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 |
626,915 |
G→C |
65.4% |
L276L (CTG→CTC) |
ycaQ → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 626,915 | 0 | G | C | 65.4%
| 46.2
/ 39.7
| 52 | L276L (CTG→CTC) | ycaQ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (7/11); new base C (12/22); total (19/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGA > minE/626852‑626977
|
tGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCg < 1:748250/68‑1 (MQ=255)
tGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCg < 1:3193305/68‑1 (MQ=255)
tGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCg < 1:3082670/68‑1 (MQ=255)
tGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCg < 1:2583547/68‑1 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGaa > 1:2601493/1‑69 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGaa > 1:2646304/1‑69 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGaa > 1:2657764/1‑69 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGaa > 1:1468522/1‑69 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGaa > 1:2809236/1‑69 (MQ=255)
ttGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGa > 1:27717/1‑68 (MQ=255)
aaaTTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCt < 1:2961995/68‑1 (MQ=255)
aaaTTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCt < 1:1470504/68‑1 (MQ=255)
aaaTTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCt < 1:3237825/68‑1 (MQ=255)
aTCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCt < 1:1395159/58‑1 (MQ=255)
cTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCTCACTGCAACGcac > 1:2801924/1‑69 (MQ=255)
gatTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAATCTCACTGCAACGCACAGCGCGGTACTTTCg < 1:2290381/69‑1 (MQ=255)
gatTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCg < 1:1886261/69‑1 (MQ=255)
gatTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCg < 1:1590780/69‑1 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:2695084/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:699224/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:1157551/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:2830829/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:2168998/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:215915/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:2151096/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:75898/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:766073/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:828319/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:1511110/1‑69 (MQ=255)
atTTGCTGCCGCTACTCGAGCGTGCGCTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGc > 1:916080/1‑69 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:3321339/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:277502/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:3348155/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:336794/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:452399/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:533138/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:593186/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:878160/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:3298202/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2918049/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2789082/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2785209/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2407972/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2278347/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:2036245/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:1818519/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:1801980/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:1776138/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:1375448/68‑1 (MQ=255)
tgcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:1176303/68‑1 (MQ=255)
gcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:518048/68‑1 (MQ=255)
gcgcTCGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGa < 1:219263/68‑1 (MQ=255)
|
TGTTGAAAAATTGGGCAATCTTTGGCTGCATGATGATTTGCTGCCGCTACTCGAGCGAGCGCTGGCCGGAAAGCTCACTGCAACGCACAGCGCGGTACTTTCGCCTTTTGATCCTGTTGTCTGGGA > minE/626852‑626977
|
| 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
