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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
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%
| 81.6
/ NA
| 22 | 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 (14/8); total (14/8) |
CGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCC > AM260479/2303456‑2303684
|
cGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 2:579816/134‑1 (MQ=255)
aTACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGaa > 2:71826/1‑134 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCt > 1:373585/1‑121 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCt < 2:373585/121‑1 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTc > 1:589788/1‑122 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTc < 2:589788/122‑1 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAc > 1:901099/1‑134 (MQ=255)
aCGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAc > 1:50647/1‑134 (MQ=255)
gTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcctc > 2:568336/1‑134 (MQ=255)
ccGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcctcct < 1:328262/133‑1 (MQ=255)
ccGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcctcct > 2:328262/1‑133 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGaa < 2:398776/108‑1 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGaa > 1:398776/1‑108 (MQ=255)
cAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCt > 2:671174/1‑134 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTcc > 1:506914/1‑134 (MQ=255)
cGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTAc < 2:506914/134‑1 (MQ=255)
gcagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTggcg < 1:614204/67‑1 (MQ=255)
gcagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcc < 1:648572/95‑1 (MQ=255)
gcagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcc > 2:648572/1‑95 (MQ=255)
gcagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCAc > 1:510186/1‑134 (MQ=255)
gcagcGACTGCGCCGCAAAGCGGCCAAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTggcg > 2:614204/1‑67 (MQ=255)
acGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGccc > 2:1033957/1‑134 (MQ=255)
|
CGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCC > AM260479/2303456‑2303684
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
CGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > AM260479/2303422‑2303706
|
CGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACC < GWNJ‑0478:712:GW2002102894th:2:1212:7755:34590/150‑1 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagCCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACC < GWNJ‑0478:712:GW2002102894th:2:1201:4170:97939/108‑1 (MQ=60)
gcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTC < GWNJ‑0478:712:GW2002102894th:2:2102:21183:65131/98‑1 (MQ=60)
CCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:2202:14208:95789/1‑150 (MQ=60)
CCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:2103:13940:5309/1‑150 (MQ=60)
CCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:1102:14317:19494/1‑150 (MQ=60)
CCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:1207:3672:61587/1‑150 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1208:11691:7967/1‑139 (MQ=60)
tttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtttataagagaCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGC < GWNJ‑0478:712:GW2002102894th:2:1108:13857:43678/79‑1 (MQ=60)
GTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCG > GWNJ‑0478:712:GW2002102894th:2:1212:19631:69704/1‑150 (MQ=60)
gctcggagatgtgtataagagacaGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGG < GWNJ‑0478:712:GW2002102894th:2:2104:9349:78780/126‑1 (MQ=60)
GCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGC < GWNJ‑0478:712:GW2002102894th:2:1202:9604:91407/149‑1 (MQ=60)
GCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACT > GWNJ‑0478:712:GW2002102894th:2:1212:15704:85669/1‑150 (MQ=60)
gggctcggagatgtgtataagagacagCGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAAC < GWNJ‑0478:712:GW2002102894th:2:1204:2832:20017/122‑1 (MQ=60)
GCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACtgtctcttatacacatctccgagccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaagctagaggcgaaggagg > GWNJ‑0478:712:GW2002102894th:2:1111:16032:73124/1‑55 (MQ=60)
CCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATctgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1206:2367:54180/1‑129 (MQ=60)
CCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1210:10433:2488/1‑149 (MQ=60)
|
CGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > AM260479/2303422‑2303706
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
