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 F172 I0 R1
|
42 |
33.2 |
716278 |
96.8% |
693357 |
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%
| 63.0
/ NA
| 19 | V66L (GTA→CTA) | vraS | sensor histidine kinase VraS |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (14/5); total (14/5) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATG > CP000730/2027617‑2027885
|
tgtATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAAc < 1:326545/140‑1 (MQ=255)
ggTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACcaaca < 2:139024/140‑1 (MQ=255)
atttatTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatgatga < 1:11886/137‑1 (MQ=255)
tttCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTACATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACAAAATAATatgatgatggaa > 2:1245/1‑137 (MQ=255)
atatTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTAATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaa > 1:266710/1‑140 (MQ=255)
ttttGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaa > 2:178305/1‑140 (MQ=255)
tttGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaat > 1:163261/1‑140 (MQ=255)
gctcctatatgtaaaCTGTTTCGCCTTCCATTGAACGCACAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATCATACACAATAATAGAATGATGAGATAtaaacagaaa > 2:218613/14‑140 (MQ=255)
aTGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTCAAAATAAAAAAACTgg < 1:198390/140‑1 (MQ=255)
cAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGGGATTTAAAAATAAAAAAACTGGTAtt > 1:300564/1‑140 (MQ=255)
gCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATAttt > 2:313185/1‑140 (MQ=255)
ttAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAgat > 2:76016/1‑140 (MQ=255)
aTCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACCAAATAATATGATGATGAGATTTAAAAATACAAAAACTGGTATTACGAATATTTGTGTATAAAACATACCTTGAAAATAGAAGATAtttc > 2:334242/1‑139 (MQ=255)
ttttGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaa > 2:281020/1‑140 (MQ=255)
tGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTCGAAAATAGAGGATATTTACAAAAAc < 1:178305/140‑1 (MQ=255)
ttgattTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATc > 1:283319/1‑140 (MQ=255)
gTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACa > 1:354878/1‑140 (MQ=255)
gTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTAACAAAAACTTTATCGATGAACa > 1:213137/1‑140 (MQ=255)
gAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGAAATTTACAAAAACATTATCGAAGAACAGAAATg > 1:21016/1‑140 (MQ=255)
|
TGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATG > CP000730/2027617‑2027885
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
