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 F28 I1 R1 260 73.5 2514320 99.3% 2496719 138.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,459,364 C→T A104V (GCA→GTA)  paaH → 3‑hydroxyadipyl‑CoA dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,459,3640CT100.0% 55.1 / NA 17A104V (GCA→GTA) paaH3‑hydroxyadipyl‑CoA dehydrogenase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (17/0);  total (17/0)

CTGCTGAAACCTGTGAACGCACATTGAAACGCCTGATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGCACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGCGGGGCTGCATTTTTTTAACCCGGCAC  >  NC_000913/1459238‑1459495
                                                                                                                                |                                                                                                                                   
ctgctgAAACCTGTGAACGCACATTGAAACGCCTGATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGaa                                                                                                                        >  1:817321/1‑140 (MQ=255)
           tgtgAACGCACATTGAAACGCCTGATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGcc                                                                                                             >  1:134472/1‑140 (MQ=255)
                    acaTTGAAACGCCTGATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCt                                                                                                    >  1:645984/1‑140 (MQ=255)
                        tGAACCGCCGGACCCG‑GGTGACCGATATCCGCGCGCGGGCGGCGGGGGCCTTGGTCATGGAGGGGGCTTCTAAACGTGGGAAAGAAAAAAAGC‑CGTTTTTTAAACGGGGGGGGGAATTTTGCCCGCCACAAACGCTATTg                                                                                                <  2:505283/140‑1 (MQ=255)
                         gAAACCCCTTGTCCCGGGTGCCCTATCTCCCCGCGGGGGCGGCGGGGGCCCTGTTCTTTGAGGCGGCGTCTGACCGTCGGAAAAAAAAAAAGG‑CTCTTTTTGTACGGCGGGGGGAATTTTGCCCGCCACAAACGCTATTg                                                                                                <  2:453096/140‑1 (MQ=255)
                                  gATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAaca                                                                                      >  2:247779/1‑140 (MQ=255)
                                          gTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTc                                                                               >  1:883612/1‑140 (MQ=255)
                                              ccGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTcctgt                                                                           >  1:126065/1‑136 (MQ=255)
                                               cGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAAtct                                                                          >  2:1162176/1‑140 (MQ=255)
                                                              ggCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATtg                                                           >  1:1101618/1‑140 (MQ=255)
                                                                         aCCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATa                                                >  1:1005008/1‑140 (MQ=255)
                                                                              gTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATaaaaaa                                           >  2:973235/1‑140 (MQ=255)
                                                                                        cggcgTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACgt                                 >  2:1205919/1‑140 (MQ=255)
                                                                                        cggcgTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACgt                                 >  1:1032858/1‑140 (MQ=255)
                                                                                             tCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACgtgtctg                            >  1:860283/1‑137 (MQ=255)
                                                                                             tCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGc                            >  1:849591/1‑140 (MQ=255)
                                                                                             tCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGc                            >  2:50689/1‑140 (MQ=255)
                                                                                                     tCTGGAAGTCAAAAAAG‑CGCTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGCGGGGCTGc                    >  2:459341/1‑140 (MQ=255)
                                                                                                              aaaaaaaGCCGCTCTTTGTCCAGGGGGCGGATTTTCGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGCGGGGCTGCAttttttt            <  2:645984/139‑1 (MQ=255)
                                                                                                                        gcTCTTTGTACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGCGGGGCTGCATTTTTTTAACCCGGCAc  >  1:1083629/1‑140 (MQ=255)
                                                                                                                                |                                                                                                                                   
CTGCTGAAACCTGTGAACGCACATTGAAACGCCTGATCCC‑GGTGACCGATATTCACGCGCTGGCAGCTGCGGACCTGGTCATTGAAGCGGCGTCTGAACGTCTGGAAGTCAAAAAAG‑CGCTCTTTGCACAGCTGGCGGAAGTTTGCCCGCCACAAACGCTATTGACCACTAACACTTCGTCAATCTCTATAACCGCGATTGCTGCGGAGATAAAAAATCCTGAACGTGTTGCGGGGCTGCATTTTTTTAACCCGGCAC  >  NC_000913/1459238‑1459495

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A