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 |
AM260480 |
274,470 |
(G)10→9 |
intergenic (+18/‑626) |
h16_B0246 → / → fhaB |
Hypothetical protein/filamentous hemagglutinin / adhesin |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 274,461 | 0 | G | . | 100.0%
| 99.7
/ NA
| 23 | intergenic (+9/‑635) | h16_B0246/fhaB | Hypothetical protein/filamentous hemagglutinin / adhesin |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (10/13); total (10/13) |
GGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGC > AM260480/274332‑274582
|
ggTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggg > 2:115233/1‑134 (MQ=255)
ggTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggg < 2:404842/134‑1 (MQ=255)
tCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggggggg > 1:567192/1‑132 (MQ=255)
gggATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAAt < 2:1020564/134‑1 (MQ=255)
gATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCg < 1:665954/134‑1 (MQ=255)
gAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCcg < 1:1057812/134‑1 (MQ=255)
cccTCGCGCCCTGTCTGGCGGATGAGGCGCAGGTTTTGAGTTAGCTGGCCGTGCTGAAGGGTCAGGTATTGCAAACTGAATGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAACCGGCTGCCGCGCGCCTCCTCg < 2:1066781/133‑1 (MQ=255)
gcgcATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCgg > 1:1095794/1‑117 (MQ=255)
gcgcATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCgg < 2:1095794/117‑1 (MQ=255)
agaCGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGAtt < 1:115233/133‑1 (MQ=255)
cGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCa > 1:470578/1‑133 (MQ=255)
gCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCaaa < 1:882932/134‑1 (MQ=255)
ttGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCg > 2:761579/1‑71 (MQ=255)
ttGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCg < 1:761579/71‑1 (MQ=255)
gtgagCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggg > 1:672858/1‑57 (MQ=255)
gtgagCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggg < 2:672858/57‑1 (MQ=255)
gCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCa < 1:1035353/134‑1 (MQ=255)
tgctgcAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCa > 1:326190/1‑109 (MQ=255)
tgctgcAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCa < 2:326190/109‑1 (MQ=255)
gctgcAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGAc > 1:406525/1‑134 (MQ=255)
aGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCAt < 2:567192/134‑1 (MQ=255)
cAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGc > 1:1034636/1‑134 (MQ=255)
gactgactGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGc < 2:771658/46‑1 (MQ=255)
gactgactGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGc > 1:771658/1‑46 (MQ=255)
ctgactgaCGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGgcg > 2:1094718/1‑132 (MQ=255)
actgacGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCt < 2:1073058/39‑1 (MQ=255)
actgacGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCt > 1:1073058/1‑39 (MQ=255)
tgacGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGc > 1:247836/1‑132 (MQ=255)
|
GGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGC > AM260480/274332‑274582
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGTCTGGATCCGGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAA > AM260480/274321‑274611
|
AGTCTGGATCCGGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGC < GWNJ‑0478:712:GW2002102894th:2:2116:15846:64383/150‑1 (MQ=60)
TCTGGATCCGGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGC > GWNJ‑0478:712:GW2002102894th:2:1216:14039:63781/1‑148 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCG < GWNJ‑0478:712:GW2002102894th:2:2110:7999:82455/102‑1 (MQ=60)
GGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCcccccgc < GWNJ‑0478:712:GW2002102894th:2:2107:19881:59815/150‑8 (MQ=60)
GGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCG < GWNJ‑0478:712:GW2002102894th:2:2210:20019:86623/150‑1 (MQ=60)
CTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCtg > GWNJ‑0478:712:GW2002102894th:2:2213:15603:74993/1‑148 (MQ=60)
GGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAA > GWNJ‑0478:712:GW2002102894th:2:1213:6907:2407/1‑149 (MQ=60)
GAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAAC < GWNJ‑0478:712:GW2002102894th:2:1108:16197:16349/149‑1 (MQ=60)
AGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAActgtctcttatacacatctccgagcacacgagacactcgctaatctcgtatgccgtcttctgc > GWNJ‑0478:712:GW2002102894th:2:2107:17644:98127/1‑87 (MQ=60)
CGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACAC < GWNJ‑0478:712:GW2002102894th:2:2201:3513:87260/150‑1 (MQ=60)
TGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1202:16104:70802/1‑139 (MQ=60)
GAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACG > GWNJ‑0478:712:GW2002102894th:2:1208:9038:54627/1‑150 (MQ=60)
GGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGC < GWNJ‑0478:712:GW2002102894th:2:2211:3052:70980/150‑1 (MQ=60)
GCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCC > GWNJ‑0478:712:GW2002102894th:2:2211:10951:67250/1‑150 (MQ=60)
GGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2113:17718:33564/1‑77 (MQ=60)
ggagatgtgtataagagacagCGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCGTCACGCCGAGTCGGGCGCAGGC < GWNJ‑0478:712:GW2002102894th:2:1108:9310:5577/129‑1 (MQ=60)
AGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2212:8823:64727/1‑69 (MQ=60)
GTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCG > GWNJ‑0478:712:GW2002102894th:2:1114:10754:20107/1‑148 (MQ=60)
GACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTctgtctctt > GWNJ‑0478:712:GW2002102894th:2:2113:3295:32809/1‑141 (MQ=60)
GGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:1114:21073:22147/1‑81 (MQ=60)
|
AGTCTGGATCCGGTGGATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAA > AM260480/274321‑274611
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
