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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,081,530 |
T→C |
L30L (TTG→CTG) |
h16_A0990 → |
outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,530 | 0 | T | C | 100.0%
| 64.3
/ NA
| 18 | L30L (TTG→CTG) | h16_A0990 | outer membrane protein and related peptidoglycan‑associated (lipo)proteins |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/9); total (9/9) |
CGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTG > AM260479/1081422‑1081643
|
cggcACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGc < 1:391473/134‑1 (MQ=255)
gACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGa < 2:175178/132‑1 (MQ=255)
tCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGc > 2:756427/1‑128 (MQ=255)
aTGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTg < 2:346063/134‑1 (MQ=255)
gATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGccc > 2:597921/1‑132 (MQ=255)
ccGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCt > 1:141982/1‑99 (MQ=255)
ccGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCt < 2:141982/99‑1 (MQ=255)
gTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGc > 2:196853/1‑134 (MQ=255)
cGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGa > 1:319539/1‑133 (MQ=255)
cGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGa > 1:391176/1‑133 (MQ=255)
tGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAg > 2:765997/1‑134 (MQ=255)
gCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGt < 1:597921/134‑1 (MQ=255)
cGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAgg < 2:319539/134‑1 (MQ=255)
tCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTg < 2:391176/134‑1 (MQ=255)
tCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTg > 2:494943/1‑134 (MQ=255)
tCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTg < 1:494943/134‑1 (MQ=255)
ggCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCg < 2:144964/107‑1 (MQ=255)
ggCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCg > 1:144964/1‑107 (MQ=255)
|
CGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTG > AM260479/1081422‑1081643
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCGGTGGAATTCGG > AM260479/1081383‑1081675
|
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCT > GWNJ‑0478:712:GW2002102894th:2:1206:20062:13576/1‑150 (MQ=60)
GCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCG < GWNJ‑0478:712:GW2002102894th:2:2105:3722:36821/150‑1 (MQ=60)
GCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACG < GWNJ‑0478:712:GW2002102894th:2:1209:5834:93961/150‑1 (MQ=60)
CTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgt > GWNJ‑0478:712:GW2002102894th:2:2207:10145:26279/1‑94 (MQ=60)
GGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1111:4077:37946/1‑131 (MQ=60)
ACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGAC > GWNJ‑0478:712:GW2002102894th:2:1204:10808:41852/1‑149 (MQ=60)
ACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGAC > GWNJ‑0478:712:GW2002102894th:2:1209:18568:92025/1‑149 (MQ=60)
GGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGG < GWNJ‑0478:712:GW2002102894th:2:2107:13565:55174/150‑1 (MQ=60)
GCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1111:16046:56245/1‑137 (MQ=60)
GTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAG < GWNJ‑0478:712:GW2002102894th:2:1214:16856:65375/150‑1 (MQ=60)
GGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCC > GWNJ‑0478:712:GW2002102894th:2:1206:6278:5380/1‑150 (MQ=60)
GCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCGGTGGAATTCGG > GWNJ‑0478:712:GW2002102894th:2:1216:20732:96415/1‑150 (MQ=60)
|
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACGAGGGCCAGATCGGCCTGCAGCAGTTCATGGCCTACGGCAAGCCCGAGGCCGCGGCCGACAAGGTGCGCCAGGTGGGCGGCATCTACCAGTTTCCGGTGGAATTCGG > AM260479/1081383‑1081675
|
| 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: ‑ |
