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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
832,557 |
T→C |
S251P (TCC→CCC) |
hcxB → |
hydroxycarboxylate dehydrogenase HcXB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 832,557 | 0 | T | C | 100.0%
| 110.0
/ NA
| 31 | S251P (TCC→CCC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/15); total (16/15) |
GTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAA > NZ_CP009273/832472‑832639
|
gTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCcggc > 1:489607/1‑91 (MQ=255)
ccGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTa < 1:739716/91‑1 (MQ=255)
gTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAacgac < 1:262756/91‑1 (MQ=255)
ttCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAacgacg < 1:59740/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 2:503853/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 1:97751/91‑1 (MQ=255)
gCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAc > 2:47907/1‑91 (MQ=255)
gCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAc > 1:541359/1‑91 (MQ=255)
aaGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTcc > 1:711689/1‑91 (MQ=255)
cTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGAt > 1:396112/1‑91 (MQ=255)
tACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATg > 1:262214/1‑91 (MQ=255)
tACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATg > 1:646902/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 1:553768/91‑1 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 1:507109/91‑1 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 2:48825/91‑1 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc > 1:372323/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 2:262214/91‑1 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCt > 1:305317/1‑91 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCt > 1:409188/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 2:109949/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 2:495638/1‑91 (MQ=255)
gtgtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATg < 2:305317/91‑1 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc > 1:587224/1‑91 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc < 1:131947/91‑1 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc > 2:50938/1‑91 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAc < 2:646902/91‑1 (MQ=255)
aaaTTCTTGGCGGGGCGCCTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCAc < 1:718784/91‑1 (MQ=255)
tCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTatc > 1:420195/1‑91 (MQ=255)
cGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTatcatcatc < 1:711123/91‑1 (MQ=255)
cGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTatcatcatc < 2:539683/91‑1 (MQ=255)
gggCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCaa > 2:780632/1‑91 (MQ=255)
|
GTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAA > NZ_CP009273/832472‑832639
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGC > NZ_CP009273/832462‑832655
|
TAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGC > SRR3722118.499977/1‑101 (MQ=60)
CCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCA < SRR3722118.755991/101‑1 (MQ=60)
GTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAA < SRR3722118.268103/101‑1 (MQ=60)
TTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAA < SRR3722118.60846/101‑1 (MQ=60)
GTCGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAC > SRR3722118.552844/1‑101 (MQ=60)
CCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACC < SRR3722118.99541/101‑1 (MQ=60)
GCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCC > SRR3722118.727289/1‑101 (MQ=60)
AACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGAT > SRR3722118.404422/1‑101 (MQ=60)
ACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722118.660857/1‑101 (MQ=60)
ACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722118.267557/1‑101 (MQ=60)
CATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGC > SRR3722118.380106/1‑101 (MQ=60)
GGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCT > SRR3722118.417769/1‑101 (MQ=60)
GGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCT > SRR3722118.311591/1‑101 (MQ=60)
ACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAAC < SRR3722118.517859/101‑1 (MQ=60)
ACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAAC < SRR3722118.565510/101‑1 (MQ=60)
GCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGAC > SRR3722118.599680/1‑101 (MQ=60)
TGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATC > SRR3722118.429065/1‑101 (MQ=60)
GTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATC < SRR3722118.134448/101‑1 (MQ=60)
AAATTCTTGGCGGGGCGCCTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATC < SRR3722118.734556/101‑1 (MQ=60)
CGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAAC < SRR3722118.726711/101‑1 (MQ=60)
TTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGC < SRR3722118.683034/101‑1 (MQ=60)
|
TAATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAACTCTTCGGC > NZ_CP009273/832462‑832655
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
