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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 92.7
/ NA
| 27 | G71G (GGA→GGG) | ybcO | DUF1364 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/21); total (6/21) |
AACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTAC > NZ_CP009273/568670‑568838
|
aaCCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCaa > 1:325740/1‑90 (MQ=255)
ccTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgc < 2:565688/90‑1 (MQ=255)
ccTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgc < 2:341089/90‑1 (MQ=255)
ccTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgc < 2:183194/90‑1 (MQ=255)
ccTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgc < 1:483580/90‑1 (MQ=255)
tGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATgcgcgc < 2:174864/90‑1 (MQ=255)
gATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCt > 2:766803/1‑90 (MQ=255)
gCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGaa < 2:181071/90‑1 (MQ=255)
ccaTTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTa < 1:733923/90‑1 (MQ=255)
aTTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATg < 2:454407/90‑1 (MQ=255)
aTTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATg < 2:325740/90‑1 (MQ=255)
gCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCg < 1:523364/90‑1 (MQ=255)
gCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCg < 2:447042/90‑1 (MQ=255)
ttCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCg > 2:330326/1‑85 (MQ=255)
ttCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCg < 1:330326/85‑1 (MQ=255)
gcctgccACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAg > 2:765850/1‑90 (MQ=255)
gcctgccACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAg > 1:189336/1‑90 (MQ=255)
gcctgccACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGGAGGCAAAAGAAGGCGCGCTGGAGGGTATGGCGAGAACACAg > 1:399735/1‑90 (MQ=255)
aaaTCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGa < 1:40483/90‑1 (MQ=255)
aaaTCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGa < 2:689334/90‑1 (MQ=255)
gcccgccgCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAagag < 1:649265/88‑1 (MQ=255)
aCCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAgg < 1:401857/90‑1 (MQ=255)
cgcaTTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGttatta < 2:28391/90‑1 (MQ=255)
aTTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAgg < 2:66429/90‑1 (MQ=255)
ttgACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGGTGAAAGAGGGGGTTATTAAGGCGTGaa < 1:588134/90‑1 (MQ=255)
gCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCt < 1:233591/90‑1 (MQ=255)
tGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTAc < 2:109235/90‑1 (MQ=255)
|
AACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTAC > NZ_CP009273/568670‑568838
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 27 ≤ 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
GTGCGGCACCGGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > NZ_CP009273/568653‑568849
|
GTGCGGCCCCGGTACGAAACCGCCAGCCCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGG < SRR3722073.61468/100‑1 (MQ=60)
GCGGCCCCGGTACGAAACCGCCAGCCCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTA < SRR3722073.309128/100‑1 (MQ=60)
cccaggtaaGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCA < SRR3722073.724501/91‑1 (MQ=60)
CCCCGGTACAAACCCGCCAGCCCTGATTGCCCCCTTTGCATGTTCTGCCTGCCCCGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCA < SRR3722073.569527/100‑1 (MQ=60)
ACCGGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAA > SRR3722073.332658/1‑100 (MQ=60)
ggtagcaaccctacagccgtgattgccccctttgccttTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAG < SRR3722073.9653/62‑1 (MQ=60)
CCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGT < SRR3722073.493854/100‑1 (MQ=60)
CCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAAC < SRR3722073.748778/100‑1 (MQ=60)
TGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAG > SRR3722073.193078/1‑100 (MQ=60)
TGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGGAGGCAAAAGAAGGCGCGCTGGAGGGTATGGCGAGAACACAG > SRR3722073.408247/1‑100 (MQ=60)
GCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGG < SRR3722073.337341/100‑1 (MQ=60)
GCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGG < SRR3722073.534345/100‑1 (MQ=60)
AAATCGACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGT < SRR3722073.41466/100‑1 (MQ=60)
GCCCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTA < SRR3722073.662623/100‑1 (MQ=60)
ACCGCCGCACGCATTTTGTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAA < SRR3722073.410421/100‑1 (MQ=60)
GTTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGGTATTAAGGCGTGAATACCTACAG > SRR3722073.505380/1‑100 (MQ=60)
TTGACGCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGGTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGC < SRR3722073.600421/100‑1 (MQ=60)
GCTGGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCAC < SRR3722073.238480/100‑1 (MQ=60)
GGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > SRR3722073.325919/1‑100 (MQ=60)
GGGTATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > SRR3722073.87036/1‑100 (MQ=60)
|
GTGCGGCACCGGTACGAAACCGCCAGACCTGATTGCCACCATTGCATGTTCTGCCTGCCACGACGAAATCGACCGCCGCACGCATTTTGTTGACGCTGGATATGCAAAAGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATT > NZ_CP009273/568653‑568849
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
