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 F50 I2 R1
|
209 |
44.2 |
1360995 |
98.7% |
1343302 |
150.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,682,157 |
(C)7→8 |
coding (589/3282 nt) |
yphG ← |
DUF4380 domain‑containing TPR repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,682,150 | 1 | . | C | 97.1%
| 120.4
/ ‑2.5
| 35 | coding (596/3282 nt) | yphG | DUF4380 domain‑containing TPR repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (20/14); total (21/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.45e-01 |
CAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTT‑‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCATCGGC > NC_000913/2682001‑2682293
|
cAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCtt > 1:673147/1‑150 (MQ=255)
tttttATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTT‑‑cccccccct > 1:40286/1‑149 (MQ=255)
ttttAAAGGGAAAAATGCCCACCCCAGGGGAGAAGCCCCTTTTGTAGTAGGTGCG‑GGTGGGGATGGGGAAAG‑GGGGGCGGGCCCTTTGGCGGGGCCAAACCCCCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTT‑‑ccccccc < 2:501541/148‑1 (MQ=255)
ttATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACACTCTGATGCCCTT‑‑CCCCCCCctttc > 1:237320/1‑149 (MQ=255)
gCGAGAAATGTCCACCCCAGCGGAGTAGTCCATTTTGTAGTAAGTGCG‑GGTAGCGATGGGGAAAGGGGAGACGGCCTTTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGc < 1:53052/151‑1 (MQ=255)
tGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTgg > 1:132930/1‑151 (MQ=255)
tGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTgg > 1:216803/1‑151 (MQ=255)
ccACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGccc > 2:209635/1‑151 (MQ=255)
ccAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCcaccac > 2:411746/1‑151 (MQ=255)
gCGGAGTAGTCCATTTTTTAGTATGTGCG‑GGAGGGGGGGGGAAAAGGGGAGACGCCCTTTTTGCGGTGATAAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGtt < 2:7165/138‑1 (MQ=255)
agtCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGAc > 2:448299/1‑151 (MQ=255)
cACTTTGTAGTAA‑TGCCGGGTAGCGAGGGGAAAAGCGGAAACGGCCCGTTTGCCGTGATCAAA‑CTCCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGAcg < 1:404758/148‑1 (MQ=255)
taAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTc > 1:490734/1‑151 (MQ=255)
ggaggggaggggaAAAGGGGGGGCGCCCTGTTTGCGTTGACAAAC‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTtat < 2:178858/141‑1 (MQ=255)
tAGCGATGGGGAAAGGGGAGACGGCCCGTTTGCCGTGATAAAC‑CCCCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAg < 1:183885/150‑1 (MQ=255)
cGAGGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTCCCCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGAcg > 2:663405/1‑151 (MQ=255)
gggAAGGCGGAGACGGCCCTTTTGCGGTGATAAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTg < 1:50339/151‑1 (MQ=255)
gggAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTg > 1:304744/1‑151 (MQ=255)
gAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTgg > 2:452305/1‑150 (MQ=255)
gcccttttggctgTGATAAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAgc < 1:642799/137‑1 (MQ=255)
ccGTAATCAAC‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTcc < 1:11/151‑2 (MQ=255)
gTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAgg > 1:642684/1‑151 (MQ=255)
gTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAgg > 1:152795/1‑151 (MQ=255)
ggctacaacggccgccgTTACATCCGGCGGGAAGACGCTCTGATGCCCTTCCCCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCa < 1:123603/139‑1 (MQ=255)
aacAAA‑CCCCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGt < 2:296757/142‑1 (MQ=255)
tCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGgcg > 2:97863/1‑150 (MQ=255)
aa‑CCCCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGgc < 2:493818/146‑1 (MQ=255)
cacCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAggg > 2:620659/1‑150 (MQ=255)
ttACATCCGGCGGGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTg > 1:55597/1‑151 (MQ=255)
ggcggGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCAcc > 1:43541/1‑151 (MQ=255)
ggcggGAAGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCAcc < 1:297154/151‑1 (MQ=255)
aaGACGCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTaa > 2:157805/1‑150 (MQ=255)
gCTCTGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATg > 2:125779/1‑151 (MQ=255)
tctGATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGc > 2:243190/1‑150 (MQ=255)
gATGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCa < 1:197052/148‑1 (MQ=255)
aTGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCATCgg > 1:92948/1‑151 (MQ=255)
aTGCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCATCgg > 1:455906/1‑151 (MQ=255)
gCCCTTC‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCATCGGc < 1:349142/150‑1 (MQ=255)
|
CAGGCACATTTTTATAGCGAGAAATGTCCACTCCAGCGGAGTAGTCCACTTTGTAGTAAGTGCC‑GGTAGCGATGGGGAAAGCGGAGACGGCCCGTTTGCCGTGATCAAA‑CACCGCCGTTACATCCGGCGGGAAGACGCTCTGATGCCCTT‑‑CCCCCCCTTTCACTGCCGGGTTGGCCCACCACAAGAAATGACGCGGCGTGGCGTTCCCGTTATAGACGCGGCTGGCGATTTCCAGCGCCGCCCGGTCAGGGCGCAGGGTGAAACCTGTCATCACCTGTAAACCATGCATCGGC > NC_000913/2682001‑2682293
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
