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 |
619,859 |
G→T |
H108N (CAC→AAC) |
acrA1 ← |
Cation/multidrug efflux system, mebrane‑fusion component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 619,859 | 0 | G | T | 100.0%
| 78.9
/ NA
| 21 | H108N (CAC→AAC) | acrA1 | Cation/multidrug efflux system, mebrane‑fusion component |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (10/11); total (10/11) |
CGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGC > AM260479/619751‑619956
|
cGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 1:415497/123‑1 (MQ=255)
cGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa > 2:415497/1‑123 (MQ=255)
ggCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATc < 1:870358/132‑1 (MQ=255)
tGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 1:545995/84‑1 (MQ=255)
tGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa > 2:545995/1‑84 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCatat > 2:657019/1‑88 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCatat < 1:657019/88‑1 (MQ=255)
ttGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGcc > 2:314099/1‑134 (MQ=255)
ggCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa > 1:1057122/1‑63 (MQ=255)
ggCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGa < 2:1057122/63‑1 (MQ=255)
ccGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGtt < 1:534927/59‑1 (MQ=255)
ccGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGtt > 2:534927/1‑59 (MQ=255)
ccGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGgccaagcgc > 2:146337/1‑128 (MQ=255)
ccTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCAccc < 1:314099/134‑1 (MQ=255)
cgcgcgcACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCcgc < 2:991956/133‑1 (MQ=255)
cgcgcACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGt > 2:13675/1‑45 (MQ=255)
cgcgcACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGt < 1:13675/45‑1 (MQ=255)
gTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGt < 2:1040108/53‑1 (MQ=255)
gTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGt > 1:1040108/1‑53 (MQ=255)
gTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAgc > 1:973599/1‑73 (MQ=255)
gTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAgc < 2:973599/73‑1 (MQ=255)
|
CGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGC > AM260479/619751‑619956
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
GCCTGGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCG > AM260479/619711‑619986
|
GCCTGGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTG > GWNJ‑0478:712:GW2002102894th:2:2101:18743:68301/1‑150 (MQ=60)
CAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCC < GWNJ‑0478:712:GW2002102894th:2:1211:2118:58474/150‑1 (MQ=60)
ttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCC < GWNJ‑0478:712:GW2002102894th:2:2215:8089:70108/69‑1 (MQ=60)
ttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCA < GWNJ‑0478:712:GW2002102894th:2:1101:5427:90121/76‑1 (MQ=60)
agaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCAT < GWNJ‑0478:712:GW2002102894th:2:1214:3034:12976/89‑1 (MQ=60)
gtgtctcgtgggctcggagatgtgtataagagacagCCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATAT < GWNJ‑0478:712:GW2002102894th:2:1214:16887:65169/114‑1 (MQ=60)
GCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATAT < GWNJ‑0478:712:GW2002102894th:2:1209:11914:5669/150‑1 (MQ=60)
CGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGC < GWNJ‑0478:712:GW2002102894th:2:2201:16641:5506/148‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGG < GWNJ‑0478:712:GW2002102894th:2:2107:11670:9836/118‑1 (MQ=60)
GCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2210:12442:83166/1‑94 (MQ=60)
GGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCaagcgcgatatggatgtggtgctc < GWNJ‑0478:712:GW2002102894th:2:1109:10384:92122/150‑25 (MQ=60)
ACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGtggtg < GWNJ‑0478:712:GW2002102894th:2:1203:12963:90342/150‑6 (MQ=60)
gggctcggagatgtgtataagagacaGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGG < GWNJ‑0478:712:GW2002102894th:2:2215:4823:17578/124‑1 (MQ=60)
ACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:2211:14377:94062/1‑84 (MQ=60)
ACGTTGGACACCGGGGTCACGTTGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCtgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:2206:15675:25568/1‑104 (MQ=60)
|
GCCTGGTCCAGCGCCGCCTGGAACGGGCGCGGGTCGATCTCGGCCAGCACGTCGCCGGCCTTGACCATCTGGCCTTCCTTGAACAGCACCTTGAGCAGCGGGCCGGACACCTGCGCGCGCACGGTGACGTTGGACACCGGGGTCACGTGGCCCAGGCCGTTGAGCACCACATCCATATCGCGCTTGGCCACGGTGGCGACCACCACGGGCGAGCGCGGCATGCCGGGGCCGCCGGCGCCACCCCGCGCGCCCGGGCCGCTGGCGCCCCGCTGCGCG > AM260479/619711‑619986
|
| 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: ‑ |
