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 |
637,111 |
+G |
intergenic (‑164/+218) |
adk ← / ← kdsB |
adenylate kinase/3‑Deoxy‑manno‑octulosonate cytidylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 637,107 | 1 | . | G | 100.0%
| 104.0
/ NA
| 27 | intergenic (‑160/+222) | adk/kdsB | adenylate kinase/3‑Deoxy‑manno‑octulosonate cytidylyltransferase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (13/14); total (13/14) |
GGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCAT > AM260479/636978‑637225
|
ggCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑gggg > 1:191991/1‑134 (MQ=255)
aGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGgcggcgc > 1:158061/1‑134 (MQ=255)
aCGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGAc > 2:276575/1‑134 (MQ=255)
cGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg < 2:222372/134‑1 (MQ=255)
cGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg < 2:138165/134‑1 (MQ=255)
cGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGc < 1:339991/134‑1 (MQ=255)
aCTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTa > 2:7626/1‑134 (MQ=255)
cTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCTGCACAcc < 1:31211/97‑1 (MQ=255)
cTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCTGCACAcc > 2:31211/1‑97 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGc > 2:954449/1‑104 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGc < 1:954449/104‑1 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGc > 2:986199/1‑134 (MQ=255)
gACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGc > 1:590454/1‑134 (MQ=255)
cTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCtt > 1:130734/1‑134 (MQ=255)
cgGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATgccggc < 1:986199/134‑1 (MQ=255)
gCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTa < 2:130734/134‑1 (MQ=255)
cGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTAt < 2:124058/134‑1 (MQ=255)
cGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTAt < 1:7626/134‑1 (MQ=255)
aCGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAg < 2:590454/134‑1 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTa < 1:792718/66‑1 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTa > 2:792718/1‑66 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAg > 2:195241/1‑133 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAg > 1:3719/1‑133 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGc < 2:504639/134‑1 (MQ=255)
aCGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGggc > 1:952404/1‑111 (MQ=255)
aCGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGggc < 2:952404/111‑1 (MQ=255)
aCGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTAt > 2:147289/1‑134 (MQ=255)
cggcggcggCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCAt < 1:147289/134‑1 (MQ=255)
|
GGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCAT > AM260479/636978‑637225
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCCGAAATCCGCCC > AM260479/636963‑637257
|
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGG > GWNJ‑0478:712:GW2002102894th:2:1112:8850:33161/1‑150 (MQ=60)
GTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCG > GWNJ‑0478:712:GW2002102894th:2:1110:11108:32766/1‑150 (MQ=60)
cggagatgtgtataagagacagGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCTGCACACCGGACGGGCTCTATCT < GWNJ‑0478:712:GW2002102894th:2:1105:8068:19673/127‑1 (MQ=60)
ttcatggcttctttgttctactttcttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATC < GWNJ‑0478:712:GW2002102894th:2:1213:12798:88196/42‑1 (MQ=60)
acttttcttgtttgtttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTC < GWNJ‑0478:712:GW2002102894th:2:1203:10564:23269/53‑1 (MQ=60)
CCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCC < GWNJ‑0478:712:GW2002102894th:2:1207:15150:75836/150‑1 (MQ=60)
gtgtataagagaCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCC < GWNJ‑0478:712:GW2002102894th:2:2212:8300:57811/137‑1 (MQ=60)
ggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCC < GWNJ‑0478:712:GW2002102894th:2:2203:14094:37699/96‑1 (MQ=60)
GACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgt > GWNJ‑0478:712:GW2002102894th:2:1201:8568:60335/1‑101 (MQ=60)
GTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCT > GWNJ‑0478:712:GW2002102894th:2:2107:4712:6668/1‑150 (MQ=60)
CCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTG > GWNJ‑0478:712:GW2002102894th:2:1109:14524:70748/1‑150 (MQ=60)
GCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTAT < GWNJ‑0478:712:GW2002102894th:2:2214:16562:34253/150‑1 (MQ=60)
GCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGC > GWNJ‑0478:712:GW2002102894th:2:1101:17379:29689/1‑149 (MQ=60)
GCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaagaaaaaatgacaaagcatattcacctg > GWNJ‑0478:712:GW2002102894th:2:2205:5779:73225/1‑44 (MQ=60)
GGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCActgtctctt > GWNJ‑0478:712:GW2002102894th:2:2212:12313:46716/1‑141 (MQ=60)
GGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGgatggctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaatggactgagtccgcaagggtcaagtga > GWNJ‑0478:712:GW2002102894th:2:1216:18450:62513/1‑39 (MQ=60)
GCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGC < GWNJ‑0478:712:GW2002102894th:2:1101:5398:57256/150‑1 (MQ=60)
CCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAAT < GWNJ‑0478:712:GW2002102894th:2:1111:13319:69489/150‑1 (MQ=60)
gacagGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCCGAAATC < GWNJ‑0478:712:GW2002102894th:2:1214:18329:99972/145‑1 (MQ=60)
GCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCCGAAATC > GWNJ‑0478:712:GW2002102894th:2:2214:16341:17387/1‑150 (MQ=60)
GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaacaagaagaaaaaacattataaaagtagttt > GWNJ‑0478:712:GW2002102894th:2:1115:6776:68555/1‑42 (MQ=60)
|
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCCGAAATCCGCCC > AM260479/636963‑637257
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
