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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,728,118 |
(C)8→9 |
coding (1254/1455 nt) |
xylB ← |
xylulokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,728,110 | 1 | . | C | 91.2%
| 104.6
/ 3.4
| 34 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base C (14/17); total (16/18) |
| Fisher's exact test for biased strand distribution p-value = 5.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
CTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA > NC_000913/3727974‑3728242
|
cTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cc < 2:1244345/139‑1 (MQ=255)
gATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cccc < 1:94464/139‑1 (MQ=255)
gCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cccccc‑cccgta < 2:855343/139‑5 (MQ=255)
cATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAgct < 2:933191/139‑1 (MQ=255)
aTCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAgctg < 1:1307284/139‑1 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAgctgct < 2:55665/139‑1 (MQ=255)
ggACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGat < 1:1089983/138‑1 (MQ=255)
cGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGat > 1:1005836/1‑139 (MQ=255)
aCTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGatat > 2:1336439/1‑139 (MQ=255)
aCTGGTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCCACCTTACGGTAATCGAGCTGCTGACCGCTGagat > 2:1043678/1‑139 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCGCAGTGCTGGCCCCACA‑T‑‑cc < 2:981820/100‑1 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATc > 2:131159/1‑139 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cc > 1:981820/1‑100 (MQ=255)
ttCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGc < 1:131159/139‑1 (MQ=255)
aaCGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TCCCCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg < 1:475926/139‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACACC‑‑CCCCCC‑CCGTAAGGTAATCGAGCTGCTGCCCGCTGCTATCCGCCAGCATCTGa > 1:75074/1‑139 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa > 2:1458486/1‑139 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cccccc‑c < 1:721534/92‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cccccc‑c > 2:721534/1‑92 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCTAgctg > 2:886694/1‑109 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAgctg < 1:886694/109‑1 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg > 2:446696/1‑139 (MQ=255)
caacaaTTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTa < 1:446696/139‑1 (MQ=255)
gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc < 1:1458486/139‑1 (MQ=255)
gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc > 2:437578/1‑139 (MQ=255)
gCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGAGATCCGCCAGCATCTGCCGCCAGTACTCACTACGcgccc > 2:1376723/1‑139 (MQ=255)
ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCCCTACGCGCCCCGCCCCCAATCAACGTaa > 2:383931/1‑139 (MQ=255)
cTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg < 2:1080763/139‑1 (MQ=255)
gCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTaa < 2:75074/139‑1 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACtt < 2:1476140/128‑1 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACtt > 1:1476140/1‑128 (MQ=255)
cTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATa < 1:1336439/139‑1 (MQ=255)
tgcGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAg < 1:311268/139‑1 (MQ=255)
cccAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAg < 2:567662/42‑1 (MQ=255)
cccAGTGCTGGCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAg > 1:567662/1‑42 (MQ=255)
aGTGCTGGCCCCACA‑TCCCCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCCGACGCCAGTACTCACTACGCGCCCCGCCCCCACTCAACCTAACACTTTCCGGCTTAATACCGCAAGCATg > 2:1343440/1‑139 (MQ=255)
ggCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACa < 1:1376723/139‑1 (MQ=255)
gCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa > 2:569002/1‑68 (MQ=255)
gCCCCACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa < 1:569002/68‑1 (MQ=255)
ccccACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATc > 2:810811/1‑139 (MQ=255)
ccACA‑TC‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCa < 2:274300/139‑1 (MQ=255)
|
CTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCC‑CCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA > NC_000913/3727974‑3728242
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
