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 F2 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
568,752 |
A→G |
G71G (GGA→GGG) |
ybcO → |
DUF1364 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 568,752 | 0 | A | G | 100.0%
| 66.8
/ NA
| 21 | G71G (GGA→GGG) | ybcO | DUF1364 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/15); total (6/15) |
ACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAA > NZ_CP009273/568671‑568831
|
aCCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCaaa < 2:144554/90‑1 (MQ=255)
cGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAg > 1:337786/1‑90 (MQ=255)
gACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgc < 1:319229/90‑1 (MQ=255)
ccTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgc < 1:400555/90‑1 (MQ=255)
tGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgcgc < 2:86993/90‑1 (MQ=255)
aTTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTg < 2:453623/90‑1 (MQ=255)
aTTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTg < 2:399936/90‑1 (MQ=255)
tGCCCCCATTGCATGTTCGGCCCGCCACCCCGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGa < 2:485892/90‑1 (MQ=255)
tGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGa < 2:3057/90‑1 (MQ=255)
tGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGa < 2:452332/90‑1 (MQ=255)
ccaccaTTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAg > 1:182790/1‑90 (MQ=255)
caccaTTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAgg > 1:54573/1‑90 (MQ=255)
aTGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCgag > 2:86984/1‑90 (MQ=255)
ttCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAac > 1:153063/1‑90 (MQ=255)
ttCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAac < 1:269755/90‑1 (MQ=255)
ctgcctgcCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAacac < 2:403912/90‑1 (MQ=255)
gccACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTa > 2:389412/1‑90 (MQ=255)
gaAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTg < 2:446366/90‑1 (MQ=255)
cgccgcACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAgggg < 2:47519/90‑1 (MQ=255)
ccgcACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGt < 1:22338/90‑1 (MQ=255)
ttgACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGaa < 1:61289/90‑1 (MQ=255)
|
ACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAA > NZ_CP009273/568671‑568831
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CACCGGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > NZ_CP009273/568659‑568849
|
gtataagagacagCCGCCAGCCCTGATTGCCCCCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCA < SRR3722094.445327/87‑1 (MQ=60)
GGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAG > SRR3722094.343336/1‑100 (MQ=60)
GTACAAATCCGCCAGACCTCATTGCCCCCATTCCATGTTCTGCCTGCCACGAAGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGA < SRR3722094.481421/100‑1 (MQ=60)
GACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAG > SRR3722094.185296/1‑100 (MQ=60)
GACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAG < SRR3722094.324332/100‑1 (MQ=60)
ACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGG > SRR3722094.55331/1‑100 (MQ=60)
CCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGT < SRR3722094.407470/100‑1 (MQ=60)
CCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCActgtctcttatacacatctgacgctgccgacg > SRR3722094.481159/1‑68 (MQ=60)
CCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAAC > SRR3722094.155196/1‑100 (MQ=60)
TTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATC < SRR3722094.273776/100‑1 (MQ=60)
CCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCG < SRR3722094.22659/100‑1 (MQ=60)
TTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGC < SRR3722094.62139/100‑1 (MQ=60)
GGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCActgtctc > SRR3722094.474767/1‑93 (MQ=60)
|
CACCGGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > NZ_CP009273/568659‑568849
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
