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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,511,746 |
(A)8→7 |
coding (599/906 nt) |
yhfZ ← |
putative DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,511,746 | 0 | A | . | 81.8%
| 157.4
/ 50.2
| 66 | coding (599/906 nt) | yhfZ | putative DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (6/6); new base . (24/30); total (30/36) |
| Fisher's exact test for biased strand distribution p-value = 7.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.73e-01 |
CCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGCGCGAGGCATAA > NC_000913/3511618‑3511882
|
agcatggtcagttcgttttccgccaccacgttccagatcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATg > 1:742813‑M1/122‑139 (MQ=255)
ttcgttttccgccaccacgttccagatcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATc < 2:1254949‑M1/29‑1 (MQ=255)
ttcgttttccgccaccacgttccagatcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATc < 1:996653‑M1/29‑1 (MQ=255)
tttccgccaccacgttccagatcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATccgccg > 2:223502‑M1/106‑139 (MQ=255)
tccgccaccacgttccagatcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGaa > 2:93786‑M1/104‑139 (MQ=255)
atcaccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 2:996653‑M1/86‑139 (MQ=255)
ccgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCt < 1:763063‑M1/58‑1 (MQ=255)
cgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑A‑ACCGGTCATGATTTTTTGATCCCCCGAACGGTTATCCAcccccaccccctt < 2:761968‑M1/59‑7 (MQ=255)
cgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTAt < 1:1228023‑M1/43‑1 (MQ=255)
cgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTAt > 2:1228023‑M1/81‑123 (MQ=255)
cgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt < 2:119338‑M1/59‑1 (MQ=255)
cgcatcgacatcgcctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCtt < 2:157946‑M1/59‑1 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACgg > 2:468477/1‑118 (MQ=255)
cGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACgg < 1:468477/118‑1 (MQ=255)
cctttaacaatgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGAc < 2:243554‑M1/72‑1 (MQ=255)
tccTTTAAGAAAGGCTTCTAAAGTCTCGCGATAATATAGATCGACGCGTTCCACATCCCTCCCGCCAAAAA‑AACACATCCGTCATGATTTTCTTATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:971759/138‑1 (MQ=255)
tgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGt < 2:696425‑M1/14‑1 (MQ=255)
tgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGt > 1:696425‑M1/58‑71 (MQ=255)
tgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTAc < 2:710566‑M1/82‑1 (MQ=255)
tgcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTAc < 1:375069‑M1/82‑1 (MQ=255)
gcgttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACg < 2:876208‑M1/83‑1 (MQ=255)
gttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGc > 1:415909‑M1/55‑139 (MQ=255)
ttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATc < 1:296487‑M1/44‑1 (MQ=255)
ttgtaaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATc > 2:296487‑M1/54‑97 (MQ=255)
taaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAAt < 2:169318‑M1/89‑1 (MQ=255)
aaactctcgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATc > 2:375069‑M1/50‑139 (MQ=255)
ctctcgtgataagagagatctactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAAc > 1:581122‑M1/47‑139 (MQ=255)
cgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGCCTCGCCTTTACGGCAAATCAACTGGt < 2:1408308‑M1/97‑1 (MQ=255)
cgtgataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGAGCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGt < 1:129425‑M1/97‑1 (MQ=255)
ataagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc > 2:129425‑M1/39‑139 (MQ=255)
aagagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGc > 1:169318‑M1/37‑139 (MQ=255)
tAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGc < 1:1164658/139‑1 (MQ=255)
agagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt > 2:3310‑M1/36‑108 (MQ=255)
agagagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACt < 1:3310‑M1/73‑1 (MQ=255)
agagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc < 1:81678‑M1/101‑1 (MQ=255)
agagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc > 2:81678‑M1/34‑134 (MQ=255)
agagatcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCaa < 2:786886‑M1/106‑1 (MQ=255)
atcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc < 2:592415‑M1/101‑1 (MQ=255)
atcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc > 1:592415‑M1/30‑130 (MQ=255)
atcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTa < 2:757096‑M1/110‑1 (MQ=255)
atcgactcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTa < 1:1093479‑M1/110‑1 (MQ=255)
tcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGtgtg < 2:1426347‑M1/116‑1 (MQ=255)
tcgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGtgtg > 1:1120666‑M1/24‑139 (MQ=255)
cgttccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGc > 1:1254949‑M1/23‑139 (MQ=255)
cTCGTTCCACATCACTACCGCCAAAAATAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGgtgt > 2:738695/1‑139 (MQ=255)
tCGTTCCACATCACTACCGCCAAAAATAA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGtgtg < 1:738695/139‑1 (MQ=255)
tccacatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGc < 1:733835‑M1/120‑1 (MQ=255)
acatcactaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGcccc > 2:763063‑M1/17‑139 (MQ=255)
actaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGcc < 1:460939‑M1/121‑1 (MQ=255)
actaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGcc > 2:460939‑M1/12‑132 (MQ=255)
ctgccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTcc < 1:1047162‑M1/129‑1 (MQ=255)
ctaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:132783‑M1/71‑1 (MQ=255)
ctaccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 2:132783‑M1/11‑81 (MQ=255)
taccgccaaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATccgccg > 1:124748‑M1/10‑44 (MQ=255)
taccgccaaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATccgccg < 2:124748‑M1/35‑1 (MQ=255)
taccgccaaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc > 2:1112728‑M1/10‑111 (MQ=255)
taccgccaaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTc < 1:1112728‑M1/102‑1 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACgg < 1:894194‑M1/39‑1 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACgg > 2:894194‑M1/10‑48 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg > 1:386838‑M1/10‑63 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCAcg < 2:386838‑M1/54‑1 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa > 2:1100343‑M1/10‑80 (MQ=255)
taccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGa < 1:1100343‑M1/71‑1 (MQ=255)
ccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACgg < 1:731785‑M1/39‑1 (MQ=255)
ccgccaaAAAAA‑AA‑‑CATCGGTCATGATTTTCTGATCCGCCGAACgg > 2:731785‑M1/8‑46 (MQ=255)
gccaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAgcgc < 2:309067‑M1/135‑1 (MQ=255)
ccaAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGcgcg > 2:1060765‑M1/4‑139 (MQ=255)
AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGCGCGAGGCATaa > 1:757096‑M1/1‑139 (MQ=255)
|
CCAGCATGGTCAGTTCGTTTTCCGCCACCACGTTCCAGATCACCGCATCGACATCGCCTTTAACAATGCGTTGTAAACTCTCGTGATAAGAGAGATCGACTCGTTCCACATCACTACCGCCAAAAA‑AA‑ACATCGGTCATGATTTTCTGATCCGCCGAACGGTTATCCAGCCCCACGCGCTTCACGTTTGCGGACTCGCCTTTACGGCAAATCAACTGGTGCTCGCCAACGTAGGTGTGCGGCCCCAACTCCAGCGCGAGGCATAA > NC_000913/3511618‑3511882
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
