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 I2 R1
|
766 |
64.2 |
3232166 |
90.9% |
2938038 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,728,118 |
(C)8→10 |
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 | 83.3%
| 98.6
/ 13.4
| 36 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (2/4); new base C (13/17); total (15/21) |
| 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 |
| * | NC_000913 | 3,728,110 | 2 | . | C | 83.3%
| 96.9
/ 13.4
| 36 | coding (1262/1455 nt) | xylB | xylulokinase |
| Reads supporting (aligned to +/- strand): ref base . (2/4); new base C (13/17); total (15/21) |
| 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 |
GGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGA > NC_000913/3727972‑3728236
||
ggCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑t > 2:126774/1‑139 (MQ=255)
ggCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑t > 1:1014930/1‑139 (MQ=255)
tGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccc < 1:1407991/139‑1 (MQ=255)
gATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACG‑‑T‑‑cccc < 1:774809/139‑1 (MQ=255)
aGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑cccccccc < 2:35847/139‑1 (MQ=255)
ggCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccg > 2:1437368/1‑136 (MQ=255)
gCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTaa < 1:600631/139‑1 (MQ=255)
gcgcATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAg < 2:1345277/139‑1 (MQ=255)
cgcATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAgc > 1:461266/1‑139 (MQ=255)
gcATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGGGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAg < 1:535495/139‑1 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccg < 1:1034215/122‑4 (MQ=255)
cTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccg > 2:1034215/1‑119 (MQ=255)
ggTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGAc < 2:461266/139‑1 (MQ=255)
aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGAcc > 2:444991/1‑139 (MQ=255)
cGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAgctgcgcattatggc > 1:993574/1‑129 (MQ=255)
aCGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAgctgct < 2:82141/119‑1 (MQ=255)
aCGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAgctgct > 1:82141/1‑119 (MQ=255)
ggTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCAt < 1:1437368/139‑1 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGCACTCGAACCGCTGACCGCTGATCCCCGCCacctcccc > 2:1204059/1‑132 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccgtac < 1:1576309/99‑7 (MQ=255)
aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccgtac > 2:1576309/1‑93 (MQ=255)
gTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGa > 2:1149813/1‑107 (MQ=255)
gTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGa < 1:1149813/107‑1 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTACTCGAGCTGCTGACCGCTGata > 2:1129996/1‑123 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGata < 1:1129996/123‑1 (MQ=255)
ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCCTACCGTAAGCGAGCTTCCGACCGCTGATTTCCCCCCGCATCTgcc > 2:672409/1‑137 (MQ=255)
tGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg < 2:131570/139‑1 (MQ=255)
tGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg > 1:131570/1‑139 (MQ=255)
gCGGCAACAAATCAATGAGCGATTTCTCTGGAATCGCCGCCATCTGCGCCAGCCTTGCCGCGCCCAGGGCTGGCCCCACAACC‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc < 1:454416/139‑1 (MQ=255)
gCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa > 2:989509/1‑133 (MQ=255)
gCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 1:989509/133‑1 (MQ=255)
caaTTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACt < 1:444991/139‑1 (MQ=255)
gtcGATTTCTCTCGATTCGCCCCGATCTTCGCCAGCCTTGCTTCGCCCAGTGCTGGCCCCACA‑‑C‑‑CCGCCCCCGTACGGTAATCTAGCTGCTGACCGCTGATATCCACCAGCATCTGACGCCAGTACTCACTACgcgcac < 1:329907/137‑3 (MQ=255)
ttcgcaggATTCGTCGTGATCTTCGGCAGCCTTGTTGCGCCCAGTGGAGGCCCCACA‑‑TCCCCCCCCCCGTCCGGTAATCGTGCTGCTGACCGCTAATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccccgcc < 1:126774/133‑1 (MQ=255)
ggATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:249120/139‑1 (MQ=255)
ggATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt < 2:1014930/139‑1 (MQ=255)
aTTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCa < 2:1452502/110‑1 (MQ=255)
aTTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTAAGGTAATCGAGCTGCTGACCGCTGAAATCCGCCAGCATCTGACGCCa > 1:1452502/1‑110 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccgta > 1:380226/1‑54 (MQ=255)
gccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑ccccccccccgta < 2:380226/59‑6 (MQ=255)
ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGt > 2:120464/1‑107 (MQ=255)
ccgcGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGt < 1:120464/107‑1 (MQ=255)
gCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTaa < 1:37533/49‑1 (MQ=255)
gCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTaa > 2:37533/1‑49 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa < 1:581276/84‑1 (MQ=255)
ccTTGCTGCGCCCAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGa > 2:581276/1‑84 (MQ=255)
ccAGTGCTGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCa < 1:1204059/139‑1 (MQ=255)
tGGCCCCACA‑‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGa < 1:672409/139‑1 (MQ=255)
gCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGttt < 2:787295/115‑1 (MQ=255)
gCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGttt > 1:787295/1‑115 (MQ=255)
||
GGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGCGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGA > NC_000913/3727972‑3728236
|
| 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
