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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
381,851 |
A→C |
57.8% |
G88G (GGT→GGG) |
yaiF ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 381,851 | 0 | A | C | 57.8%
| 52.3
/ 40.7
| 45 | G88G (GGT→GGG) | yaiF | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (7/12); new base C (11/15); total (18/27) |
| Fisher's exact test for biased strand distribution p-value = 7.66e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
AGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGT > W3110S.gb/381786‑381913
|
aGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGccc < 1:1664958/68‑1 (MQ=255)
tCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt < 1:1114483/69‑1 (MQ=255)
aaTATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACgg < 1:2546276/68‑1 (MQ=255)
gggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACgg < 1:2528409/61‑1 (MQ=255)
gggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACgg < 1:719755/61‑1 (MQ=255)
aaaTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:1188890/69‑1 (MQ=255)
aaaTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:3464454/69‑1 (MQ=255)
aaTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCAt < 1:1297183/62‑1 (MQ=255)
aaTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCAt < 1:1623520/62‑1 (MQ=255)
aTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCAc < 1:3152681/58‑1 (MQ=255)
aTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCAc < 1:2144648/58‑1 (MQ=255)
aTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCAc < 1:2727807/58‑1 (MQ=255)
tCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACa > 1:1921326/1‑64 (MQ=255)
tCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATAc > 1:3280129/1‑69 (MQ=255)
ccAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATaa < 1:3133366/50‑1 (MQ=255)
ccAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATaa < 1:28877/50‑1 (MQ=255)
tACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt < 1:2906754/43‑1 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGAt < 1:2466641/69‑1 (MQ=255)
ttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaa > 1:726669/1‑69 (MQ=255)
ttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaa > 1:2262473/1‑69 (MQ=255)
ttGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca > 1:1164230/1‑68 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa > 1:2150325/1‑45 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:3651870/45‑1 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa > 1:2873664/1‑45 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:2092138/45‑1 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:1365182/45‑1 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:1382826/45‑1 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa > 1:3035310/1‑45 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa > 1:3188342/1‑45 (MQ=255)
ttGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:2269334/45‑1 (MQ=255)
tGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACa > 1:1300003/1‑42 (MQ=255)
tGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACa < 1:3556008/42‑1 (MQ=255)
tGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACggg < 1:3137654/50‑1 (MQ=255)
ccAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCa < 1:3089969/69‑1 (MQ=255)
ccAATCACTACCGGACCCTGAATAACGTCACCATGACAAATACGTGTATTCGCGCCGATAACAACTTc < 1:2025822/68‑1 (MQ=255)
ccAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTc < 1:3028777/68‑1 (MQ=255)
aCTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCa > 1:3147983/1‑69 (MQ=255)
aCTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCa > 1:2082669/1‑69 (MQ=255)
aCTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCa > 1:1352096/1‑69 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACggg > 1:2097167/1‑39 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACggg > 1:2126460/1‑39 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACggg > 1:803094/1‑39 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACgg > 1:3652081/1‑38 (MQ=255)
aCCGGACACTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGt > 1:1716342/1‑68 (MQ=255)
ccGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaa < 1:2598610/54‑1 (MQ=255)
ccGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaa < 1:48517/54‑1 (MQ=255)
|
AGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGT > W3110S.gb/381786‑381913
|
| 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
