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 |
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%
| 57.5
/ NA
| 14 | coding (352/390 nt) | h16_A1095 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (5/9); total (5/9) |
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCC > AM260479/1191303‑1191539
|
cggGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCcgc < 1:1087911/133‑1 (MQ=255)
gggCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGa < 1:313908/134‑1 (MQ=255)
gggCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGa < 2:1089949/134‑1 (MQ=255)
cAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTg > 1:41929/1‑110 (MQ=255)
cAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTg < 2:41929/110‑1 (MQ=255)
ttCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg < 1:244721/133‑1 (MQ=255)
ggCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGgcgcgcgc > 2:913928/1‑134 (MQ=255)
ccATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCcgcg < 1:670902/94‑1 (MQ=255)
ccATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCcgcg > 2:670902/1‑94 (MQ=255)
cGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTgccgcc < 1:913928/134‑1 (MQ=255)
ggtCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCcg < 1:1075004/40‑1 (MQ=38)
ggtCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCcg > 2:1075004/1‑40 (MQ=37)
ggtCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg > 1:145517/1‑73 (MQ=255)
ggtCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCgcgcgcggcg < 2:145517/73‑1 (MQ=255)
|
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCC > AM260479/1191303‑1191539
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGGGCTCCGCCGCAGCTTGCGGTGCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAG > AM260479/1191279‑1191573
|
ttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGCC < GWNJ‑0478:712:GW2002102894th:2:2203:2421:47995/79‑1 (MQ=60)
GCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAG < GWNJ‑0478:712:GW2002102894th:2:2213:1732:37785/149‑1 (MQ=60)
CGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCC < GWNJ‑0478:712:GW2002102894th:2:1203:3211:89426/150‑1 (MQ=60)
TCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCctgtctctt > GWNJ‑0478:712:GW2002102894th:2:1105:6234:67034/1‑140 (MQ=60)
gtttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCAC < GWNJ‑0478:712:GW2002102894th:2:2212:10197:74231/71‑1 (MQ=60)
ggctcggagatgtgtataagagacagGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCtgccatgg < GWNJ‑0478:712:GW2002102894th:2:2107:5911:87640/124‑9 (MQ=60)
ggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAT < GWNJ‑0478:712:GW2002102894th:2:1113:6185:3161/97‑1 (MQ=60)
GTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGAT < GWNJ‑0478:712:GW2002102894th:2:1114:18069:4436/149‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTG < GWNJ‑0478:712:GW2002102894th:2:2113:9344:18108/116‑1 (MQ=60)
CAGCACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGgtggtggcgctcgctctgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:1109:15713:87567/1‑88 (MQ=60)
ACGATGCTGGTGGTCAGCCC‑GGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCC < GWNJ‑0478:712:GW2002102894th:2:2202:20568:78502/150‑1 (MQ=60)
CGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAG < GWNJ‑0478:712:GW2002102894th:2:1215:12670:39415/150‑1 (MQ=60)
|
CGGGCTCCGCCGCAGCTTGCGGTGCGGGCGCTGCCGCCATCTCTGCGGCGGGCGCAGCGGCCGGGGCGGACACCTGTTCAGGCGCCGACGCCGGCAGCAGTGCGCCATCATCGATCTGCCGCAGCACGATGCTGGTGGTCAGCCCGGGCCACTGCCGCGACGCTGGCCACTAGCCCGAGCGAGCGCCACCACCGCCGCGCGCGCGCGGCGCGCGCTGCCATGGATTGCGTTGCGGTCCCTGTGGCCCGTGGTGTTGCCGCCTCAGCTGCCTGTGCCTGCAGCCACGCGCTGGCAG > AM260479/1191279‑1191573
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
