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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
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%
| 123.9
/ NA
| 35 | S251P (TCC→CCC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/15); total (20/15) |
GTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACC > NZ_CP009273/832472‑832641
|
gTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCcggc < 2:1066181/91‑1 (MQ=255)
cGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCcggcgg > 1:575978/1‑91 (MQ=255)
gTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAg < 1:547082/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGTCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 1:225434/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 2:947168/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 2:575978/91‑1 (MQ=255)
ccTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAAc < 2:547259/91‑1 (MQ=255)
ttGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGtt > 1:1070810/1‑91 (MQ=255)
gCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAc < 2:711680/91‑1 (MQ=255)
tAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGCCGCATCAGGCAACGTTACAACCCCGt > 2:681399/1‑91 (MQ=255)
tACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATg > 1:870801/1‑91 (MQ=255)
tACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATg > 1:594902/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCCTCAGGAAACGTTACAAACCAGTCCCGATGc > 1:979300/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc > 2:1039331/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 1:395941/91‑1 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc > 2:171626/1‑91 (MQ=255)
aCGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 1:169065/91‑1 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCt > 2:100802/1‑91 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCt > 1:733616/1‑91 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCt > 1:1122431/1‑91 (MQ=255)
ttGCAGCGATGTGTGAAATTCTTGGCGGGGAGCTTCCCGGTGGCCAAACGACGCATCAGGCACCGTTTCAAACCAGGCCCGCTGCCATTCt > 2:522133/1‑91 (MQ=255)
gCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACt < 1:1049768/91‑1 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACTTTACAAACCAGTCCCGATGCCATTCTTACCTGc > 2:900407/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 1:713893/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 2:52754/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 2:418254/1‑91 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc < 1:100802/91‑1 (MQ=255)
gATGTGTGAAATTCTTGGCGGGGCGCTTCCCAGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGc > 2:1066736/1‑91 (MQ=255)
tgtgtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAg < 2:675722/67‑1 (MQ=255)
tgtgtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAg > 1:675722/1‑67 (MQ=255)
gtgtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATg > 1:414582/1‑91 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc > 2:405093/1‑73 (MQ=255)
gtgAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGc < 1:405093/73‑1 (MQ=255)
aaaTTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTACCTGCATGACCAc < 1:1096299/91‑1 (MQ=255)
cGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTatcatcatc < 1:1039331/91‑1 (MQ=255)
ggCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAAc > 1:334069/1‑91 (MQ=255)
gcgcTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAAcc > 1:235857/1‑91 (MQ=255)
|
GTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACC > NZ_CP009273/832472‑832641
|
| 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
ATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAAC > NZ_CP009273/832464‑832647
|
ATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGG > SRR3722125.588313/1‑101 (MQ=60)
CTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTT > SRR3722125.1094940/1‑101 (MQ=60)
GTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTAC < SRR3722125.558797/101‑1 (MQ=60)
CCTTTGCCGAACATAAAGTCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACC < SRR3722125.229914/101‑1 (MQ=60)
ACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722125.890037/1‑101 (MQ=60)
ACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722125.607698/1‑101 (MQ=60)
ACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGAGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722125.902197/1‑101 (MQ=60)
ACAAAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGAGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATG > SRR3722125.902196/1‑101 (MQ=60)
CATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCCTCAGGAAACGTTACAAACCAGTCCCGATGC > SRR3722125.1001162/1‑101 (MQ=60)
GGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCT > SRR3722125.749426/1‑101 (MQ=60)
GGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCT > SRR3722125.1147776/1‑101 (MQ=60)
agagacagGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAAC < SRR3722125.413619/93‑1 (MQ=60)
ACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAAC < SRR3722125.404230/101‑1 (MQ=60)
ACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAAC < SRR3722125.172327/101‑1 (MQ=60)
CCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGC > SRR3722125.729289/1‑101 (MQ=60)
CTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCctgtctcttataca > SRR3722125.690283/1‑87 (MQ=60)
TTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATG > SRR3722125.423329/1‑101 (MQ=60)
GCGATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCAC < SRR3722125.1073349/101‑1 (MQ=60)
GATGTGTGAAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTA < SRR3722125.102688/101‑1 (MQ=60)
AAATTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTACCTGCATGACCACTATCATCATC < SRR3722125.1120993/101‑1 (MQ=60)
TTCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAAC > SRR3722125.340992/1‑101 (MQ=60)
TCTTGGCGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATAATCATCAACC > SRR3722125.240579/1‑101 (MQ=60)
CGGGGCGCTTCCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAAC < SRR3722125.1062642/101‑1 (MQ=60)
|
ATGCAGGAGTCGCCGTTGGGTTCGCTGTTGACCTTTGCCGAACATAAAGGCTACGCCCTTGCAGCGATGTGTGAAATTCTTGGCGGGGCGCTTTCCGGCGGTAAAACGACGCATCAGGAAACGTTACAAACCAGTCCCGATGCCATTCTTAACTGCATGACCACTATCATCATCAACCCGGAAC > NZ_CP009273/832464‑832647
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
