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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,057,664 |
T→C |
G95G (GGA→GGG) |
cobT ← |
nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,057,664 | 0 | T | C | 100.0%
| 167.7
/ NA
| 49 | G95G (GGA→GGG) | cobT | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (26/23); total (26/23) |
GGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCAC > NZ_CP009273/2057577‑2057749
|
ggggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTccc > 1:411300/1‑90 (MQ=255)
ggggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTccc > 1:160289/1‑90 (MQ=255)
ggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCAc < 2:896414/90‑1 (MQ=255)
aGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGt > 1:972151/1‑90 (MQ=255)
aGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGt > 1:1128992/1‑90 (MQ=255)
cTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCat < 1:369526/90‑1 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 2:1115914/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 1:71640/1‑90 (MQ=255)
agTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTc < 2:1177033/90‑1 (MQ=255)
agTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTc < 2:1045885/90‑1 (MQ=255)
agTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTc > 1:54581/1‑90 (MQ=255)
gTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCa > 1:536820/1‑90 (MQ=255)
gTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCa > 1:769190/1‑90 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAg < 1:401541/90‑1 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAg < 1:58047/90‑1 (MQ=255)
aTCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGc > 1:1215979/1‑90 (MQ=255)
aTCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGc > 1:846961/1‑90 (MQ=255)
tCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGcc < 2:1108845/90‑1 (MQ=255)
tCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGcc < 1:1062007/90‑1 (MQ=255)
tCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGcc < 2:507067/90‑1 (MQ=255)
tACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTa < 1:1036549/90‑1 (MQ=255)
tACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTa > 1:295487/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 2:1194937/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 1:831536/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 2:686864/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 1:645500/1‑90 (MQ=255)
gTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCttt > 1:1043505/1‑90 (MQ=255)
gTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCttt > 2:449014/1‑90 (MQ=255)
gTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCttt > 2:433732/1‑90 (MQ=255)
tGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCtttt < 2:769190/90‑1 (MQ=255)
tGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCtttt < 2:54581/90‑1 (MQ=255)
gACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTgg > 1:930601/1‑90 (MQ=255)
gACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTgg > 1:1007817/1‑90 (MQ=255)
gCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAcc > 2:1004306/1‑90 (MQ=255)
gCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAcc < 2:824673/90‑1 (MQ=255)
gCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAcc < 1:68160/90‑1 (MQ=255)
gTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCtt < 2:1043505/90‑1 (MQ=255)
gCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTAt > 1:873410/1‑50 (MQ=255)
gCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTAt < 2:873410/50‑1 (MQ=255)
cacacGCCGGTTGTCCCCCGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCg < 2:823107/90‑1 (MQ=255)
acacGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGt > 1:1138021/1‑90 (MQ=255)
acacGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGt > 1:818054/1‑90 (MQ=255)
acacGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGt > 2:1103614/1‑90 (MQ=255)
cGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGAt > 2:1156826/1‑90 (MQ=255)
cGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGAt > 2:480359/1‑90 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:273396/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:1168030/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 1:232904/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:579577/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:972151/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:995600/90‑1 (MQ=255)
ttgtcCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGcac < 1:433732/90‑1 (MQ=255)
|
GGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCAC > NZ_CP009273/2057577‑2057749
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ 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
TGATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTA > NZ_CP009273/2057567‑2057761
|
TGATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCC > SRR3722089.416273/1‑100 (MQ=60)
TGATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCC > SRR3722089.162284/1‑100 (MQ=60)
accgagatctacactaagatggtcgtcggcagcgtcagatgtgtataagagacagGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGG < SRR3722089.1163360/45‑1 (MQ=60)
AGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGG < SRR3722089.125754/100‑1 (MQ=60)
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGT > SRR3722089.986512/1‑100 (MQ=60)
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGT > SRR3722089.1146148/1‑100 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722089.72512/1‑100 (MQ=60)
TAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTC > SRR3722089.55257/1‑100 (MQ=60)
AGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCA > SRR3722089.779559/1‑100 (MQ=60)
AGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCA > SRR3722089.543074/1‑100 (MQ=60)
GCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGC > SRR3722089.1234479/1‑100 (MQ=60)
GCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGC > SRR3722089.859008/1‑100 (MQ=60)
CTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCC < SRR3722089.374067/100‑1 (MQ=60)
GCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTA > SRR3722089.299260/1‑100 (MQ=60)
agatctacactaagatggtcgtcggcagcgtcagatgtgtataagagacagGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGC < SRR3722089.482184/49‑1 (MQ=60)
TATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGC < SRR3722089.406418/100‑1 (MQ=60)
TATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGC < SRR3722089.58760/100‑1 (MQ=60)
ATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCT > SRR3722089.653753/1‑100 (MQ=60)
ATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCT > SRR3722089.843285/1‑100 (MQ=60)
TCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTG < SRR3722089.1077944/100‑1 (MQ=60)
TACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCAC < SRR3722089.1052055/100‑1 (MQ=60)
CATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTT > SRR3722089.1059131/1‑100 (MQ=60)
CAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGG > SRR3722089.944193/1‑100 (MQ=60)
CAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGG > SRR3722089.1022819/1‑100 (MQ=60)
CGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTctgtctcttatacacatctgacgccgccga > SRR3722089.885953/1‑70 (MQ=60)
GCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCC < SRR3722089.68982/100‑1 (MQ=60)
GCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGT > SRR3722089.829531/1‑100 (MQ=60)
GCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGT > SRR3722089.1155336/1‑100 (MQ=60)
CACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACAC > SRR3722089.90174/1‑100 (MQ=60)
GGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACC < SRR3722089.235862/100‑1 (MQ=60)
TTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAG < SRR3722089.438951/100‑1 (MQ=60)
GTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTA > SRR3722089.1013213/1‑100 (MQ=60)
|
TGATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTA > NZ_CP009273/2057567‑2057761
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
