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 F2 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,901,121 |
A→G |
D202D (GAT→GAC) |
pstB ← |
phosphate ABC transporter ATP‑binding protein PstB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,901,121 | 0 | A | G | 100.0%
| 78.2
/ NA
| 24 | D202D (GAT→GAC) | pstB | phosphate ABC transporter ATP‑binding protein PstB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/12); total (12/12) |
AATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAATCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGC > NZ_CP009273/3901038‑3901205
|
aatTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGc < 2:52358/90‑1 (MQ=255)
cAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTc < 1:91285/90‑1 (MQ=255)
aGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCg > 1:254977/1‑90 (MQ=255)
ggTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCgg < 2:470473/90‑1 (MQ=255)
tAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCa > 2:93899/1‑90 (MQ=255)
cGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGctc > 2:214748/1‑90 (MQ=255)
tgGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATa < 2:47696/90‑1 (MQ=255)
ggTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATAc > 2:414998/1‑90 (MQ=255)
ggAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGccc > 1:61933/1‑90 (MQ=255)
caacGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTa < 1:4778/90‑1 (MQ=255)
cAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCa < 1:467998/63‑1 (MQ=255)
cAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCa > 2:467998/1‑63 (MQ=255)
cAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAg > 2:487766/1‑90 (MQ=255)
ctgcATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAg < 2:64856/90‑1 (MQ=255)
gcATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAgcg < 1:344056/90‑1 (MQ=255)
tgttgtGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGc < 1:329736/53‑1 (MQ=255)
tgttgtGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGc > 2:329736/1‑53 (MQ=255)
gtgGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGcc > 1:440141/1‑62 (MQ=255)
gtgGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGcc < 2:440141/62‑1 (MQ=255)
aCGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGccc < 2:225111/56‑1 (MQ=255)
aCGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGccc > 1:225111/1‑56 (MQ=255)
aTCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTtcgtcg > 1:419315/1‑90 (MQ=255)
ccacGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGagca < 1:251584/90‑1 (MQ=255)
ggTGTAGTCCTG‑TTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGGAGAGATAGGGGCGGGCGCCGAACACGGGTCCTCGagcagcagc > 2:324662/1‑90 (MQ=255)
|
AATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAATCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGC > NZ_CP009273/3901038‑3901205
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCTGAACTCAATCAATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAATCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATG > NZ_CP009273/3901025‑3901220
|
GCTGAACTCAATCAATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCC < SRR3722094.506617/100‑1 (MQ=60)
GCTGAACTCAATCAATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCC < SRR3722094.481058/100‑1 (MQ=60)
CAATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCG > SRR3722094.258728/1‑100 (MQ=60)
CAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGC < SRR3722094.92608/100‑1 (MQ=60)
atgtgtataagagacaGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAAT < SRR3722094.476263/84‑1 (MQ=60)
gcagcgtcagatgtgtataagagacagGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATAC < SRR3722094.335096/73‑1 (MQ=60)
CCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCC > SRR3722094.62796/1‑100 (MQ=60)
CAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGT < SRR3722094.4851/100‑1 (MQ=60)
GCTGCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATctgtctcttatacacatc > SRR3722094.447855/1‑82 (MQ=60)
GCATGTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGG < SRR3722094.349758/100‑1 (MQ=60)
GTTGTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATActgtctcttatacacatctgacgc > SRR3722094.228147/1‑76 (MQ=60)
GTGGGTGACGATCACCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCG > SRR3722094.426623/1‑100 (MQ=60)
CCACGGTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTC < SRR3722094.255265/100‑1 (MQ=60)
GTGTAGTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATctgtctcttatacacatctgacgctgccgacgaccatcttagtgtag > SRR3722094.502966/1‑53 (MQ=60)
GTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATG > SRR3722094.451357/1‑100 (MQ=60)
GTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATG > SRR3722094.449035/1‑100 (MQ=60)
GTCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACACCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATG > SRR3722094.465256/1‑100 (MQ=60)
|
GCTGAACTCAATCAATTCGCCCAGGTACATAAACGCCGTGTGGTCGGAACAACGCGCAGCCTGCTGCATGTTGTGGGTGACGATCACCACGGTGTAATCCTGCTTCAGTTCGGTGATCAGCTCTTCAATACGCCCGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATG > NZ_CP009273/3901025‑3901220
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
