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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
344,381 |
G→A |
72.4% |
intergenic (+166/‑247) |
yahL → / → yahM |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 344,381 | 0 | G | A | 72.4%
| 88.8
/ 41.9
| 58 | intergenic (+166/‑247) | yahL/yahM | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (8/8); new base A (22/20); total (30/28) |
| 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 |
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGAC > W3110S.gb/344314‑344446
|
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGt > 1:263721/1‑69 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGt > 1:178921/1‑69 (MQ=255)
tctcTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGAttt < 1:587919/68‑1 (MQ=255)
tctcTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGAttt > 1:3575790/1‑68 (MQ=255)
tctcTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGAttt > 1:3539795/1‑68 (MQ=255)
ctctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGttt > 1:225516/1‑67 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGc > 1:820921/1‑69 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGc > 1:1947419/1‑69 (MQ=255)
tctTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGc > 1:1676675/1‑69 (MQ=255)
ttttCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGcc > 1:1826268/1‑69 (MQ=255)
ttCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGc < 1:2988766/66‑1 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaa > 1:431810/1‑68 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaa > 1:1051135/1‑68 (MQ=255)
ttgttgTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaa > 1:2845936/1‑68 (MQ=255)
ttgtGATCGGCGACACTTCGCTTAAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATaaaa < 1:2220578/68‑1 (MQ=255)
gtgATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1720384/69‑1 (MQ=255)
gtgATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1688298/69‑1 (MQ=255)
gtgATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1969782/69‑1 (MQ=255)
gtgATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1166779/69‑1 (MQ=255)
gtgATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATg < 1:202530/69‑1 (MQ=255)
cGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:306709/68‑1 (MQ=255)
cGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGAtct > 1:2625854/1‑68 (MQ=255)
cGGCGAAACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1776075/68‑1 (MQ=255)
ggCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1332750/67‑1 (MQ=255)
ggCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCg > 1:2959875/1‑49 (MQ=255)
ggCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCg > 1:18165/1‑49 (MQ=255)
ggCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCg > 1:752479/1‑49 (MQ=255)
acacTTCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCa < 1:2192334/69‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:1981529/69‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCACCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:820227/69‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCa > 1:2143689/1‑36 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCa > 1:2891085/1‑36 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCa > 1:1893463/1‑36 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCa < 1:2199425/36‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATg < 1:122464/68‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATg < 1:882794/68‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATg < 1:1770929/68‑1 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:675624/1‑69 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:2141245/1‑69 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:981506/1‑69 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt > 1:2935419/1‑69 (MQ=255)
tCGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:2690112/69‑1 (MQ=255)
cGCTT‑AAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGtt > 1:2764219/1‑69 (MQ=255)
aaaaaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg > 1:781875/1‑69 (MQ=255)
aaaaGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:95379/67‑1 (MQ=255)
aaaGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg > 1:3549780/1‑66 (MQ=255)
gCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAAtgtg < 1:3402237/69‑1 (MQ=255)
gCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAAtgtg < 1:2259747/69‑1 (MQ=255)
cACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAAtg > 1:1887495/1‑66 (MQ=255)
tagtGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:88739/39‑1 (MQ=255)
tagtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:1240590/56‑1 (MQ=255)
tagtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:2678680/56‑1 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:3523810/54‑1 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:1289276/54‑1 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGAc > 1:2999137/1‑69 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGAc > 1:1350734/1‑69 (MQ=255)
gtGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGAc > 1:3024556/1‑69 (MQ=255)
gtGATTTAGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:2047237/54‑1 (MQ=255)
|
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTT‑AAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGAC > W3110S.gb/344314‑344446
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
