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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
1,326,761 |
+G |
intergenic (+62/‑108) |
h16_B1172 → / → h16_B1173 |
Amidase/MFS transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,326,760 | 1 | . | G | 100.0%
| 69.6
/ NA
| 19 | intergenic (+61/‑109) | h16_B1172/h16_B1173 | Amidase/MFS transporter |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (13/6); total (13/6) |
GCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCA > AM260480/1326630‑1326878
|
gCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAA‑g < 1:375642/134‑1 (MQ=255)
gCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAA‑ggtcg > 2:353167/1‑130 (MQ=255)
gCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAg > 2:190397/1‑134 (MQ=255)
aCGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGgcg < 1:190397/134‑1 (MQ=255)
aCGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGgcg < 1:353167/134‑1 (MQ=255)
cGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACga > 2:554167/1‑113 (MQ=255)
cGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACga < 1:554167/113‑1 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg < 2:953948/87‑1 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg > 1:953948/1‑87 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAAt > 1:763994/1‑134 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAAt > 1:263225/1‑134 (MQ=255)
ggAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAAtt > 2:549550/1‑134 (MQ=255)
ggAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAAtt > 2:568085/1‑134 (MQ=255)
tctACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTc > 2:280302/1‑133 (MQ=255)
gccggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGc < 1:716450/114‑1 (MQ=255)
gccggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGc > 2:716450/5‑118 (MQ=255)
gccggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCt > 2:1008259/5‑119 (MQ=255)
gccggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCt < 1:1008259/115‑1 (MQ=255)
gccggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCatgga > 2:462265/5‑134 (MQ=255)
ggACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCatggatgg > 1:56347/2‑134 (MQ=255)
acacggcggcgACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCa > 1:432947/6‑134 (MQ=255)
|
GCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCA > AM260480/1326630‑1326878
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
TGATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGAAGATCATC > AM260480/1326623‑1326910
|
gacagCGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGAC < GWNJ‑0478:712:GW2002102894th:2:1105:11494:51392/145‑1 (MQ=60)
tatcatttttttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGAC < GWNJ‑0478:712:GW2002102894th:2:2203:5795:5742/56‑1 (MQ=30)
GGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCG < GWNJ‑0478:712:GW2002102894th:2:1209:16721:6605/150‑1 (MQ=60)
gagacagGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGAT < GWNJ‑0478:712:GW2002102894th:2:2102:7809:84323/143‑1 (MQ=60)
GACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTC < GWNJ‑0478:712:GW2002102894th:2:1112:4585:24004/150‑1 (MQ=60)
GACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTC < GWNJ‑0478:712:GW2002102894th:2:1206:20125:68263/150‑1 (MQ=60)
GGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGActgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2212:2919:86328/1‑117 (MQ=60)
GGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATT > GWNJ‑0478:712:GW2002102894th:2:1201:18906:75216/1‑150 (MQ=60)
GGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATT > GWNJ‑0478:712:GW2002102894th:2:2116:1915:85936/1‑150 (MQ=60)
agGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGG < GWNJ‑0478:712:GW2002102894th:2:2115:19248:4424/148‑1 (MQ=60)
GGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGA < GWNJ‑0478:712:GW2002102894th:2:2215:17067:93996/150‑1 (MQ=60)
CTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGC > GWNJ‑0478:712:GW2002102894th:2:1102:8206:85682/1‑150 (MQ=60)
ACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCAT > GWNJ‑0478:712:GW2002102894th:2:1213:9924:41008/1‑150 (MQ=60)
GACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGAAG < GWNJ‑0478:712:GW2002102894th:2:2102:16029:51298/150‑1 (MQ=60)
CAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGAAGAT < GWNJ‑0478:712:GW2002102894th:2:2105:2020:79710/150‑1 (MQ=60)
GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGActgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:1109:8001:87081/1‑113 (MQ=60)
GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGActgtctct > GWNJ‑0478:712:GW2002102894th:2:1106:18850:34412/1‑142 (MQ=60)
GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGAAGATCATC < GWNJ‑0478:712:GW2002102894th:2:2107:3373:37414/150‑1 (MQ=60)
|
TGATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGCATCGGGGTGACGGCATCGCACAAGAAGATCATC > AM260480/1326623‑1326910
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
