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 |
|
A2 F5 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,011,464 |
T→C |
I155V (ATC→GTC) |
fabA ← |
bifunctional 3‑hydroxydecanoyl‑ACP dehydratase/trans‑2‑decenoyl‑ACP isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,011,464 | 0 | T | C | 100.0%
| 40.5
/ NA
| 12 | I155V (ATC→GTC) | fabA | bifunctional 3‑hydroxydecanoyl‑ACP dehydratase/trans‑2‑decenoyl‑ACP isomerase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/4); total (8/4) |
AACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGATCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAAT > NZ_CP009273/1011358‑1011588
|
aaCCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACtt > 1:600/1‑130 (MQ=255)
aaCCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACtt < 2:600/130‑1 (MQ=255)
cTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCa < 1:215036/139‑1 (MQ=255)
cGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAAt > 1:93097/1‑139 (MQ=255)
tttCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAgacg < 2:31121/139‑1 (MQ=255)
aTTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGt < 2:167979/138‑1 (MQ=255)
aCGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACttt > 1:207637/1‑139 (MQ=255)
gACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAg > 1:496872/1‑139 (MQ=255)
aCCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAg > 1:255250/1‑138 (MQ=255)
aCCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAg > 2:129950/1‑138 (MQ=255)
aCCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAg > 2:546242/1‑138 (MQ=255)
gCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAAt > 2:470487/1‑139 (MQ=255)
|
AACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGATCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAAT > NZ_CP009273/1011358‑1011588
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGGACA‑GGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGATCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAATTTCACTTCGCCAACGCCC > NZ_CP009273/1011316‑1011606
|
ggagtaaagattgaaaagagccgccgtttctgttttttttttgcaagcagaaggcggcatacgatatctagtacggtctcgtgggctcggagatgtgtataagagacagTCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACC < SRR3722139.370817/42‑1 (MQ=60)
GACAGGGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAG < SRR3722139.479301/151‑1 (MQ=60)
CTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGC > SRR3722139.609/1‑151 (MQ=60)
CCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATC < SRR3722139.217685/151‑1 (MQ=60)
CCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATC > SRR3722139.94207/1‑151 (MQ=60)
TCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTT > SRR3722139.210224/1‑151 (MQ=60)
CTCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGT > SRR3722139.502619/1‑151 (MQ=60)
TCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGT > SRR3722139.258461/1‑150 (MQ=60)
GTATAGACCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAATTTCACTTCGCCAACGCCC > SRR3722139.206496/1‑150 (MQ=60)
|
CGGACA‑GGGTAGTAATGGCCTGATTCTGTCTCTTTAAAAAGAAACCTCCGCATTGCGGAGGTTTCGCCTTTTGATACTCTGTCTGATTATAATCAGAAGGCAGACGTATCCTGGAACAGACCGACTTTCAGGTCGCTGGCGGTATAGATCAGACGACCATCAACCAGCACTTCGCCATCCGCCAGGCCCATAATCAGACGACGGTTAACAATGCGTTTAAAGTGAATACGGTAGGTCACTTTTTTCGCTGTCGGCAGTACCTGACCAGTGAATTTCACTTCGCCAACGCCC > NZ_CP009273/1011316‑1011606
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
