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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
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%
| 74.6
/ 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 (11/9); total (11/9) |
GTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACA > AM260479/2303442‑2303676
|
gTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCCGCCCAGCACCACGATCACCCTGGGCTTc > 1:1039110/1‑127 (MQ=255)
gTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCCGCCCAGCACCACGATCACCCTGGGCTTc < 2:1039110/127‑1 (MQ=255)
cGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 2:303807/134‑1 (MQ=255)
gATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAgg > 2:486623/1‑133 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCg < 1:448721/133‑1 (MQ=255)
gcgcAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCg > 2:448721/1‑133 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc < 2:919333/98‑1 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGgcgc > 1:919333/1‑98 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTcc > 2:233248/1‑134 (MQ=255)
gCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTcc > 2:880683/1‑134 (MQ=255)
cagcagCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcgggc > 2:1017375/1‑127 (MQ=255)
cagcagCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACcgggc < 1:1017375/127‑1 (MQ=255)
agcagcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCa > 2:859618/1‑134 (MQ=255)
gcGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACtt > 2:893401/1‑133 (MQ=255)
aCTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGc < 1:486623/134‑1 (MQ=255)
cgccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCAc < 1:621351/132‑1 (MQ=255)
ccgcAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTg < 1:880683/134‑1 (MQ=255)
ccAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAAcaca > 2:384786/1‑134 (MQ=255)
gCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTg > 1:639787/1‑61 (MQ=255)
gCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTg < 2:639787/61‑1 (MQ=255)
|
GTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACA > AM260479/2303442‑2303676
|
| 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
CGGTCAGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > AM260479/2303411‑2303706
|
ggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCC < GWNJ‑0478:712:GW2002102894th:2:1113:8786:31037/96‑1 (MQ=60)
CGGTCAGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCC > GWNJ‑0478:712:GW2002102894th:2:1203:6435:26613/1‑150 (MQ=60)
GGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCT < GWNJ‑0478:712:GW2002102894th:2:2202:19912:80405/150‑1 (MQ=60)
CAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCCGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGC > GWNJ‑0478:712:GW2002102894th:2:2211:19101:89110/1‑150 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:2214:9056:79757/1‑100 (MQ=60)
GCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:2211:4498:48612/1‑100 (MQ=60)
GTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:2204:13565:12256/1‑128 (MQ=60)
CCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGG < GWNJ‑0478:712:GW2002102894th:2:1211:16520:86134/150‑1 (MQ=60)
GCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCgccagatcgcgctggtgaagcccagggctgt > GWNJ‑0478:712:GW2002102894th:2:1206:14365:12213/1‑119 (MQ=60)
GTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGC < GWNJ‑0478:712:GW2002102894th:2:2208:15645:74660/150‑1 (MQ=60)
GACTGCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAAC < GWNJ‑0478:712:GW2002102894th:2:1213:2290:81489/150‑1 (MQ=60)
GCGCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACAC < GWNJ‑0478:712:GW2002102894th:2:2102:18645:98175/148‑1 (MQ=60)
GCCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATCG < GWNJ‑0478:712:GW2002102894th:2:2201:20735:72644/150‑1 (MQ=60)
CCGCAAAGCGGCCCAGCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:2104:7713:6583/1‑93 (MQ=60)
GCACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCC > GWNJ‑0478:712:GW2002102894th:2:2110:5631:8600/1‑150 (MQ=60)
ACCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCG > GWNJ‑0478:712:GW2002102894th:2:2102:5744:18751/1‑150 (MQ=60)
CCACGATCACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaaaaaaagagcagatactc > GWNJ‑0478:712:GW2002102894th:2:1203:16858:76965/1‑47 (MQ=60)
ACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1114:13399:51562/1‑102 (MQ=60)
ACCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1210:11014:11695/1‑150 (MQ=60)
CCCTGGGCTTCACCAGCGCGATCTGGCGGCGCAG > GWNJ‑0478:712:GW2002102894th:2:1104:11215:70943/1‑34 (MQ=60)
|
CGGTCAGGGTGCGCAGCAGGTAAGCCGGATGGTAGGTCACCACCACGGGGATACCTTCATAGCTATGTACGGTGCCGCGCAGCTTGCCGATGGGCGTGGTGCTGCGCAGCAGCGACTGCGCCGCAAAGCGGCCCAGCACCACGATCACACTGGGCTTCACCAGCGCGATCTGGCGGCGCAGGAACGGCTCGCACTGCGCCACCTCCTCGGGCTCCGGGTTGCGGTTACCGGGCGGGCGGCACTTGAGCACGTTGGCGATAAACACATTGCGCCCGCGCGCCAGCCCGAGCGCGCCG > AM260479/2303411‑2303706
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
