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 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 106.1
/ NA
| 28 | 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 (14/14); total (14/14) |
AAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGT > AM260479/2303432‑2303662
|
aaGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGc > 2:310273/1‑134 (MQ=255)
gCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCtt > 2:26573/1‑134 (MQ=255)
gCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCtt > 1:662585/1‑134 (MQ=255)
aGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAgcgc > 2:793062/1‑133 (MQ=255)
aGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAgcgc > 1:461053/1‑133 (MQ=255)
ccaccacGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTgg > 2:94697/1‑134 (MQ=255)
cGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 1:26573/134‑1 (MQ=255)
cGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 1:457284/134‑1 (MQ=255)
aTACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGaa < 1:120506/134‑1 (MQ=255)
cATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTc < 1:94697/133‑1 (MQ=255)
gCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCAc < 1:310273/133‑1 (MQ=255)
gTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTgcgc > 2:709097/1‑133 (MQ=255)
cGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCAcc < 1:793062/134‑1 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCgg > 1:19682/1‑134 (MQ=255)
cAGCTTGCCGATGGGCGTGGTGCTGCGCAGCA‑CGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTc > 1:39888/1‑134 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTgg < 1:591654/92‑1 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTgg > 2:591654/1‑92 (MQ=255)
ccGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGtt > 1:1036768/1‑134 (MQ=255)
gctgcGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCg > 1:758424/1‑109 (MQ=255)
gctgcGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCg < 2:758424/109‑1 (MQ=255)
cgcAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGggcgggcg < 1:383485/134‑1 (MQ=255)
cagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACt < 2:19682/134‑1 (MQ=255)
gACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAg > 2:339541/1‑134 (MQ=255)
aCTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGc < 2:461053/134‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAc < 2:39888/132‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGt < 1:339541/134‑1 (MQ=255)
cgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCgg < 2:65853/96‑1 (MQ=255)
cgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCgg > 1:65853/1‑96 (MQ=255)
caccCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTc < 2:448364/69‑1 (MQ=255)
|
AAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGT > AM260479/2303432‑2303662
|
| 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
CGGTCAGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > AM260479/2303411‑2303690
|
caagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCC < GWNJ‑0478:712:GW2002102894th:2:1111:8069:86998/84‑1 (MQ=60)
AGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGC < GWNJ‑0478:712:GW2002102894th:2:2216:2471:67694/150‑1 (MQ=60)
tttacttctctgtgacatgtatttagcattgcttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGC < GWNJ‑0478:712:GW2002102894th:2:1201:3443:45718/36‑1 (MQ=60)
tattgtcagtgattctttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGC < GWNJ‑0478:712:GW2002102894th:2:2216:4883:43647/58‑1 (MQ=60)
GTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTC > GWNJ‑0478:712:GW2002102894th:2:2111:5760:40700/1‑150 (MQ=60)
GGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCG > GWNJ‑0478:712:GW2002102894th:2:1212:14343:66690/1‑149 (MQ=60)
gggctcggagatgtgtataagagacagGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGC < GWNJ‑0478:712:GW2002102894th:2:2104:10322:88043/122‑1 (MQ=60)
ACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCAC < GWNJ‑0478:712:GW2002102894th:2:1103:11977:88122/150‑1 (MQ=60)
ACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCAC < GWNJ‑0478:712:GW2002102894th:2:1212:4440:45806/150‑1 (MQ=60)
tcccacgcgcgcgccttgtcggtcagggtgcgcagcaccacgcccatcggcaaGCTGCGCGGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCAC < GWNJ‑0478:712:GW2002102894th:2:2115:17183:22771/94‑1 (MQ=60)
GATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGC < GWNJ‑0478:712:GW2002102894th:2:1109:1633:9370/150‑1 (MQ=60)
TCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTC < GWNJ‑0478:712:GW2002102894th:2:1106:4501:45794/149‑1 (MQ=60)
AGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCG < GWNJ‑0478:712:GW2002102894th:2:1205:11835:65338/149‑1 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccg > GWNJ‑0478:712:GW2002102894th:2:1216:5456:15991/1‑95 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGG > GWNJ‑0478:712:GW2002102894th:2:1103:8878:42613/1‑150 (MQ=60)
ATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCA‑CGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCC > GWNJ‑0478:712:GW2002102894th:2:1105:5930:76538/1‑150 (MQ=60)
ACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGG < GWNJ‑0478:712:GW2002102894th:2:2203:15842:8782/150‑1 (MQ=60)
GTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTG > GWNJ‑0478:712:GW2002102894th:2:2216:1638:74553/1‑150 (MQ=60)
GCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2114:11419:86239/1‑139 (MQ=60)
GCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTT < GWNJ‑0478:712:GW2002102894th:2:1209:7813:32557/150‑1 (MQ=60)
CAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1104:6352:58367/1‑127 (MQ=60)
gtgtataagagacaGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACAC < GWNJ‑0478:712:GW2002102894th:2:2110:3711:75085/136‑1 (MQ=60)
GCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACAT < GWNJ‑0478:712:GW2002102894th:2:1207:1363:59729/150‑1 (MQ=60)
GCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtat > GWNJ‑0478:712:GW2002102894th:2:1213:18636:94273/1‑99 (MQ=60)
GCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > GWNJ‑0478:712:GW2002102894th:2:1107:3083:66039/1‑150 (MQ=60)
|
CGGTCAGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGC > AM260479/2303411‑2303690
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
