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 |
|
A5 F1 I1 R1
|
770 |
51.4 |
2439994 |
93.8% |
2288714 |
110.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,240,984 |
(G)7→9 |
coding (1041/1245 nt) |
sstT → |
sodium:serine/threonine symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,240,977 | 1 | . | G | 96.7%
| 102.5
/ ‑3.3
| 30 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (13/16); total (13/17) |
| 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 | 3,240,977 | 2 | . | G | 86.7%
| 88.9
/ 7.5
| 30 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (1/3); new base G (12/14); total (13/17) |
| Fisher's exact test for biased strand distribution p-value = 6.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.62e-01 |
GCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCG > NC_000913/3240844‑3241093
||
gcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑ggggg > 2:1123318/1‑139 (MQ=255)
gggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑ggggggg < 2:373418/139‑1 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑gggggggg < 2:599926/139‑2 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑ggggg < 2:223839/136‑1 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCCGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑ggggg > 1:223839/1‑136 (MQ=255)
aTCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTctgct < 2:271050/139‑1 (MQ=255)
aCCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCG‑GGGGGGGTCTCTGCTGCTGATCCCa < 1:1123318/139‑1 (MQ=255)
tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTg > 1:636723/1‑139 (MQ=255)
gtTGACGCTTGCTGCGGTTAATGCGCTGGGGGGTGCGGTCCATCTGCCCACGGCTCTGCTTTTGGGCTTGTGGGCTTCTTTGTGTGCCTGTGGCGCATCCGCCGT‑‑GGCGGGGGGGGGTCGCTGCTGCTGATCCCACggg < 1:97234/139‑1 (MQ=255)
gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGGGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTgg < 1:1011665/139‑1 (MQ=255)
gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTgg < 2:338903/139‑1 (MQ=255)
ttGACGGGGGCTGCGGTTAATTCGCTGGGTATTCCTGTCGATCTGCCCACGGCGCTGCGGTTGAGCGGGGGGGCTTCTCTGGGTGGCTGTGGCGCATCCGGCGTGGGGG‑‑GGGGGGGTCTCTGCTGCTGATCCCACTGGc < 1:583072/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 1:1066295/139‑1 (MQ=255)
gACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACt < 1:224821/134‑1 (MQ=255)
gACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACt > 2:224821/1‑134 (MQ=255)
gACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑gggggggggtctc < 2:687399/118‑7 (MQ=255)
gACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑gggggggggtctc > 1:687399/1‑112 (MQ=255)
aCGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTg > 2:563150/1‑139 (MQ=255)
ggctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAata > 2:193544/1‑139 (MQ=255)
ggTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCg < 2:1031571/139‑1 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑gggggggggtctc > 2:307845/1‑88 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑gggggggggtctc < 1:307845/94‑7 (MQ=255)
tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc > 2:1073081/1‑107 (MQ=255)
tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 1:1073081/107‑1 (MQ=255)
ccGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGc < 2:825675/139‑1 (MQ=255)
ccGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGc < 2:50701/139‑1 (MQ=255)
ccGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGc > 1:50701/1‑139 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATg > 1:384641/1‑139 (MQ=255)
ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTa > 1:685833/1‑94 (MQ=255)
ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTa < 2:685833/94‑1 (MQ=255)
tgctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGc > 1:63708/1‑139 (MQ=255)
ttGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTat < 1:193544/139‑1 (MQ=255)
tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGc > 2:606572/1‑139 (MQ=255)
gtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGt < 1:563150/139‑1 (MQ=255)
gCCTGTGGCGCATCCGGCGT‑‑GGCG‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCg < 2:1157328/122‑1 (MQ=255)
gCCTGTGGCGCATCCGGCGT‑‑GGCG‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCg > 1:1157328/1‑122 (MQ=255)
cTGTGGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCg > 1:985972/1‑139 (MQ=255)
tgGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc > 1:768022/1‑50 (MQ=255)
tgGCGCATCCGGCGT‑‑GGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 2:768022/50‑1 (MQ=255)
||
GCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGT‑‑GGC‑‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCG > NC_000913/3240844‑3241093
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
