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
A5 F13 I0 R1 213 60.4 2554362 98.6% 2518600 147.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
JC NC_002947_CJ‑RC 2,957,081 Δ84 bp 24.7% intergenic (+36/‑77) PP_2588 → / → PP_2589 class III aminotransferase/aldehyde dehydrogenase family protein

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_002947_CJ‑RC = 295708030 (0.540)8 (0.150) 8/262 NT 24.7% intergenic (+35/‑161) PP_2588/PP_2589 class III aminotransferase/aldehyde dehydrogenase family protein
?NC_002947_CJ‑RC 2957165 = 20 (0.380)intergenic (+120/‑76) PP_2588/PP_2589 class III aminotransferase/aldehyde dehydrogenase family protein

CTGGGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947_CJ‑RC/2956929‑2957080
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggagTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTGGAGTACAAATGTACACTCTCGAATTCTGGCAACAACGCGCCTCGGACCTCTACCTTCCGGC  >  NC_002947_CJ‑RC/2957165‑2957293
                                                                                                                                                                                                                                                                                         
CTGGGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGG                                                                                                                                      >  6:190271/1‑149
CTGGGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGG                                                                                                                                      <  7:96559/149‑1
CTGGGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGG                                                                                                                                      <  8:60000/149‑1
   GGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGA                                                                                                                                    <  5:42250/148‑1
       GGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCG                                                                                                                               >  7:172265/1‑149
                                                     TGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGAC                                                                                 <  8:172265/149‑1
                                                               GAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTG                                                                                                           >  1:42872/1‑113
                                                               GAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTG                                                                                                           <  2:42872/113‑1
                                                                     ACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTT                                                                 >  4:7812/1‑149
                                                                       CCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTG                                                               >  4:250218/1‑149
                                                                         GGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTGGA                                                             <  3:7812/149‑1
                                                                           ATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTTACAAGGGCAACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTGGAGT                                                           <  2:187897/149‑1
                                                                                                                                    AACGCGCTTCCCTGTGGGAGTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTGGAGTACAAATGTACACTCTCGAATTCTGGCAACAACGCGCCTCGGACCTCTACCTTCCGGa  >  5:191790/1‑148
                                                                                                                                                                                                                                                                                         
CTGGGCCGGATGATCATGGCCCCGGCCTTGATCGCCAACCACAGCGAGCTGGATGAGCTGGTGGAGAAGACCCGGATAGCCGTAGACCGCACGGCGCGGCTGGTCGGCAAGCTGTAAGCCGCTGACAAGGGCAACGCGCTTCCCTGTGGGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947_CJ‑RC/2956929‑2957080
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggagTGCGGCGTGCTTGCGGACTGTGTGGTACCTGTTACTTGCGCAAGAAGGACCGCCACGACGGTCGTTTGGAGTACAAATGTACACTCTCGAATTCTGGCAACAACGCGCCTCGGACCTCTACCTTCCGGC  >  NC_002947_CJ‑RC/2957165‑2957293

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.

GATK/CNVnator alignment

N/A