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 |
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%
| 43.9
/ NA
| 11 | coding (352/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (3/8); total (3/8) |
CCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGC > AM260479/1191315‑1191535
|
ccATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACt < 1:817887/116‑1 (MQ=255)
ccATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACt > 2:817887/1‑116 (MQ=255)
ccATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACt < 1:427867/134‑1 (MQ=255)
ccATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACt < 1:623431/134‑1 (MQ=255)
ggCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCcgcg < 1:547165/134‑1 (MQ=255)
ttCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg < 2:423170/133‑1 (MQ=255)
ttCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCAACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg < 1:803698/133‑1 (MQ=255)
cgcCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTg > 1:789959/1‑134 (MQ=255)
cGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAtt < 2:789959/134‑1 (MQ=255)
aCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTgc < 1:69211/131‑1 (MQ=255)
aCGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTgc > 2:69211/1‑131 (MQ=255)
|
CCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGC > AM260479/1191315‑1191535
|
| 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
TGCGGTGCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAGCG > AM260479/1191296‑1191575
|
acaGGTGCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:2202:12942:80356/147‑1 (MQ=60)
GCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGC < GWNJ‑0478:712:GW2002102894th:2:1210:8663:85280/150‑1 (MQ=60)
GCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGC < GWNJ‑0478:712:GW2002102894th:2:2106:5674:97944/150‑1 (MQ=60)
GGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGgtgg < GWNJ‑0478:712:GW2002102894th:2:2103:7722:70790/150‑5 (MQ=60)
GGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGC > GWNJ‑0478:712:GW2002102894th:2:2201:3347:85396/1‑150 (MQ=60)
GTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCAACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAT < GWNJ‑0478:712:GW2002102894th:2:2203:16070:80378/149‑1 (MQ=60)
CAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTG < GWNJ‑0478:712:GW2002102894th:2:1104:2891:81162/150‑1 (MQ=60)
GCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAGCG > GWNJ‑0478:712:GW2002102894th:2:1205:10101:67256/1‑150 (MQ=60)
|
TGCGGTGCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAGCG > AM260479/1191296‑1191575
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
