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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,541,247 |
C→A |
V1020F (GTC→TTC) |
narZ ← |
nitrate reductase 2 (NRZ), alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,541,247 | 0 | C | A | 76.6%
| 72.1
/ 30.5
| 47 | V1020F (GTC→TTC) | narZ | nitrate reductase 2 (NRZ), alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (6/5); new base A (0/36); total (6/41) |
| Fisher's exact test for biased strand distribution p-value = 4.30e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.90e-01 |
CGCCACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTACG > W3110S.gb/1541198‑1541295
|
ctgcACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGCCGTGATCGCTTTc < 1:1695081/59‑1 (MQ=255)
ctgcACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTc < 1:1577931/59‑1 (MQ=255)
ctgcACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTc < 1:1693266/59‑1 (MQ=255)
ctgcACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTc < 1:404916/59‑1 (MQ=255)
ctgcACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTc < 1:1971746/59‑1 (MQ=255)
aTTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTccagaccaga < 1:1349932/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTccagaccagag < 1:1821497/62‑2 (MQ=38)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:548553/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2675323/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2710347/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2783488/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2916075/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:327949/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:37602/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:399793/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:428276/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:500354/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2393338/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:584430/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:617878/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:619837/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:642291/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:708030/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:743950/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:858451/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:941071/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1971397/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1140920/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1206225/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1419763/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1679953/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1810098/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:207337/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2278437/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2287334/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2358011/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1005977/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2515135/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:2547508/62‑1 (MQ=255)
ttAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCTAGACCAGAc < 1:1732754/62‑1 (MQ=38)
aaCTCATGAACGTTGGTGTATCCCGCGTTATAGGAGAAGTGATCGCTTTCcagaccagac < 1:1443191/60‑1 (MQ=37)
gcgTTATAGGAGCCGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:2013392/1‑62 (MQ=255)
gcgTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:354328/1‑62 (MQ=255)
gcgTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:2614576/1‑62 (MQ=255)
gcgTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:1706222/1‑62 (MQ=255)
gcgTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:159226/1‑62 (MQ=255)
gcgTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTAcg > 1:1143842/1‑62 (MQ=255)
|
CGCCACGGAATTAACTCATGAACGTTGGTGTATCCCGCGTTATAGGAGACGTGATCGCTTTCCAGACCGGACCAGGTGGGGCTGGAGATAATTTTACG > W3110S.gb/1541198‑1541295
|
| 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
