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 |
3,905,524 |
G→C |
A1285G (GCC→GGC) |
putA ← |
bifunctional proline dehydrogenase and proline oxidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,905,524 | 0 | G | C | 100.0%
| 89.3
/ NA
| 24 | A1285G (GCC→GGC) | putA | bifunctional proline dehydrogenase and proline oxidase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (13/11); total (13/11) |
TTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGGCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCAC > AM260479/3905407‑3905648
|
ttGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCgatgat > 1:610467/1‑134 (MQ=255)
ttGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCgatgat > 2:424154/1‑134 (MQ=255)
aTCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGgcg > 2:524534/1‑134 (MQ=255)
atcaAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGc < 1:577957/134‑1 (MQ=255)
atcaAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGc < 1:116442/134‑1 (MQ=255)
tGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCa < 2:188938/93‑1 (MQ=255)
tGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCa > 1:188938/1‑93 (MQ=255)
tGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTc < 1:507470/130‑1 (MQ=255)
tGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTc > 2:507470/1‑130 (MQ=255)
gcccgcGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCg < 1:524534/134‑1 (MQ=255)
ccgcGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTg > 1:405435/1‑134 (MQ=255)
tGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGaa > 1:237355/1‑134 (MQ=255)
aCCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAAtc < 2:237355/134‑1 (MQ=255)
aCCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAAtc < 2:264413/134‑1 (MQ=255)
gagcgCTCGATCAGCAAACGGTTGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCgtggtg > 2:862308/1‑134 (MQ=255)
cTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCg > 2:805491/1‑101 (MQ=255)
cTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCg < 1:805491/101‑1 (MQ=255)
cTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTgcagca < 1:527851/134‑1 (MQ=255)
tCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCa < 2:405435/134‑1 (MQ=255)
cGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATg > 1:299911/1‑134 (MQ=255)
tGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCg < 2:145914/54‑1 (MQ=255)
tGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCg > 1:145914/1‑54 (MQ=255)
tGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGccac > 1:967003/1‑134 (MQ=255)
tGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGccac > 1:41198/1‑134 (MQ=255)
|
TTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGGCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCAC > AM260479/3905407‑3905648
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
GCGTGCTTCGACATGACGAGGTCCGAGGGTTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGGCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCACC > AM260479/3905378‑3905649
|
GCGTGCTTCGACATGACGAGGTCCGAGGGTTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCC < GWNJ‑0478:712:GW2002102894th:2:2109:4099:97930/149‑1 (MQ=60)
GACGAGGTCCGAGGGTTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATC > GWNJ‑0478:712:GW2002102894th:2:2106:15575:9535/1‑150 (MQ=60)
GTCCGAGGGTTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1105:5941:8988/1‑134 (MQ=60)
TCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCtgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1112:4491:10547/1‑124 (MQ=60)
CATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACAC < GWNJ‑0478:712:GW2002102894th:2:1108:7789:83558/150‑1 (MQ=60)
CATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACAC < GWNJ‑0478:712:GW2002102894th:2:2105:15669:93886/150‑1 (MQ=60)
AACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGC > GWNJ‑0478:712:GW2002102894th:2:1211:11104:58210/1‑150 (MQ=60)
GGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAG < GWNJ‑0478:712:GW2002102894th:2:1216:14737:9454/150‑1 (MQ=60)
agatgtgtataagagacagGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGG < GWNJ‑0478:712:GW2002102894th:2:2203:10717:92415/131‑1 (MQ=60)
CGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGG < GWNJ‑0478:712:GW2002102894th:2:2101:20575:8923/150‑1 (MQ=60)
CCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAAT > GWNJ‑0478:712:GW2002102894th:2:1114:19305:77359/1‑150 (MQ=60)
GCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGA < GWNJ‑0478:712:GW2002102894th:2:2101:11123:33897/150‑1 (MQ=60)
CGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGT > GWNJ‑0478:712:GW2002102894th:2:1202:19481:96585/1‑150 (MQ=60)
ATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:1111:12521:61305/1‑84 (MQ=60)
ATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCACC > GWNJ‑0478:712:GW2002102894th:2:1105:12686:85026/1‑150 (MQ=60)
ATATTCGGTTCACCTTGCGCCAGGCCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCACC > GWNJ‑0478:712:GW2002102894th:2:2213:8141:2546/1‑150 (MQ=60)
|
GCGTGCTTCGACATGACGAGGTCCGAGGGTTGCCTCAGCCGATCGTCATCAAACTGGCATTGCCGCCCGCGGCTGCGGTGTTGACCGAAAGCGAGCGCTCGATCAGCAAACGGTCGAGCGCGATATTCGGTTCACCTTGCGCCAGGGCCTGCACGCCGATGATCGGACCGGGGCGCACCGCCACCTGCTCGCACACCGTGCGCAGCTGGTCGGAATCTCCGTGGTGCAGCACCGCATCGATAGCGATGTCCGCCGCGGTCCAGTCGGCCACC > AM260479/3905378‑3905649
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
