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 |
|
A21 F117 I0 R1
|
36 |
24.6 |
540534 |
94.7% |
511885 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,232,052 |
G→T |
100% |
D233Y (GAT→TAT) |
USA300HOU_1156 → |
possible PP2C protein phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,232,052 | 0 | G | T | 100.0%
| 47.8
/ NA
| 17 | D233Y (GAT→TAT) | USA300HOU_1156 | possible PP2C protein phosphatase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (7/10); total (7/10) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATTCAGATGGATTAACTGATTATGTTAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAAGATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCTTGCTGAAGATACGA > CP000730/1231930‑1232186
|
atacAGATGGATTAACTGATTATGTTAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATAc < 2:138616/138‑1 (MQ=255)
aTGGATTAACTGATTATGTTAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCgg < 2:21571/141‑1 (MQ=255)
tATGTTAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTggt > 2:269116/1‑139 (MQ=255)
tAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGt > 1:204894/1‑141 (MQ=255)
aGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAGCGTTACTTTCATACTAGCGGCGATTTAAGGTGATACAGTATg > 2:107520/1‑141 (MQ=255)
aaGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAaataa < 1:2540/141‑1 (MQ=255)
ttAGTAAAAGAAGGTACAATCGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATACTAAATGAAc < 2:173782/141‑1 (MQ=255)
aaaaaGAAGGTACAATAGAAGGTCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGata < 2:254454/140‑1 (MQ=255)
aaaaGAAGGTACAATAGAAGATGGAATTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGataa > 1:267306/1‑140 (MQ=255)
aaTTAAGGCAGTTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCTTACTCGCGGCTATTGCATGTGACAATGTGTGATAGGTAAAATAATAAGTGAACGAGATAAAATTGTAGATCAGCCTGGCGGCGGTGGCAt < 1:202057/141‑1 (MQ=255)
ggCAATTGGCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTAc < 2:204894/140‑1 (MQ=255)
gCATTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGGGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATc > 2:25811/1‑141 (MQ=255)
tagtAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCAATTGAAGGGGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGGTTGGAGAAGGTGGCATGAATACCGTTTacgt > 2:247518/4‑138 (MQ=255)
aTTAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCtt < 1:237982/141‑1 (MQ=255)
ttAGATAACCATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCTTg < 1:12520/141‑1 (MQ=255)
cATTCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATATGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCTTGCTGAAgata > 1:205242/1‑141 (MQ=255)
tCGAAATATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCTTGCTGAAgatacga < 2:178210/141‑1 (MQ=255)
|
ATTCAGATGGATTAACTGATTATGTTAAAGACAATGAAATTAAGCGTTTGTTAGTAAAAGAAGGTACAATAGAAGATCATGGTGATCAATTAATGCAATTGGCATTAGATAACCATTCGAAAGATAACGTTACTTTCATACTCGCGGCTATTGAAGGTGATAAAGTATGATAGGTAAAATAATAAATGAACGATATAAAATTGTAGATAAGCTTGGCGGCGGTGGCATGAGTACCGTTTATCTTGCTGAAGATACGA > CP000730/1231930‑1232186
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
