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 I74 R1
|
158 |
13.7 |
815430 |
95.7% |
780366 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,786,467 |
T→C |
I193V (ATT→GTT) |
yibB ← |
protein YibB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,786,467 | 0 | T | C | 100.0%
| 44.4
/ NA
| 14 | I193V (ATT→GTT) | yibB | protein YibB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (7/7); total (7/7) |
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAT > NZ_CP009273/3786384‑3786549
|
ttCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGaa < 1:154637/90‑1 (MQ=255)
cTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCaaaaa < 1:511/90‑1 (MQ=255)
aGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAACACCTgttgtt < 1:310972/90‑1 (MQ=255)
aGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTgttgtt < 2:135289/90‑1 (MQ=255)
aaTTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTga < 2:196997/90‑1 (MQ=255)
cATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACa > 1:394981/1‑90 (MQ=255)
tgtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCt < 2:286955/90‑1 (MQ=255)
tgtgAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCt < 2:329281/90‑1 (MQ=255)
tataCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACtt > 2:94279/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 2:383420/1‑90 (MQ=255)
taCATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtc > 2:50716/1‑90 (MQ=255)
cATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcat > 1:374645/1‑90 (MQ=255)
tGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTtcatca > 1:26060/1‑90 (MQ=255)
ttGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAt > 1:392316/1‑90 (MQ=255)
|
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAT > NZ_CP009273/3786384‑3786549
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAATCCCAAATTT > NZ_CP009273/3786384‑3786565
|
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACC < SRR3722212.156396/100‑1 (MQ=60)
CTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTG < SRR3722212.514/100‑1 (MQ=60)
AGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAACACCTGTTGTTGAGATGTGAC < SRR3722212.315219/100‑1 (MQ=60)
GAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACA > SRR3722212.400535/1‑100 (MQ=60)
ATAATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCAT > SRR3722212.379907/1‑100 (MQ=60)
AATATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCA > SRR3722212.26374/1‑100 (MQ=60)
ATATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAAT > SRR3722212.397835/1‑100 (MQ=60)
ATACATGATTGCCAACCATGAAATCAAAAACCTGTTGTctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctg > SRR3722212.134678/1‑38 (MQ=60)
ACCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAATCCCAAATTT > SRR3722212.269568/1‑100 (MQ=60)
|
TTCCAGAACTAATTTATAGAATTCTTTCCATTTATGCTGTGAACCAACAATTGCGCCCCCAATAATATATACATGATTGCCAATCATGAAATCAAAAACCTGTTGTTGAGATGTGACAGTAAGCCCTTTTTTTATAGTGAAAAGATGCATCTTACTTTCATCAAATGGGAAATCCCAAATTT > NZ_CP009273/3786384‑3786565
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
