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 |
1,191,426 |
Δ1 bp |
coding (350/390 nt) |
h16_A1095 ← |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,191,424 | 0 | G | . | 100.0%
| 62.9
/ NA
| 15 | coding (352/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (8/7); total (8/7) |
CAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCT > AM260479/1191357‑1191545
|
cAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg > 1:987116/1‑131 (MQ=255)
cAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg < 2:987116/131‑1 (MQ=255)
cGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATg > 2:382561/1‑133 (MQ=255)
ccGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAt > 1:371015/1‑134 (MQ=255)
gcagTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAttgcgtt < 1:382561/134‑1 (MQ=255)
tCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAttgcgtt > 1:14429/1‑116 (MQ=255)
tCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAttgcgtt < 2:14429/116‑1 (MQ=255)
agcaCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGgcgcgcgc < 1:780256/92‑1 (MQ=255)
agcaCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGgcgcgcgc > 2:780256/1‑92 (MQ=255)
aCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTa > 1:137416/1‑46 (MQ=38)
aCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTa < 2:137416/46‑1 (MQ=38)
cGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTgccgcc < 2:371015/134‑1 (MQ=255)
aTGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCAccgc < 1:196167/66‑1 (MQ=255)
aTGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCAccgc > 2:196167/1‑66 (MQ=255)
tggtggTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCt > 1:763054/1‑134 (MQ=255)
|
CAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCT > AM260479/1191357‑1191545
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTG > AM260479/1191303‑1191546
|
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCC < GWNJ‑0478:712:GW2002102894th:2:2102:20053:92737/150‑1 (MQ=60)
ggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCG < GWNJ‑0478:712:GW2002102894th:2:1113:12676:50783/97‑1 (MQ=60)
GGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCG > GWNJ‑0478:712:GW2002102894th:2:2208:16626:2600/1‑150 (MQ=60)
GTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATT > GWNJ‑0478:712:GW2002102894th:2:1207:14593:47290/1‑150 (MQ=60)
gggctcggagatgtgtataagagacagTCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGT < GWNJ‑0478:712:GW2002102894th:2:2112:3750:19362/122‑1 (MQ=60)
AGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCC < GWNJ‑0478:712:GW2002102894th:2:1206:7292:13018/150‑1 (MQ=60)
GTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCtgt > GWNJ‑0478:712:GW2002102894th:2:1101:11070:94405/1‑147 (MQ=60)
TCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1109:6147:36598/1‑76 (MQ=60)
GCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTG > GWNJ‑0478:712:GW2002102894th:2:2113:18353:28513/1‑150 (MQ=60)
|
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTG > AM260479/1191303‑1191546
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
