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 |
|
A8 F1 I2 R1
|
97 |
53.3 |
2484976 |
94.5% |
2348302 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,767,445 |
(C)7→8 |
intergenic (+90/‑265) |
rnlB → / → yfjP |
CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,767,438 | 1 | . | C | 83.0%
| 134.9
/ 19.9
| 47 | intergenic (+83/‑272) | rnlB/yfjP | CP4‑57 prophage, uncharacterized protein/CP4‑57 prophage, 50S ribosome‑binding GTPase family protein |
| Reads supporting (aligned to +/- strand): ref base . (7/1); new base C (16/23); total (23/24) |
| Fisher's exact test for biased strand distribution p-value = 2.26e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767301‑2767571
|
aGCCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑aaa > 1:1208286/1‑138 (MQ=255)
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c > 2:378434/1‑139 (MQ=255)
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c < 1:704111/139‑1 (MQ=255)
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c > 2:517013/1‑139 (MQ=255)
ccTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c > 2:190376/1‑139 (MQ=255)
tGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c‑t‑ccc > 2:747730/1‑139 (MQ=255)
tGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c < 2:672190/135‑1 (MQ=255)
tGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c > 1:672190/1‑135 (MQ=255)
ttGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c‑c‑c‑c‑cccctca < 2:891142/139‑5 (MQ=255)
gTCTCCCGATGATGTACGCCAAGTCCTGTCAATCGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTcaca < 2:297854/139‑1 (MQ=255)
ctcCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAAc < 1:247002/139‑1 (MQ=255)
aCGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc > 1:1205806/1‑129 (MQ=255)
aCGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc < 2:1205806/129‑1 (MQ=255)
cGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGTATT‑AACC‑C‑C‑C‑CCCTcaca > 1:795199/1‑123 (MQ=255)
cGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTcaca < 2:795199/123‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAac < 1:378434/139‑1 (MQ=255)
ccAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAac < 2:1230534/139‑1 (MQ=255)
cTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACTAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑CTC‑CCCTCACAACGTCCTGCATAGGGAACACGtttt < 1:747730/139‑1 (MQ=255)
gTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACATCATGCATAGAGAACACGTTTTcc > 1:565254/1‑139 (MQ=255)
ggATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCACACAACGACCTGCATAGGGAACACGTTTTCCCCtgag > 2:675944/1‑137 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 1:460471/139‑1 (MQ=255)
ttttGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 2:646889/139‑1 (MQ=255)
cttcttTCTAAACGAACCTGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c < 2:240336/80‑1 (MQ=255)
cttcttTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑c > 1:240336/1‑80 (MQ=255)
tctAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTccc < 2:949371/139‑1 (MQ=255)
aaaCGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc > 1:442302/1‑88 (MQ=255)
aaaCGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc < 2:442302/88‑1 (MQ=255)
cAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAAc < 1:190376/139‑1 (MQ=255)
tataGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTcaca > 1:379302/1‑72 (MQ=255)
tataGAATTCGCCCTTTTGGCATGATATTAACCTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTcaca < 2:379302/72‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAac < 2:1214720/83‑1 (MQ=255)
ttCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAac > 1:1214720/1‑83 (MQ=255)
cGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGa < 1:70638/79‑1 (MQ=255)
cGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGa > 2:70638/1‑79 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCTAATAGAATT‑AA‑CAA‑C‑C‑GATTCTCAACCGTCTGAATAGGGAACACCTTTTCCCCTGTCCACGTACGACCAATTCTCCCCCCCTATATACtaccccacaatac > 1:828923/1‑127 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGtttt > 1:366268/1‑87 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGtttt < 2:366268/87‑1 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGt > 2:1029891/1‑139 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTAACAACGCCCTTCATAGGGAAAACTTTGTCTCCTGAGCACCCCCAAGTAAATTTCTCCCCCTTTAACCGTATCAATAATGt > 2:93582/1‑139 (MQ=255)
gCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑CAC‑C‑CCCTCACAACGTCATGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGt > 2:589476/1‑139 (MQ=255)
tGGCATGATATCAACTTGACCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCGGCATAGAGAACACGTTTTCCCCTGTGCACCCATGACTAAAATTCCCCCCCTTTACACTTCTCACTAATGTCActcat < 2:455503/139‑5 (MQ=255)
gCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc > 1:118642/1‑90 (MQ=255)
gCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCAcc < 2:118642/90‑1 (MQ=255)
aaCTTGTCCAATATTATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGCCCTCCATAGCGAACACGTTTTCCCCTGTGTACCCACGACTAAATTTCCCCCTCTTCAAAATTCTCAATAATGTCACCAATTTTCTGGAAATc < 2:714722/139‑1 (MQ=255)
tGTCCAACATGATCAAATAGCATT‑AA‑CTC‑C‑C‑CCATTACCAAGTCCTGCGTAGGGAACAGGTGTTCCCCTGTACACCCAAGACTAAATTTCCCTCCCTTTCACTTTCTCAATAAAGTCACCAATTTTGTATAAATGCTag > 1:755788/1‑138 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc < 2:311174/42‑1 (MQ=255)
tCCAATATGATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTc > 1:311174/1‑42 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑C‑C‑CAC‑CCCTCACAACGTCCTGCATAGGGAAAACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCACCCTTTAAACATCTCAACAATGTCACCAAGTTTCTGGAAATCCTatga > 2:431788/1‑139 (MQ=255)
tCCAATATGATCAAATAGCATT‑AA‑C‑C‑C‑CACCCTGACTACTTCCTTCATAGTGAACACCATTACACCTGTCAACCCACGAGTAACTTTCACTCCCCTTAAAATACACACTAATCTCTCCAATTTTCTGGTAATCCTaaca > 2:449428/1‑136 (MQ=255)
gATCAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 1:325958/139‑1 (MQ=255)
gATCAAATACCCTTGAC‑C‑C‑C‑C‑CCCTAGCAACGTCCTGCATAGGCAACACGTTTTCCCCTGTGCACCCACGACTAAATAACCCCCCCTTTATACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 2:237933/139‑1 (MQ=255)
cAAATAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCg < 1:431788/139‑1 (MQ=255)
aaTAGCATT‑AA‑C‑C‑CAC‑CCCCCACAACGTCCTGCATAGGGAACACGTTTTCCCCTCTGGACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATTCCACCAATTTTATGGAAAACCTATTATACCTTTCCCgat > 1:60518/1‑137 (MQ=255)
tAGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTaa < 1:93582/139‑1 (MQ=255)
aGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc > 2:231999/1‑131 (MQ=255)
aGCATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTc < 1:231999/131‑1 (MQ=255)
cATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATATGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGCAAATCCTATGATGCCTTTcc > 2:113603/1‑130 (MQ=255)
cATT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTcc < 1:113603/130‑1 (MQ=255)
aTT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGCCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATgg > 1:274625/1‑139 (MQ=255)
aTT‑AACC‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCACCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATgg > 2:811985/1‑139 (MQ=255)
aTT‑AA‑C‑C‑CAC‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACt > 1:749557/1‑83 (MQ=255)
|
AGCCTCTGTTTTGTCTCCCGATGATGTACGCCAAGTCCTGTCAATGGATTTTTGAAACTCTTCTTTCTAAACGAACCAGTATAGAATTCGCCCTTTTGGCATGATATTAACTTGTCCAATATGATCAAATAGCATT‑AA‑C‑C‑C‑C‑CCCTCACAACGTCCTGCATAGGGAACACGTTTTCCCCTGTGCACCCACGACTAAATTTCCCCCCCTTTAAACTTCTCAATAATGTCACCAATTTTCTGGAAATCCTATGATGCCTTTCCCGGTAAATGG > NC_000913/2767301‑2767571
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
