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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,089,440 |
Δ1 bp |
intergenic (+115/‑17) |
h16_A0996 → / → h16_A0997 |
FAD/FMN‑containing dehydrogenase/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,089,439 | 0 | C | . | 100.0%
| 78.1
/ NA
| 18 | intergenic (+114/‑18) | h16_A0996/h16_A0997 | FAD/FMN‑containing dehydrogenase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (8/10); total (8/10) |
TCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAAC > AM260479/1089313‑1089538
|
tCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGga > 2:483127/1‑132 (MQ=255)
ggcgTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGagag > 1:596793/1‑129 (MQ=255)
gTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGcagat > 1:356114/1‑131 (MQ=255)
aCTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGcagatcagat < 1:483127/133‑1 (MQ=255)
gCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAg > 1:330132/1‑134 (MQ=255)
gACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCagag > 1:277074/1‑134 (MQ=255)
aggcaggAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTg < 2:330132/134‑1 (MQ=255)
gcaggAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGt > 1:230616/1‑134 (MQ=255)
aaGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTgcggc < 2:928556/134‑1 (MQ=255)
aGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTgcggcg < 1:387529/134‑1 (MQ=255)
gggCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAAc > 2:854559/1‑134 (MQ=255)
gCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGa < 2:356114/134‑1 (MQ=255)
ggTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGt < 1:854559/134‑1 (MQ=255)
gTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTg < 2:596793/134‑1 (MQ=255)
tGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATccacagg > 2:299280/1‑69 (MQ=255)
tGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATccacagg < 1:299280/72‑4 (MQ=255)
cccGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGactac > 1:44648/1‑134 (MQ=255)
cTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTacg < 2:277074/134‑1 (MQ=255)
ggCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCgaactggaac < 1:723911/134‑1 (MQ=255)
ggCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCgaactggaac < 1:72802/134‑1 (MQ=255)
|
TCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAAC > AM260479/1089313‑1089538
|
| 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
CAACATCAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCACCTGG > AM260479/1089304‑1089586
|
CAACATCAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATC < GWNJ‑0478:712:GW2002102894th:2:1111:1364:88481/150‑1 (MQ=60)
CAACATCAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGC > GWNJ‑0478:712:GW2002102894th:2:2103:18637:50041/1‑145 (MQ=60)
gtcatgtggctgttagttcggtgtatttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATC < GWNJ‑0478:712:GW2002102894th:2:2115:18048:41738/41‑1 (MQ=60)
CATCAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATC > GWNJ‑0478:712:GW2002102894th:2:1204:3183:59976/1‑147 (MQ=60)
cgagattagcgagtgtctcgtgggctcggagatgtgtataagagacAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGAT < GWNJ‑0478:712:GW2002102894th:2:1203:19216:7988/104‑1 (MQ=60)
TAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGC > GWNJ‑0478:712:GW2002102894th:2:1205:9977:3894/1‑150 (MQ=60)
AACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGC < GWNJ‑0478:712:GW2002102894th:2:1213:21185:50840/149‑1 (MQ=60)
gtttcttatgcggcctttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGT < GWNJ‑0478:712:GW2002102894th:2:2110:14433:48100/55‑1 (MQ=60)
GGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGT > GWNJ‑0478:712:GW2002102894th:2:1116:15128:66514/1‑150 (MQ=60)
AATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTG > GWNJ‑0478:712:GW2002102894th:2:1115:20565:28570/1‑150 (MQ=60)
AAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGT < GWNJ‑0478:712:GW2002102894th:2:1206:5775:42053/150‑1 (MQ=60)
GGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACT > GWNJ‑0478:712:GW2002102894th:2:1105:19160:81032/1‑150 (MQ=60)
GGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGA < GWNJ‑0478:712:GW2002102894th:2:2116:16907:97282/150‑1 (MQ=60)
CGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAG < GWNJ‑0478:712:GW2002102894th:2:2111:13784:19039/150‑1 (MQ=60)
CGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAG < GWNJ‑0478:712:GW2002102894th:2:1104:4359:60561/150‑1 (MQ=60)
GGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaacagaataaaagc > GWNJ‑0478:712:GW2002102894th:2:2104:11351:49105/1‑60 (MQ=60)
GAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCctgtctcttatacacatctcagagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaaga > GWNJ‑0478:712:GW2002102894th:2:1215:8387:31881/1‑62 (MQ=60)
CGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGT > GWNJ‑0478:712:GW2002102894th:2:2216:3615:22621/1‑150 (MQ=60)
GTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCAC > GWNJ‑0478:712:GW2002102894th:2:1203:15391:13814/1‑150 (MQ=60)
ATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACtgtctcttatacacatcttccgagcccacgagacactcgctaatctcgtatgccgtcttctgctt > GWNJ‑0478:712:GW2002102894th:2:2113:3392:5653/1‑85 (MQ=60)
TCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaac > GWNJ‑0478:712:GW2002102894th:2:2113:20311:34400/1‑72 (MQ=60)
TCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:2204:20174:11338/1‑81 (MQ=60)
caCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaa > GWNJ‑0478:712:GW2002102894th:2:1107:15810:46754/3‑79 (MQ=60)
|
CAACATCAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCACCTGG > AM260479/1089304‑1089586
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
