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
|
66 |
46.7 |
5280542 |
98.1% |
5180211 |
47.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
3,242,636 |
+A |
intergenic (‑1/+279) |
ygfF ← / ← gcvP |
SDR family oxidoreductase/aminomethyl‑transferring glycine dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 3,242,635 | 1 | . | A | 100.0%
| 133.3
/ NA
| 35 | M1M (GTG→TTG) † | ygfF | SDR family oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (16/19); total (16/19) |
ACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCG > NC_017635/3242590‑3242675
|
aCAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTcac‑aa < 1:874873/48‑2 (MQ=255)
aCAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTcac‑aa < 1:1985255/48‑2 (MQ=255)
cAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTcac‑aag > 1:1221511/1‑46 (MQ=255)
cAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTcac‑aag > 2:1538349/1‑46 (MQ=255)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCta < 2:2011887/48‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 1:1034335/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 2:417286/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 2:31183/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 1:185621/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 2:2368504/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 2:2142483/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 2:1845450/47‑1 (MQ=39)
aTGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCt < 1:2346536/47‑1 (MQ=39)
tGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCtat < 1:2126210/48‑1 (MQ=39)
gCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCta > 1:247064/1‑46 (MQ=39)
gCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCta > 1:2314162/1‑46 (MQ=39)
gCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCta > 1:608929/1‑46 (MQ=39)
gCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCta > 1:901007/1‑46 (MQ=39)
cAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAg < 1:1595585/48‑1 (MQ=39)
ttGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCa > 2:837635/1‑48 (MQ=39)
ttGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCa > 2:2585132/1‑48 (MQ=39)
ttGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCa < 2:107564/48‑1 (MQ=39)
ttGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCa > 1:944528/1‑48 (MQ=39)
ttGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCa > 1:1596056/1‑48 (MQ=39)
tGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAt > 2:2195007/1‑48 (MQ=39)
tGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAt > 1:587121/1‑48 (MQ=39)
tGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAt > 1:1950997/1‑48 (MQ=39)
gcccgcccGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAt < 1:2475026/47‑1 (MQ=39)
ccgcccgATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTg > 2:1969908/1‑48 (MQ=39)
gcccgATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGtt < 1:149165/48‑1 (MQ=39)
cccgATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGttt < 1:859444/48‑1 (MQ=39)
tGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTcc > 2:404536/1‑47 (MQ=255)
tGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTcc > 2:42868/1‑47 (MQ=255)
ccGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCgag < 1:1830515/48‑1 (MQ=255)
cgACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGaaa < 1:1872072/48‑1 (MQ=255)
tGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAaat > 2:127556/1‑47 (MQ=255)
cACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAaattaat > 1:1569304/1‑48 (MQ=255)
ccGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTc < 1:315402/48‑1 (MQ=255)
cGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCg < 2:1502735/48‑1 (MQ=255)
|
ACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCG > NC_017635/3242590‑3242675
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGTATCT > NC_017635/3242589‑3242686
|
AACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑Aagt > M01420:84:000000000‑ABVEH:1:1111:18078:13851/1‑48 (MQ=60)
AACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑Aagt < M01420:84:000000000‑ABVEH:1:2103:22557:25613/51‑4 (MQ=60)
AACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑Aagt < M01420:84:000000000‑ABVEH:1:1108:10070:15408/51‑4 (MQ=60)
AATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT < M01420:84:000000000‑ABVEH:1:2107:14075:4232/50‑1 (MQ=60)
AATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT < M01420:84:000000000‑ABVEH:1:1109:16131:23713/50‑1 (MQ=60)
AATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT < M01420:84:000000000‑ABVEH:1:1102:23477:17636/50‑1 (MQ=60)
ATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAG < M01420:84:000000000‑ABVEH:1:2105:10870:7306/51‑1 (MQ=60)
ATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT > M01420:84:000000000‑ABVEH:1:1106:19460:9279/1‑49 (MQ=60)
ATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT > M01420:84:000000000‑ABVEH:1:1103:23816:6616/1‑49 (MQ=60)
ATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT > M01420:84:000000000‑ABVEH:1:2106:19493:21582/1‑49 (MQ=60)
ATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTAT > M01420:84:000000000‑ABVEH:1:1108:13396:20428/1‑49 (MQ=60)
GCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCC < M01420:84:000000000‑ABVEH:1:1114:12747:16659/51‑1 (MQ=60)
AGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAT > M01420:84:000000000‑ABVEH:1:1114:7628:16751/1‑51 (MQ=60)
AGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCAT > M01420:84:000000000‑ABVEH:1:1109:19314:5508/1‑51 (MQ=60)
GTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATT > M01420:84:000000000‑ABVEH:1:2103:6891:18071/1‑51 (MQ=60)
GTTGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATT > M01420:84:000000000‑ABVEH:1:1106:12892:4020/1‑51 (MQ=60)
TGCCCGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTT < M01420:84:000000000‑ABVEH:1:2108:14048:6889/50‑1 (MQ=60)
CGCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTT < M01420:84:000000000‑ABVEH:1:1102:22952:10519/51‑1 (MQ=60)
GCCCGATGCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTT < M01420:84:000000000‑ABVEH:1:1108:11537:12447/51‑1 (MQ=60)
cctgTGCCGCGACTGCCTCCGGTCACAAGTGCTATAGCCATTTGTTTTTCC < M01420:84:000000000‑ABVEH:1:1104:16193:7754/47‑1 (MQ=60)
GCCGCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAA < M01420:84:000000000‑ABVEH:1:2102:26713:16999/51‑1 (MQ=60)
GCGACTGCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAA < M01420:84:000000000‑ABVEH:1:2102:12556:26150/51‑1 (MQ=60)
GCCACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATT > M01420:84:000000000‑ABVEH:1:1114:17830:11759/1‑51 (MQ=60)
ACCGGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGT < M01420:84:000000000‑ABVEH:1:1103:7546:20244/51‑1 (MQ=60)
GGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTG > M01420:84:000000000‑ABVEH:1:1114:15750:24660/1‑50 (MQ=60)
GGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTG > M01420:84:000000000‑ABVEH:1:1114:21819:4634/1‑50 (MQ=60)
GGTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTG > M01420:84:000000000‑ABVEH:1:2109:21985:24438/1‑50 (MQ=60)
GTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGAC < M01420:84:000000000‑ABVEH:1:1111:28468:18519/51‑1 (MQ=60)
GTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGAC > M01420:84:000000000‑ABVEH:1:2109:7307:19751/1‑51 (MQ=60)
GTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGAC < M01420:84:000000000‑ABVEH:1:1102:22228:14483/51‑1 (MQ=60)
GTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGAC < M01420:84:000000000‑ABVEH:1:1108:28982:15627/51‑1 (MQ=60)
GTCACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGAC < M01420:84:000000000‑ABVEH:1:1103:17171:3433/51‑1 (MQ=60)
CACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGT < M01420:84:000000000‑ABVEH:1:2113:9589:15132/51‑1 (MQ=60)
CACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGT < M01420:84:000000000‑ABVEH:1:2108:13730:13631/51‑1 (MQ=60)
CACAAGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGT < M01420:84:000000000‑ABVEH:1:1110:8396:24130/51‑1 (MQ=60)
AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGTATCT < M01420:84:000000000‑ABVEH:1:2105:20835:7141/51‑1 (MQ=60)
AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGTATCT < M01420:84:000000000‑ABVEH:1:1111:7395:7749/51‑1 (MQ=60)
|
AACAGTAATGCAGTTGCCCGCCCGATGCCGCGACTGCCACCGGTCAC‑AGTGCTATAGCCATTTGTTTTTCCGAGAAAAATTAATTCGTTGACGTATCT > NC_017635/3242589‑3242686
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
