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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,431,093 |
Δ1 bp |
coding (2380/2469 nt) |
h16_B2148 → |
membrane carboxypeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,431,092 | 0 | T | . | 100.0%
| 42.8
/ NA
| 11 | coding (2379/2469 nt) | h16_B2148 | membrane carboxypeptidase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (7/4); total (7/4) |
GCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATCCGCC > AM260480/2430984‑2431218
|
gcgTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGAtcggg > 1:701332/1‑109 (MQ=255)
gcgTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGAtcggg < 2:701332/113‑5 (MQ=255)
gAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAgcgc > 1:134094/1‑134 (MQ=255)
ggTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAAcgccg < 2:134094/134‑1 (MQ=255)
ggATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTgcg < 1:182967/97‑1 (MQ=255)
ggATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTgcg > 2:182967/1‑97 (MQ=255)
gATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGc > 1:365490/1‑49 (MQ=39)
gATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGc < 2:365490/49‑1 (MQ=39)
gATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGc > 2:513240/1‑134 (MQ=255)
tGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCtt > 1:451911/1‑134 (MQ=255)
gCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGt > 1:364665/1‑37 (MQ=37)
gCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGt < 2:364665/37‑1 (MQ=37)
gcgcTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATccgcc > 2:150432/1‑134 (MQ=255)
|
GCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATCCGCC > AM260480/2430984‑2431218
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
AGGCCAGCGAGACCCCGGCGCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAAT > AM260480/2430950‑2431213
|
AGGCCAGCGAGACCCCGGCGCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGG < GWNJ‑0478:712:GW2002102894th:2:1210:3856:93604/150‑1 (MQ=60)
gagatgtgtataagagacagGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGAC < GWNJ‑0478:712:GW2002102894th:2:2111:6592:97243/130‑1 (MQ=60)
GCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCtgtctc > GWNJ‑0478:712:GW2002102894th:2:2113:13301:64310/1‑144 (MQ=60)
GCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCT > GWNJ‑0478:712:GW2002102894th:2:1109:19536:91492/1‑150 (MQ=60)
acctcggcctccggcgtgggcagCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCtgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1114:19374:46033/24‑130 (MQ=60)
cggagatgtgtataagagacagATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCC < GWNJ‑0478:712:GW2002102894th:2:1113:3363:76225/127‑1 (MQ=60)
GTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaa > GWNJ‑0478:712:GW2002102894th:2:1208:8637:21157/1‑80 (MQ=60)
GGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTC > GWNJ‑0478:712:GW2002102894th:2:1212:5852:15106/1‑150 (MQ=60)
GCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:1208:4528:16132/1‑68 (MQ=60)
|
AGGCCAGCGAGACCCCGGCGCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAAT > AM260480/2430950‑2431213
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
