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 |
2,882,413 |
A→C |
V349G (GTT→GGT) |
cysI ← |
assimilatory sulfite reductase (NADPH) hemoprotein subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,882,413 | 0 | A | C | 100.0%
| 46.3
/ NA
| 15 | V349G (GTT→GGT) | cysI | assimilatory sulfite reductase (NADPH) hemoprotein subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (5/10); total (5/10) |
CCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACT > NZ_CP009273/2882326‑2882493
|
ccGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAccc < 2:81301/90‑1 (MQ=255)
ccGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAccc > 1:326763/1‑90 (MQ=255)
cAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAAt < 2:570281/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 1:397110/90‑1 (MQ=255)
aGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAAc < 2:622109/90‑1 (MQ=255)
ggATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAcccc > 2:661301/1‑60 (MQ=255)
ggATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAcccc < 1:661301/60‑1 (MQ=255)
ttttCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGCCCGGTAAACTCATACGGActg > 1:222599/1‑88 (MQ=255)
tCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTCCCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATc < 2:411583/90‑1 (MQ=255)
tCGATAAACAGCGTCAGGTGCAAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATc < 2:46149/90‑1 (MQ=255)
aaaCAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTc < 1:16213/90‑1 (MQ=255)
aCAGCGTCAGGTGCCAGTTATCATCAATGCCCTTCCCCCAGCCAATACGATCGCCTCGCCCGGTGAACTCATATGGACGGATCGGTTCaa < 1:264663/90‑1 (MQ=255)
aCAGCGTCAGGTCCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCaa < 1:283016/90‑1 (MQ=255)
gCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGTATCGGTTCAAAtt > 2:18014/1‑90 (MQ=255)
ccAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCcgc < 1:719788/90‑1 (MQ=255)
ccAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCcgc < 2:407598/90‑1 (MQ=255)
aaTGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCAc > 1:356088/1‑90 (MQ=255)
aTGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACt > 2:240876/1‑90 (MQ=255)
aTGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACt > 1:200455/1‑90 (MQ=255)
|
CCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACT > NZ_CP009273/2882326‑2882493
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACGTCTC > NZ_CP009273/2882316‑2882510
|
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC < SRR3722073.273479/100‑1 (MQ=60)
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC > SRR3722073.333702/1‑100 (MQ=60)
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCC < SRR3722073.358218/100‑1 (MQ=60)
GCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCC < SRR3722073.522251/100‑1 (MQ=60)
cagatgtgtataagagacagGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACG < SRR3722073.674856/80‑1 (MQ=60)
agatctacacgaccgccatcgtcggcagcgtcagatgtgtataagagacaGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722073.727796/50‑1 (MQ=60)
AGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGAC < SRR3722073.405563/100‑1 (MQ=60)
GATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGCCCGGTAAACTCATACGGACTG > SRR3722073.227215/1‑100 (MQ=60)
AAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATC < SRR3722073.16622/100‑1 (MQ=60)
ACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTCCCCCAGCCAATACGATCGCCTCGCCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCC < SRR3722073.270249/100‑1 (MQ=60)
ACAGCGTCAGGTCCCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCC < SRR3722073.289010/100‑1 (MQ=60)
CCAGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCC < SRR3722073.734326/100‑1 (MQ=60)
AGTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCAC > SRR3722073.363624/1‑100 (MQ=60)
GTTATCATCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACT > SRR3722073.204510/1‑100 (MQ=60)
TCAATGCCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTT > SRR3722073.672663/1‑100 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > SRR3722073.346373/1‑100 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > SRR3722073.772386/1‑100 (MQ=60)
CCCTTACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACG > SRR3722073.779109/1‑100 (MQ=60)
TACCCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACGTCTC < SRR3722073.245931/100‑1 (MQ=60)
|
CTCCAGCAGGCCGGTTTTCAGCGGACGCGCCGGATAATCAAGGATGCGACCATTTTCGATAAACAGCGTCAGGTGCCAGTTATCATCAATGCCCTTAACCCAGCCAATACGATCGCCTCGTCCGGTGAACTCATATGGACGGATCGGTTCAAATTTGATCCCCGCGCGACGCTCCACTTCCGCTTTAAACGTCTC > NZ_CP009273/2882316‑2882510
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
