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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,509,926 |
C→T |
51.1% |
P364P (CCG→CCA) |
yicH ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,509,926 | 0 | C | T | 51.1%
| ‑4.5
/ 81.2
| 88 | P364P (CCG→CCA) | yicH | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (14/29); new base T (15/30); total (29/59) |
| 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 |
GTTGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGTTTT > minE/2509868‑2509979
|
gTTGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGta < 1:3386592/68‑1 (MQ=255)
gTTGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGta < 1:462253/68‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:1707016/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:905848/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:2161375/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:1711040/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:1241828/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:460387/69‑1 (MQ=255)
ttGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGtata < 1:1958771/69‑1 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCAGAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:3084733/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:287777/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:3044067/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:3095057/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:2765476/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:2111874/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:2431010/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:2315441/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:2284408/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:1519562/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:132504/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:742069/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:835406/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:873557/1‑68 (MQ=255)
tttAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGtcc > 1:94191/1‑68 (MQ=255)
accaaccGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCa < 1:1290971/68‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:1082017/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:3239417/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:3085564/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:571287/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:3032384/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:639610/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:2924485/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:2539483/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:763844/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:1455071/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:1477621/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:206780/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGcc < 1:1127129/61‑1 (MQ=255)
cGTTTCCATCCACAACTGTTGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAATTGc < 1:2602243/60‑1 (MQ=255)
gTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCAtcatca < 1:2789965/69‑1 (MQ=255)
tccatccaCAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAgg > 1:1212361/1‑69 (MQ=255)
tccatccaCAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAgg > 1:1129709/1‑69 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCCAGGTatat < 1:3122499/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTttat < 1:1011083/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:2515564/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:600991/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:211811/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:202747/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:857909/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:543741/35‑1 (MQ=255)
tccaCAACTGTTGCCAGTTTTTCGGCAAGGTatat < 1:2326083/35‑1 (MQ=255)
ccaCAACTGTTGTCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCaa > 1:2705480/1‑69 (MQ=255)
ccaCAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAATGATCaa > 1:498093/1‑69 (MQ=255)
ccaCAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCaa > 1:1421643/1‑69 (MQ=255)
ccaCAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCaa > 1:2690506/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:755192/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:550299/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:53286/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:2125555/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:2558819/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:1821019/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:802144/1‑69 (MQ=255)
cacaACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAAc > 1:2006287/1‑69 (MQ=255)
cTGTTGCCAGTTTTTCGGCAATGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:1105808/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:2405867/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:2258927/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:120531/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:692860/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:1848658/69‑1 (MQ=255)
cTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:609806/69‑1 (MQ=255)
tGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:162141/68‑1 (MQ=255)
tGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGtttt < 1:2505471/68‑1 (MQ=255)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:701157/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:93860/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:1644997/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:488363/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:1515185/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:362494/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:1651096/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:1726314/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:3040178/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:1928340/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:2922387/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:2665125/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:2075215/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:2427239/40‑1 (MQ=37)
ttGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:2210811/40‑1 (MQ=37)
tGCCAGTTTTTTGGCAAGGTATATTCCAGTCCGGCAAtt < 1:908100/39‑1 (MQ=37)
|
GTTGCAGGCTGTTTAACCAACCGGGTGTCGTTTCCATCCACAACTGTTGCCAGTTTTTCGGCAAGGTATATTCCAGCCCGGCAATTGCCGCATCATCAAGGATCAACGTTTT > minE/2509868‑2509979
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
