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
A2 F5 I176 R1 180 42.9 1710034 96.5% 1650182 119.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TACCGCAAGGTTACGATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAATTATTGTGATGCAGCACGGACATATCGCCCAGCGTGGCAAT  >  NZ_CP009273/465699‑465985
                                                                                                                                                  |                                                                                                                                            
tagtctcgtgggctcggagatgtgtataagagacaGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTG                                                                                                                                           <  SRR3722130.441327/115‑1 (MQ=60)
        GGTTACGATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACC                                                                                                                                     >  SRR3722130.787279/1‑148 (MQ=60)
           agtttctgcattattcttttttttttttcaagcagaagacggcatacgagattcgccttagtctcgtgggctcggagatgtgtataagagacagTCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCC                                                                                                                               <  SRR3722130.465655/57‑1 (MQ=60)
              GATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGC                                                                                                                            <  SRR3722130.629431/151‑1 (MQ=60)
               ATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGC                                                                                                                            >  SRR3722130.761086/1‑150 (MQ=60)
               ATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGGGCCCCAGATCCTGC                                                                                                                            >  SRR3722130.542845/1‑150 (MQ=60)
               ATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCA                                                                                                                           <  SRR3722130.648698/151‑1 (MQ=60)
                    GAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACC                                                                                                                      <  SRR3722130.741912/151‑1 (MQ=60)
                     AGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCT                                                                                                                     >  SRR3722130.66846/1‑151 (MQ=60)
                              AGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTG                                                                                                            <  SRR3722130.819612/151‑1 (MQ=60)
                                  CGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGctgtcttttatacacatctccgagccc                                                                                                        >  SRR3722130.735552/1‑124 (MQ=60)
                                  CGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGG                                                                                                        >  SRR3722130.673835/1‑151 (MQ=60)
                                              TTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAAC                                                                                             <  SRR3722130.713533/150‑1 (MQ=60)
                                                       gagatgtgtataagagacagTTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATC                                                                                   <  SRR3722130.118808/131‑1 (MQ=60)
                                                        CAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCAGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATC                                                                                   >  SRR3722130.474868/1‑150 (MQ=60)
                                                                   TATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGC                                                                       >  SRR3722130.165473/1‑151 (MQ=60)
                                                                     TCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGAACCTGCATAACCCGCGTCAGACGGGGCAGGGAAGAAAGGTAATCATCAGCGCCCATCGCCT                                                                     >  SRR3722130.656691/1‑151 (MQ=60)
                                                                        CCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGctgtctcttatacacatctccgagcccacgagactaaggcg                                                                   >  SRR3722130.6930/1‑109 (MQ=60)
                                                                        CCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGGGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTC                                                                  >  SRR3722130.768914/1‑151 (MQ=60)
                                                                           ataagagacaGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGC                                                               <  SRR3722130.243585/141‑1 (MQ=60)
                                                                             GCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCAC                                                             <  SRR3722130.838223/151‑1 (MQ=60)
                                                                                      TTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATctgtctcttatacacatctccgagcccacgagactaaggcgaatctcgtatgccgtcttctgcttgaaa                                                     >  SRR3722130.52814/1‑81 (MQ=60)
                                                                                      TTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGA                                                      >  SRR3722130.411826/1‑149 (MQ=60)
                                                                                      TTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATctgtctcttatacacatctccgagcccacgagactaaggcgaatctcgtatgccgtcttctgcttgaaa                                                     >  SRR3722130.114526/1‑81 (MQ=60)
                                                                                        ATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCC                                                  >  SRR3722130.440095/1‑151 (MQ=60)
                                                                                        ATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCC                                                  <  SRR3722130.742799/151‑1 (MQ=60)
                                                                                                ACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAAT                                          >  SRR3722130.603041/1‑151 (MQ=60)
                                                                                                               TCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAATTATTGTGATGCAGC                            >  SRR3722130.22922/1‑150 (MQ=60)
                                                                                                               TCCTTGATGATGCGCTTTCGGCGGTGGACGGAAGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGAAATCATCAGTGCCCctgtctcttatacacatctccgagcccacgagactaaagcgaatcgcgt                           >  SRR3722130.266878/1‑102 (MQ=60)
                                                                                                                CCTTGATGATGCGCTTTCGGCGGTGGACGGACGCCCTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCctgtctcttatacacatctccgagcccacgggactaaggcggagatcgtatgccgtc                          >  SRR3722130.52715/1‑94 (MQ=60)
                                                                                                                                  GGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAATTATTGTGATGCAGCACGGACATATCGCCCAGCGT        <  SRR3722130.227241/151‑1 (MQ=60)
                                                                                                                                        GGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAATTATTGTGATGCAGCACGGACATATCGCCCAGCGTGGCAAT  >  SRR3722130.257289/1‑151 (MQ=60)
                                                                                                                                                  |                                                                                                                                            
TACCGCAAGGTTACGATACAGAGGTGGGCGAGCGCGGTGTGATGCTTTCCGGCGGGCAAAAACAGCGTATCTCCATTGCTCGTGCGTTATTAGTCAACGCGGAAATCCTCATCCTTGATGATGCGCTTTCGGCGGTGGACGGACGCACTGAGCACCAGATCCTGCATAACCTGCGTCAGTGGGGGCAGGGAAGAACGGTAATCATCAGTGCCCATCGCCTTTCTGCACTGACGGAAGCCAGTGAAATTATTGTGATGCAGCACGGACATATCGCCCAGCGTGGCAAT  >  NZ_CP009273/465699‑465985

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑