCGTCCACATACCAATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTACGTTAAAACAGTGAAAATACCATATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGAACGTCTATCTAGAGGTCGTCTCTCCGT                    <  SRR13385771.225208/301‑1 (MQ=60)

                                                                                                                                                                                                                                                                                       TAACATGGTTTGTCTAT‑TCC‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATCTCCGTTAAAACAGTGAAAATACCATATCAATTAAGATCTACATTGTCAACAATATGGATGTATCTCTGCGTTCATTTCGACGAATAATTCTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGAACGTCTCTCTACAGGTCGTCTCTCCGTCTGAACATACGCACTGTT  >  SRR13385771.1453904/1‑301 (MQ=60)

AATTCACAAATATCTAATGAGTATTACTAATGATATCCTCAATATATTTTCTAACCAGAGTTCTTATTAAAAGGGCCAATAAAAGTATCATTCAGGTGTTCAGTACTTTAGGAAATGATGAAAATATTTAACTAGCTCAAAAGTA‑AATGAAGTTTAATAACTATTAGTTTCTTGCTTGACATGGATTTGCCCTACGATTCAGGATATTTTAAAAAGTTCTTTAGCATTCTAGTAGTACCTGTGTACTAATTACACTCTCACGCCCTAATGGAGATAAATAACATGGTTTGTCTAT‑T‑C‑C‑T‑AATCGTCCACATACCCATTATTACTGATTGTTTTTTTGCTTAATCTCCTTCAATTTACGTTAAAACAGTGAAAATACCACATCAATTAAGATATACATTGTCAACAATATGGATGTATCTCTGAGTTCATTTCGACGAATAATTTTACCTCTCTTGGTGGAAAGCCTTCCCTCCCCCTGGCGGAACCCATCATCCCGTCGAACAACTAAACCGTCAGCGTTGCCGCACCGACGGACGTCTCTCTAGAGGTCGTCTCTCCGTCTGAACATACGCACTGTT  >  BK006934/382435‑383012

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 11 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`