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 |
|
A17 F109 I0 R1
|
32 |
27.2 |
584098 |
96.5% |
563654 |
139.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
2,027,751 |
C→G |
100% |
V66L (GTA→CTA) |
vraS ← |
sensor histidine kinase VraS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 2,027,751 | 0 | C | G | 100.0%
| 57.5
/ ‑6.5
| 22 | V66L (GTA→CTA) | vraS | sensor histidine kinase VraS |
| Reads supporting (aligned to +/- strand): ref base C (1/0); major base G (8/12); minor base A (1/0); total (10/12) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCT > CP000730/2027612‑2027890
|
aCAAGTGTATGGTATAAATTTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGCTTGATTTTGTAAGCGAGTAc < 1:175501/140‑1 (MQ=255)
aCAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAc < 1:253049/140‑1 (MQ=255)
tGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACcaac < 1:160816/140‑1 (MQ=255)
aTCTAACTTTTCACTATTTATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTCGCGACCCAACAATAATac < 2:267116/140‑1 (MQ=255)
tAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGATGGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTACGCGTGTAGCGAACAGAGAATATTacaaa > 1:11880/1‑138 (MQ=255)
gTTTCATTATATATTTCTTTATTTTGATCATTAATGTCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTGGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACaataa < 1:27301/140‑1 (MQ=255)
gTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACaataa < 1:33023/140‑1 (MQ=255)
ttCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAataata < 1:267292/140‑1 (MQ=255)
cACTTTATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatg < 1:31566/140‑1 (MQ=255)
cACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCTCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatg > 2:145682/1‑140 (MQ=255)
ttttATCATGAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATCTAATCATGCGATTtcaaaat < 2:243505/140‑1 (MQ=255)
aTCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaataaaa > 1:191433/1‑140 (MQ=255)
tGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAACGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTgat > 1:1439/1‑138 (MQ=255)
cTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCg > 1:157103/1‑140 (MQ=255)
tGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGa > 2:266616/1‑140 (MQ=255)
gAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATTTTTTTTTTTTTTATTATTAGATTAAAAAATAAAAAAACTGGTGTTCCTATTATTTGTGTCTaaac > 2:5926/1‑139 (MQ=255)
aaaggcggcatAATCCAATCATTTTGCTGATGTATTTTGTAAGCGAAGAGCGGACCAAAAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTg < 2:83209/130‑1 (MQ=255)
aTTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTg > 2:192942/1‑140 (MQ=255)
agttgatacAATCAGTATGCAGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATTAGAAAAAAAAAAAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAg < 2:211131/132‑1 (MQ=255)
ccAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGatat < 1:172069/140‑1 (MQ=255)
atGCCGACTGATTTTGTAAGCACGTAGCGAACCAACAAGAAGACACAATAATATGAATATTAGAATTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaaaa < 2:56598/139‑1 (MQ=255)
gTAAGCGAGTAGCGAACTAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACa < 1:266616/140‑1 (MQ=255)
gTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACa > 1:189635/1‑140 (MQ=255)
aaGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATTAAACATACCTTAAAAAAAGATAATATTTACAAAAACTTTATCGATGAACAGa > 1:3523/1‑140 (MQ=255)
ccGAACCAACAATAATACACAATAAGATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCt < 1:234930/140‑1 (MQ=255)
|
ACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCT > CP000730/2027612‑2027890
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
