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 |
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%
| 81.6
/ NA
| 19 | intergenic (+9/‑635) | h16_B0246/fhaB | Hypothetical protein/filamentous hemagglutinin / adhesin |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (10/9); total (10/9) |
GATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTT > AM260480/274336‑274589
|
gATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggggggg > 2:185534/1‑134 (MQ=255)
aTCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCggggggggg > 2:930976/1‑133 (MQ=255)
ggggATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCaa < 1:185534/134‑1 (MQ=255)
cttgcttTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCgcgcgc > 2:524711/1‑134 (MQ=255)
tCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGcctc < 1:433481/130‑1 (MQ=255)
tCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGcctc > 2:433481/1‑130 (MQ=255)
agaCGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGAttt < 2:343867/134‑1 (MQ=255)
ggTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCg > 1:223686/1‑134 (MQ=255)
ttGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCa < 1:45811/125‑1 (MQ=255)
ttGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCa > 2:45811/1‑125 (MQ=255)
ggCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCcgcgc > 1:460780/1‑78 (MQ=255)
ggCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCcgcgc < 2:460780/78‑1 (MQ=255)
cAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGc < 2:491516/132‑1 (MQ=255)
gTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGgc > 1:483253/1‑70 (MQ=255)
gTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGgc < 2:483253/70‑1 (MQ=255)
ttGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTc > 2:634665/1‑134 (MQ=255)
ctgactgaCGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGAtt < 2:448834/82‑1 (MQ=255)
ctgactgaCGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGAtt > 1:448834/1‑82 (MQ=255)
ctgactgaCGTTTAGC‑GAGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGgcg > 2:77535/1‑132 (MQ=255)
acGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCgaga > 1:695549/1‑134 (MQ=255)
tttAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACtt < 1:634665/134‑1 (MQ=255)
|
GATCTGGAGCAGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTT > AM260480/274336‑274589
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ 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
AGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAAC > AM260480/274346‑274612
|
AGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCcccccc < GWNJ‑0478:712:GW2002102894th:2:1113:3746:94486/150‑7 (MQ=60)
GCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTC < GWNJ‑0478:712:GW2002102894th:2:1213:4571:33871/149‑1 (MQ=60)
GGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGG > GWNJ‑0478:712:GW2002102894th:2:1114:5529:13008/1‑150 (MQ=60)
gcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagaaagGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCA < GWNJ‑0478:712:GW2002102894th:2:2216:1811:58100/97‑1 (MQ=60)
GACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCAC < GWNJ‑0478:712:GW2002102894th:2:1102:10687:15616/150‑1 (MQ=60)
GGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCctgtctcttatacacatctccgagcccacgagacggagctac > GWNJ‑0478:712:GW2002102894th:2:1212:3943:85887/1‑108 (MQ=60)
agctgtagctccgtctcgtgggctcggagatgtgtataagagacagCGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACG < GWNJ‑0478:712:GW2002102894th:2:2110:17883:36363/104‑1 (MQ=60)
GTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCtgtctcttatacacatctccgagcccacgagacggagctacatctcgt > GWNJ‑0478:712:GW2002102894th:2:1214:3002:3175/1‑101 (MQ=60)
GTCAGGTATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCtgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:1212:14275:19323/1‑113 (MQ=60)
ATTGCAGACTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGAC > GWNJ‑0478:712:GW2002102894th:2:2113:2427:55111/1‑150 (MQ=60)
ggagatgtgtataagagacaGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGC < GWNJ‑0478:712:GW2002102894th:2:1216:15582:11228/130‑1 (MQ=60)
CTGACTGACGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGT > GWNJ‑0478:712:GW2002102894th:2:2212:4548:5235/1‑150 (MQ=60)
CGTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACC > GWNJ‑0478:712:GW2002102894th:2:2105:3478:45162/1‑150 (MQ=60)
GTTTAGC‑GGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCG < GWNJ‑0478:712:GW2002102894th:2:2108:15546:92694/150‑1 (MQ=60)
GGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAAC > GWNJ‑0478:712:GW2002102894th:2:2105:17044:97685/1‑150 (MQ=60)
GGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAAC > GWNJ‑0478:712:GW2002102894th:2:2114:19895:46615/1‑150 (MQ=60)
|
AGGGGATGTGGGAAAGCTTGCTTTCCCTCGCGGCCTGGCTGGCGCATGAGACGCAGGTGTTGAGTGAGCTGGCCGTGCTGCAGGGTCAGGTATTGCAGACTGACTGACGTTTAGCGGGGGGGGGGCAGCCGTGCAATCGGCTGCCGCGCGCCTCCTCGGCGCGCAGGTCAACTTCCCCGATTTCAAAGCGGTTGAACCACACGGCAAAGACGCCATCACGCCGAGTCGGGCGCAGGCGAGACTTCGCCGTGCGCCACCGAGGCAAAC > AM260480/274346‑274612
|
| 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: ‑ |
