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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,182,954 |
G→A |
41.2% |
T216I (ACC→ATC) |
mipA ← |
scaffolding protein for murein synthesizing machinery |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,182,954 | 0 | G | A | 41.2%
| 32.3
/ 55.6
| 80 | T216I (ACC→ATC) | mipA | scaffolding protein for murein synthesizing machinery |
| Reads supporting (aligned to +/- strand): ref base G (27/20); new base A (18/15); total (45/35) |
| Fisher's exact test for biased strand distribution p-value = 8.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CCAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAGGGCTCCAGC > minE/1182893‑1183020
|
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2248798/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:1839243/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:1868423/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2972648/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:1494909/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2957984/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2953873/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:48203/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:1334206/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:237952/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2451595/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2479262/69‑1 (MQ=255)
ccAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2629533/69‑1 (MQ=255)
cAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa > 1:2926686/1‑68 (MQ=255)
cAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa > 1:1153542/1‑68 (MQ=255)
cAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa > 1:1517474/1‑68 (MQ=255)
aTTTATCCACCATTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:2794879/69‑1 (MQ=255)
aTTTATCCACCATTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:22443/69‑1 (MQ=255)
aTTTATCCACCATTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:2613047/69‑1 (MQ=255)
aTTTATCCACCATTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:1311182/69‑1 (MQ=255)
aTTTATCCACCATTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:1475850/69‑1 (MQ=255)
tttATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAacac > 1:1450061/1‑68 (MQ=255)
tttATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAacac > 1:1478176/1‑68 (MQ=255)
tttATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAacac > 1:2129714/1‑68 (MQ=255)
tATCCCCCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTcc > 1:1664693/1‑69 (MQ=255)
tATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTcc > 1:2373182/1‑69 (MQ=255)
tATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTcc > 1:2013308/1‑69 (MQ=255)
tATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTc > 1:2468741/1‑68 (MQ=255)
caccaTTGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGCGCGATACCGTAAacac < 1:1548284/62‑1 (MQ=255)
accaTCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:2064951/56‑1 (MQ=255)
aTCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACt > 1:2667441/1‑59 (MQ=255)
aTCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCg > 1:279155/1‑69 (MQ=255)
aTCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCg > 1:104366/1‑69 (MQ=255)
ggCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTa < 1:1398077/49‑1 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTaaa < 1:2916078/40‑1 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTaaa < 1:2897101/40‑1 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTaaa < 1:2423763/40‑1 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTaaa < 1:3109197/40‑1 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCt > 1:669579/1‑68 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTg > 1:447427/1‑69 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTg > 1:3264806/1‑69 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTg > 1:1316745/1‑69 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTg > 1:3115814/1‑69 (MQ=255)
aCTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCAAGTCGCCGAGGAAGTTGTAGCTg > 1:2010595/1‑69 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAg > 1:3149525/1‑44 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAg > 1:3324622/1‑56 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:543487/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:3095314/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:322780/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:860211/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:2688537/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1115731/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1271906/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1476180/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1501490/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1621398/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:181820/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1821449/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:1821699/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:2247874/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACCGTAAACACTCCAGTCACAGAGGAAGTTGTAGCTGgcg > 1:1989129/1‑68 (MQ=255)
catcaGACAGACGGGTGTAGCGCGCGATACAGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGgcg > 1:3047824/1‑68 (MQ=255)
cagacagaCGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCa > 1:2844313/1‑69 (MQ=255)
cagacagaCGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCa > 1:638009/1‑69 (MQ=255)
cagacagaCGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCa > 1:129237/1‑69 (MQ=255)
cagacagaCGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCa > 1:33833/1‑69 (MQ=255)
cagacagaCGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCa > 1:3360034/1‑69 (MQ=255)
gtgtAGTGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTaa < 1:1987286/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:3232300/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:1356811/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:3208510/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:627958/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:3197695/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:1653402/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:739508/69‑1 (MQ=255)
tgtAGCGCGCGATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:1885983/69‑1 (MQ=255)
tgtAGCGCGCAATACCGTAAACACTCCAGTCACCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAg < 1:715994/69‑1 (MQ=255)
cGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAGGGCTCCAGc > 1:150517/1‑69 (MQ=255)
cGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAGGGCTCCAGc > 1:2198925/1‑69 (MQ=255)
cGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAGGGCTCCAGc > 1:455610/1‑69 (MQ=255)
|
CCAGGATTTATCCACCATCGGGCTGTCAGTAACTTCATCAGACAGACGGGTGTAGCGTGCGGTACCGTAAACACTCCAGTCGCCGAGGAAGTTGTAGCTGGCGCTCAGCTCCAGGTAAGGGCTCCAGC > minE/1182893‑1183020
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
