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 |
|
A0 F0 I1 R1
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,303,559 |
A→C |
S217R (AGT→AGG) |
h16_A2116 ← |
Putative DNA polymerase bacteriophage‑type,uracil‑DNA glycosylase superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,303,559 | 0 | A | C | 100.0%
| 73.9
/ NA
| 20 | S217R (AGT→AGG) | h16_A2116 | Putative DNA polymerase bacteriophage‑type,uracil‑DNA glycosylase superfamily |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (12/8); total (12/8) |
ACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGC > AM260479/2303479‑2303680
|
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAc > 1:959746/1‑134 (MQ=255)
cGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcc > 1:533225/1‑134 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGAt < 2:314133/93‑1 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGAt > 1:314133/1‑93 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCgg > 2:118055/1‑134 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCgg > 1:591898/1‑134 (MQ=255)
ccGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGtt > 2:54613/1‑134 (MQ=255)
ccGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGtt > 2:749906/1‑134 (MQ=255)
cGTGGTTCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTcc < 2:1084645/121‑1 (MQ=255)
cGTGGTTCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTcc > 1:1084645/1‑121 (MQ=255)
gtgCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcggg < 1:54613/134‑1 (MQ=255)
gtgCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcggg < 2:533225/134‑1 (MQ=255)
cagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACt < 1:118055/134‑1 (MQ=255)
gACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAg > 2:161634/1‑134 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAc < 1:236301/132‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAc > 2:236301/1‑132 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAc < 2:849312/132‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGt > 2:1114470/1‑134 (MQ=255)
gATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTgc < 2:1158554/128‑1 (MQ=255)
gATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTgc > 1:1158554/1‑128 (MQ=255)
|
ACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGC > AM260479/2303479‑2303680
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > AM260479/2303417‑2303690
|
aagagacagGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGC < GWNJ‑0478:712:GW2002102894th:2:1213:15405:84483/140‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagCCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCT < GWNJ‑0478:712:GW2002102894th:2:1210:14300:81156/117‑1 (MQ=60)
tcgtttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACC < GWNJ‑0478:712:GW2002102894th:2:2214:9305:57277/64‑1 (MQ=60)
GCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCG < GWNJ‑0478:712:GW2002102894th:2:2202:11665:30830/150‑1 (MQ=60)
CCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:2209:19395:48335/1‑150 (MQ=60)
CTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCT > GWNJ‑0478:712:GW2002102894th:2:1215:13055:62960/1‑150 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGtcgctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1203:15009:72624/1‑120 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGG > GWNJ‑0478:712:GW2002102894th:2:2101:10790:58058/1‑150 (MQ=60)
GTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTctgtctctttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:1106:20224:18730/1‑90 (MQ=60)
CAGCTTGCCGATGGGCGTGGTTCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACC > GWNJ‑0478:712:GW2002102894th:2:2213:14830:25097/1‑150 (MQ=60)
GGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAG < GWNJ‑0478:712:GW2002102894th:2:1102:4759:41852/150‑1 (MQ=60)
GCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGA < GWNJ‑0478:712:GW2002102894th:2:1108:10905:16040/150‑1 (MQ=60)
GCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACAC < GWNJ‑0478:712:GW2002102894th:2:1115:15283:41280/148‑1 (MQ=60)
GCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCG > GWNJ‑0478:712:GW2002102894th:2:2216:16175:76877/1‑150 (MQ=60)
GCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > GWNJ‑0478:712:GW2002102894th:2:1112:15036:18459/1‑150 (MQ=60)
|
GGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > AM260479/2303417‑2303690
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
