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 |
|
A10 F28 I1 R1
|
180 |
66.5 |
2263572 |
99.4% |
2249990 |
138.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,344,977 |
T→C |
S87S (AGT→AGC) |
rpoN → |
RNA polymerase, sigma 54 (sigma N) factor |
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,344,977 | 0 | T | C | 95.1%
| 196.5
/ 0.4
| 61 | S87S (AGT→AGC) | rpoN | RNA polymerase, sigma 54 (sigma N) factor |
| Reads supporting (aligned to +/- strand): ref base T (1/2); new base C (28/30); total (29/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
GAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGG > NC_000913/3344840‑3345094
|
gagaGTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTg > 1:1116867/1‑140 (MQ=255)
gagTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTggg < 2:623072/140‑1 (MQ=255)
gTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGac < 2:703608/140‑1 (MQ=255)
gTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGac < 2:320212/140‑1 (MQ=255)
tCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTggg > 2:200677/1‑134 (MQ=255)
tCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTggg < 1:200677/134‑1 (MQ=255)
gctgctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTg > 2:309848/1‑129 (MQ=255)
gctgctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTg < 1:309848/129‑1 (MQ=255)
ctgctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTa < 1:430689/140‑1 (MQ=255)
tgctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTac > 2:644141/1‑140 (MQ=255)
tgctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTac > 1:372044/1‑140 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGac < 1:1011443/129‑1 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGac > 2:1011443/1‑129 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGa < 2:66108/128‑1 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGa > 1:66108/1‑128 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTacac < 2:465628/140‑1 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTacac > 1:464657/1‑140 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTacac < 2:464657/140‑1 (MQ=255)
ctTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTacac < 2:372044/140‑1 (MQ=255)
gAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGc > 1:1078230/1‑140 (MQ=255)
tCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGc < 1:535115/133‑1 (MQ=255)
tCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGc > 2:535115/1‑133 (MQ=255)
tCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTaca < 1:374497/140‑1 (MQ=255)
tCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTaca > 2:374497/1‑140 (MQ=255)
aTGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGc > 1:74566/1‑140 (MQ=255)
aTGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGc > 1:214233/1‑140 (MQ=255)
aTGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGc > 2:187563/1‑140 (MQ=255)
gaagaaATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCAc < 1:1041566/140‑1 (MQ=255)
aaTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCGTCCGGCACCAGCg < 2:884337/140‑1 (MQ=255)
aTCGACCCCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACGCCATTTACACCGCTGGTACACCATCCGGCACCAGCg < 1:841786/139‑1 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCa > 2:1039136/1‑133 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCa < 1:1039136/133‑1 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCg > 2:841786/1‑139 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCg > 1:352071/1‑139 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCg < 2:352071/139‑1 (MQ=255)
aTCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGACGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCgg > 2:989759/1‑140 (MQ=255)
acacCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGAc < 2:669613/140‑1 (MQ=255)
cGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTgacgac < 2:1078230/140‑1 (MQ=255)
gACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCt < 2:694689/140‑1 (MQ=255)
cAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGc < 1:246955/140‑1 (MQ=255)
tGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCgg > 2:496591/1‑140 (MQ=255)
cGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTAc > 2:196067/1‑140 (MQ=255)
gACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAggg > 2:691280/1‑140 (MQ=255)
cgccgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGaaa < 2:691067/140‑1 (MQ=255)
cgccgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGaaa > 2:457630/1‑140 (MQ=255)
gccgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGaaa < 1:423915/139‑1 (MQ=255)
gccgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGaaa > 2:423915/1‑139 (MQ=255)
ccgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAacg > 2:977863/1‑140 (MQ=255)
cgACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCGTTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAacga > 2:1011680/1‑140 (MQ=255)
gcgcTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCa < 1:644141/140‑1 (MQ=255)
gcTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGa < 1:977863/140‑1 (MQ=255)
cTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGAc > 1:17834/1‑140 (MQ=255)
cTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGAc > 2:793162/1‑140 (MQ=255)
cAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCa < 1:989759/140‑1 (MQ=255)
aaaaGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAgg < 2:1116867/140‑1 (MQ=255)
aaaaGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAgg < 1:457630/140‑1 (MQ=255)
aaaGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGa > 2:779843/1‑140 (MQ=255)
gaTGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTAcc < 1:793162/140‑1 (MQ=255)
aTGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCt > 1:357324/1‑140 (MQ=255)
aTGCCGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCt < 1:1036187/140‑1 (MQ=255)
cGGAAGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGAtg > 2:24524/1‑140 (MQ=255)
aaGAGCTGCCGCTCGATGCCAGCTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTgg < 2:17834/140‑1 (MQ=255)
|
GAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATGAAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAAGAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGG > NC_000913/3344840‑3345094
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A