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 |
|
A13 F1 I1 R1
|
778 |
68.7 |
3228504 |
93.4% |
3015422 |
109.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,972,909 |
(C)6→7 |
coding (954/1194 nt) |
lplT ← |
lysophospholipid transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,972,903 | 1 | . | C | 93.0%
| 179.7
/ 5.8
| 59 | coding (960/1194 nt) | lplT | lysophospholipid transporter |
| Reads supporting (aligned to +/- strand): ref base . (2/2); new base C (28/25); total (31/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01 |
GCCAGCGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGACACGGTTTCCA > NC_000913/2972769‑2973027
|
gCCAGCGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑cccc < 1:947075/139‑1 (MQ=255)
ccAGCGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑ccccc > 1:870154/1‑139 (MQ=255)
gCGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑ccccccca > 1:90091/1‑137 (MQ=255)
cGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑cccccccat < 2:201696/139‑4 (MQ=255)
cAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAg > 1:728317/1‑139 (MQ=255)
aGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAGC‑‑CCCCCCATCACGCCAATCAGc > 1:406790/1‑138 (MQ=255)
aGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAGC‑‑CCCCCCATCACGCCAATCAGc < 2:406790/138‑1 (MQ=255)
aGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGT‑CCCCCCATCACGCCAATCAGc > 2:1556067/1‑139 (MQ=255)
gCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑cccc > 2:780001/1‑120 (MQ=255)
gCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑cccc < 1:780001/120‑1 (MQ=255)
cATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGT‑CCCCCCATCACGCCAATCAGCAt < 1:1556067/139‑1 (MQ=255)
aacaacATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATcaac < 2:870154/139‑1 (MQ=255)
aacaacATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATcaac < 2:1270789/139‑1 (MQ=255)
acaacaTGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATcaaca > 1:1268183/1‑139 (MQ=255)
ggCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGCCCCCCCCATCACGCCAATCAGCATCAACAAGGCAt > 2:1453628/1‑139 (MQ=255)
gcgcTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAg > 1:335526/1‑139 (MQ=255)
cTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑ccccccca < 1:913811/107‑3 (MQ=255)
cTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑ccccccca > 2:913811/1‑105 (MQ=255)
tGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGc < 2:1256989/131‑1 (MQ=255)
tGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGc < 2:881520/131‑1 (MQ=255)
tGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGc > 1:1256989/1‑131 (MQ=255)
tGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGc > 1:881520/1‑131 (MQ=255)
gCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGcagcag > 1:1569837/1‑139 (MQ=255)
gCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCAt > 2:359244/1‑110 (MQ=255)
gCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCAt < 1:359244/110‑1 (MQ=255)
gCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGaa < 2:67828/139‑1 (MQ=255)
cAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGaaa < 2:1268183/139‑1 (MQ=255)
tCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGaaaaaa < 2:669159/139‑1 (MQ=255)
gCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGcgt > 2:261419/1‑91 (MQ=255)
gCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCAt < 1:261419/93‑1 (MQ=255)
ttCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAATGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGt < 2:90091/139‑1 (MQ=255)
cccgccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTacc > 2:635617/1‑139 (MQ=255)
ccgccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTacca < 2:1569837/139‑1 (MQ=255)
cgccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAg < 2:1029588/82‑1 (MQ=255)
cgccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAg > 1:1029588/1‑82 (MQ=255)
cgccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTaccac > 2:928304/1‑139 (MQ=255)
ccccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTAccacca > 2:1341487/1‑139 (MQ=255)
cccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGCCCCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTAccacca < 1:1453628/139‑1 (MQ=255)
cccgACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGCCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACcaccac > 1:564856/1‑139 (MQ=255)
aCGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGaaaaa < 2:395734/121‑1 (MQ=255)
aCGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGaaaaa > 1:395734/1‑121 (MQ=255)
ttACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATc < 2:728317/139‑1 (MQ=255)
ttACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATc < 1:815311/139‑1 (MQ=255)
aCCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGCCCCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATcc > 2:106563/1‑139 (MQ=255)
aCCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATccc < 1:635617/139‑1 (MQ=255)
ccGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGc > 2:1289333/1‑139 (MQ=255)
gCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAGC‑‑CCCCCCATCACGCCAATCAGCATcaac < 2:242897/65‑1 (MQ=255)
gCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAGC‑‑CCCCCCATCACGCCAATCAGCATcaac > 1:242897/1‑65 (MQ=255)
gCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTg > 1:426646/1‑139 (MQ=255)
gCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTg > 2:893195/1‑139 (MQ=255)
aaCGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcagc < 2:253587/73‑1 (MQ=255)
aaCGCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcagc > 1:253587/1‑73 (MQ=255)
gCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGac > 2:233266/1‑139 (MQ=255)
gCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGac < 2:426646/139‑1 (MQ=255)
gCATTGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGac > 2:1135152/1‑139 (MQ=255)
ttGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcagca < 2:132638/68‑1 (MQ=255)
ttGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcagca > 1:132638/1‑68 (MQ=255)
tGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATc < 2:1613535/114‑1 (MQ=255)
tGAGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATc > 1:1613535/1‑114 (MQ=255)
aGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGc < 2:1202389/40‑1 (MQ=38)
aGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGc > 1:1202389/1‑40 (MQ=255)
aGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTacca > 2:1257417/1‑95 (MQ=255)
aGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTacca < 1:1257417/95‑1 (MQ=255)
aGCGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGACACGGtt > 1:191081/1‑139 (MQ=255)
cGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcag < 1:897765/61‑1 (MQ=255)
cGGAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGgcag > 2:897765/1‑61 (MQ=255)
gAACGACAAAAAAGC‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGACACGGTTTCCa < 2:537051/139‑1 (MQ=255)
|
GCCAGCGAGTAAATGCCCAGCATCAACAACATGGCGCTGTTTTCGCCAAGGTTTTGTACTGCAATCGCATTCCCCGCCCCGACGCTTTTTTTACCCCGCTCCTGTAGCAACGCATTGAGCGGAACGACAAAAAAG‑‑CCCCCCATCACGCCAATCAGCATCAACAAGGCATAGGCTGGCAGCAGCTCGTGTTGCAGGGAAAAAATCAGTACCACCACGCCAATCAAAATCCCGGCTGGCATACAGCGTGACACGGTTTCCA > NC_000913/2972769‑2973027
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
