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 F14 I0 R1 248 61.6 2601574 98.7% 2567753 146.9

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GGTGAAGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑CGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC  >  NC_002947_CJ‑RC/4586012‑4586211
                                                                                                                                   |                                                                      
GGTGAAGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGG                                                     <  NB501016:282:H2V7GAFX2:4:11510:10240:7621/151‑1 (MQ=60)
       GCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGG                                                     <  NB501016:282:H2V7GAFX2:2:21208:25257:12452/144‑1 (MQ=60)
                 AGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTG                                     <  NB501016:282:H2V7GAFX2:2:11207:2228:10580/150‑1 (MQ=60)
                      ACGGCACCGGCGTGAACAGCTGATCAGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCG                               <  NB501016:282:H2V7GAFX2:2:21312:23088:12719/151‑1 (MQ=60)
                           ACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCT                          <  NB501016:282:H2V7GAFX2:1:11203:9915:13122/151‑1 (MQ=60)
                              GGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCC                       <  NB501016:282:H2V7GAFX2:3:11604:3109:6136/151‑1 (MQ=60)
                                    AACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGT                 <  NB501016:282:H2V7GAFX2:4:21408:19937:16290/151‑1 (MQ=60)
                                      CAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGTCCGGGTGCTTGGCAAGGGGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAG               <  NB501016:282:H2V7GAFX2:3:11606:4159:4150/151‑1 (MQ=60)
                                                     GCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC  <  NB501016:282:H2V7GAFX2:4:11508:10353:6185/149‑1 (MQ=60)
                                                     GCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC  <  NB501016:282:H2V7GAFX2:4:21610:10870:6315/149‑1 (MQ=60)
                                                                                                                                   |                                                                      
GGTGAAGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑CGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC  >  NC_002947_CJ‑RC/4586012‑4586211

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑