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 I96 R1
|
227 |
23.3 |
882352 |
98.0% |
864704 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
509,698 |
A→C |
T84P (ACG→CCG) |
cueR → |
Cu(I)‑responsive transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 509,698 | 0 | A | C | 100.0%
| 58.6
/ NA
| 18 | T84P (ACG→CCG) | cueR | Cu(I)‑responsive transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (11/7); total (11/7) |
AGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAATCTCT > NZ_CP009273/509570‑509827
|
agcagcaTCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGgag > 2:329623/1‑137 (MQ=255)
agcagcaTCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGgag > 2:143861/1‑137 (MQ=255)
gcagcaTCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAg < 1:174753/139‑1 (MQ=255)
tctcAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCg > 1:119780/1‑139 (MQ=255)
gACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGa > 2:245696/1‑139 (MQ=255)
aCCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACg < 1:30704/137‑1 (MQ=255)
gcgcCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTgag < 2:41427/139‑1 (MQ=255)
ccAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTgagg > 2:430213/1‑137 (MQ=255)
ccAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTgagg < 1:430213/137‑1 (MQ=255)
cAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGc > 1:212419/1‑139 (MQ=255)
gTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATgc > 1:388390/1‑139 (MQ=255)
gagagCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCAc < 1:329623/139‑1 (MQ=255)
agCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAAc < 1:36508/91‑1 (MQ=255)
agCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAAc > 2:36508/1‑91 (MQ=255)
agCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTgg > 2:419041/1‑139 (MQ=255)
gTGAATCAGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAAtgcctgcc < 1:337580/139‑1 (MQ=255)
aGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTg > 2:185408/1‑139 (MQ=255)
aaaCGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAAtctct > 1:367343/1‑139 (MQ=255)
|
AGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAATCTCT > NZ_CP009273/509570‑509827
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACGCAGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAATCTCTC > NZ_CP009273/509566‑509828
|
ACGCAGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGG > SRR3722119.120977/1‑151 (MQ=60)
AGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGAT < SRR3722119.176547/151‑1 (MQ=60)
tagtctcgtgggctcggagatgtgtataagagacagACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAG < SRR3722119.36829/113‑1 (MQ=60)
GACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGG < SRR3722119.30970/149‑1 (MQ=60)
CCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCT > SRR3722119.214695/1‑151 (MQ=60)
GCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCC < SRR3722119.434528/151‑1 (MQ=60)
AGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCAAGCG > SRR3722119.392287/1‑151 (MQ=60)
AGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCC < SRR3722119.332976/151‑1 (MQ=60)
GGTGAATCAGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGAC < SRR3722119.341029/151‑1 (MQ=60)
GCGCCGACGTCAAACGGCGCCCGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAATCTCTC > SRR3722119.371054/1‑151 (MQ=60)
|
ACGCAGCAGCATCTCAACGAACTGACCTTACTGCGCCAGGCACGGCAGGTGGGCTTTAACCTGGAAGAGAGCGGCGAGCTGGTGAATCTGTTTAACGACCCGCAGCGGCACAGCGCCGACGTCAAACGGCGCACGCTGGAGAAGGTGGCGGAGATCGAACGACACATTGAGGAGCTGCAATCCATGCGCGACCAGCTGCTGGCACTGGCGAATGCCTGCCCTGGCGATGACAGCGCCGACTGCCCGATTATCGAAAATCTCTC > NZ_CP009273/509566‑509828
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
