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 |
|
A7 F1 I1 R1
|
776 |
60.0 |
3074904 |
90.1% |
2770488 |
104.4 |
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 | 75.7%
| 89.3
/ 26.1
| 37 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (5/4); new base C (13/15); total (18/19) |
| Fisher's exact test for biased strand distribution p-value = 7.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.57e-01 |
CGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCAT > NC_000913/3727982‑3728230
|
cGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGt > 1:151781/1‑139 (MQ=255)
aTAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGGTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑cccccccccccgta < 2:1508016/139‑7 (MQ=255)
tAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACgg > 2:104650/1‑139 (MQ=255)
tGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCACCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTg > 1:661201/1‑139 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGatat < 2:493569/138‑1 (MQ=255)
cTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGatat > 1:493569/1‑138 (MQ=255)
tAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg < 1:104650/139‑1 (MQ=255)
aaCGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg < 1:588183/139‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGatat < 2:1478835/126‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCCTCCGGTAATCGAGCTGCTGACCGCTGatat > 1:1478835/1‑126 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAg > 1:905567/1‑106 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAg < 2:905567/106‑1 (MQ=255)
tGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 1:834722/139‑1 (MQ=255)
cGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCCTACGGTCATTGGGCCGCTGAACGCTGCTATCCGcccccgcctcacccc > 2:917386/1‑126 (MQ=255)
ggCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGt < 2:151781/139‑1 (MQ=255)
gCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCCGCCTGCTGACCCCTGATACCCGCCAGCATCCGACCCCAg > 2:123781/1‑139 (MQ=255)
tCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccccccg > 1:219426/1‑78 (MQ=255)
tCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccccccg < 2:219426/81‑4 (MQ=255)
aTGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTAcg < 2:1170270/139‑1 (MQ=255)
tGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCCTACGGTAACCGGGCTGCTAACCGCTGATCCCCGCCAGCATCTGACGCCAGCACTCCCTAcgc > 2:996458/1‑139 (MQ=255)
aTTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccccgc > 1:771031/1‑139 (MQ=255)
ctctGGATTCGCCGCGATCTCCCCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACCTCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCgccccgcccc < 2:1218477/139‑1 (MQ=255)
ggATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:1204533/139‑1 (MQ=255)
ggATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCCCACGGTAATCGACCCGCTGACCGCTGGTATCCGCCACCACCTGACCCCAGGACTCACTCCCCGCCCCCCCCCCAAt > 1:59957/1‑139 (MQ=255)
ttCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccccccg > 2:1268796/1‑57 (MQ=255)
ttCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccccccccg < 1:1268796/60‑4 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCCTCCCGTCATCGCACTGCTGGCCGCTGAGATCCGCCAGCGTCTGACGCCAGTCCCCACTCCCCCCCCCGCCCCCCATCCAcct > 2:669220/1‑137 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg < 1:1215715/101‑1 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg > 2:1215715/1‑101 (MQ=255)
gATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGa > 1:515768/1‑72 (MQ=255)
gATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGa < 2:515768/72‑1 (MQ=255)
aTCTGCGCCAGCCTTGCTGCACCCAGTGCTGGCCCCACATC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACtt < 2:661201/139‑1 (MQ=255)
tGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg < 1:669220/139‑1 (MQ=255)
cgcCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccc > 1:319827/1‑40 (MQ=255)
cgcCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑ccccc < 2:319827/40‑1 (MQ=255)
cgcCCAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAg < 1:917386/139‑1 (MQ=255)
cccAGTGCTGGCCCCACATCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGc < 1:138120/139‑1 (MQ=255)
cccAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc < 1:1293148/94‑1 (MQ=255)
cccAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc > 2:1293148/1‑94 (MQ=255)
cccAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCAt > 2:980213/1‑139 (MQ=255)
tGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg > 2:1090311/1‑127 (MQ=255)
tGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg < 1:1090311/127‑1 (MQ=255)
gCCCCACATCCCCCCCCCCATACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 2:744675/67‑1 (MQ=255)
gCCCCACATCCCCCCCCCCATACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc > 1:744675/1‑67 (MQ=255)
|
CGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACAT‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCAT > NC_000913/3727982‑3728230
|
| 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
