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 |
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%
| 34.5
/ NA
| 9 | coding (2379/2469 nt) | h16_B2148 | membrane carboxypeptidase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (4/5); total (4/5) |
GGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACC > AM260480/2430989‑2431158
|
ggccggcGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGAtcg < 1:873271/106‑3 (MQ=255)
ggccggcGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGAtcg > 2:873271/1‑104 (MQ=255)
gTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTgc < 2:846868/134‑1 (MQ=255)
ccGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCAcc < 1:779056/109‑1 (MQ=255)
ccGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCAcc > 2:779056/1‑109 (MQ=255)
tGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAg > 1:35153/1‑64 (MQ=255)
tGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAg < 2:35153/64‑1 (MQ=255)
ggATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAgcgc < 1:620949/66‑1 (MQ=255)
ggATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAgcgc > 2:620949/1‑66 (MQ=255)
gAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCAcc < 1:407754/86‑1 (MQ=255)
gAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCAcc > 2:407754/1‑86 (MQ=255)
|
GGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACC > AM260480/2430989‑2431158
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ 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
CAAGGCCAGCGAGACCCCGGCGCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATCCGCCCGCACCGCCTG > AM260480/2430948‑2431229
|
CAAGGCCAGCGAGACCCCGGCGCCGGGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGG < GWNJ‑0478:712:GW2002102894th:2:2111:2317:21727/150‑1 (MQ=60)
ttcgactcgcttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGG < GWNJ‑0478:712:GW2002102894th:2:2116:12157:37237/62‑1 (MQ=60)
gtataagagacagGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGAT < GWNJ‑0478:712:GW2002102894th:2:2206:20057:100395/136‑1 (MQ=60)
ggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGT < GWNJ‑0478:712:GW2002102894th:2:2108:14773:26508/96‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacaGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACC < GWNJ‑0478:712:GW2002102894th:2:1211:4454:97319/117‑1 (MQ=60)
ataagagacaGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACC < GWNJ‑0478:712:GW2002102894th:2:2201:14465:89709/140‑1 (MQ=60)
ggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagggaTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGC < GWNJ‑0478:712:GW2002102894th:2:1107:19437:84268/93‑1 (MQ=60)
GTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgt > GWNJ‑0478:712:GW2002102894th:2:1105:20454:41799/1‑94 (MQ=60)
GTCCAGCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCtgtctcttatacacatctccgagcccacgagacggagctacatctc > GWNJ‑0478:712:GW2002102894th:2:2109:9296:18163/1‑104 (MQ=60)
GCCTGGCGCTGGA‑TCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATCCGCCCGCACCGCCTG > GWNJ‑0478:712:GW2002102894th:2:2104:5061:68561/1‑150 (MQ=60)
|
CAAGGCCAGCGAGACCCCGGCGCCGCGCCCGGCACCGCGTCGGCCGGCGCTGCCCACGCCGGAGGCCGAGGTCGCGCCGCCGGCCGGCGCGGCATCGTCTGCCGCGGTGGATGTCGGCCCGGATGAGTCCAGCCTGGCGCTGGATTCGGGGGGAGACGGTGATTGCGGTGCCGCAGGACATGAGCGCGGGCAGCGCTCCGGTTGCGCCACCCCCTCAGGCCGAACCAGCGCCTAACGCCGCCCCTGCCTCCCCGGCTTCCGCAAATCCGCCCGCACCGCCTG > AM260480/2430948‑2431229
|
| 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: ‑ |
