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 |
|
A11 F28 I1 R1
|
132 |
43.0 |
1464274 |
99.1% |
1451095 |
138.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,121,231 |
(A)8→9 |
intergenic (‑276/+11) |
bssS ← / ← dinI |
regulator of biofilm formation/DNA damage‑inducible protein I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,121,223 | 1 | . | A | 88.2%
| 49.1
/ 0.4
| 17 | intergenic (‑268/+19) | bssS/dinI | regulator of biofilm formation/DNA damage‑inducible protein I |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base A (9/6); total (10/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
TTCTGCTTTTAAGATTTATATGAACAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑AAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGATAAATTATTCGCTGCGGCA > NC_000913/1121083‑1121356
|
ttttgtttttAAGATTTATATGAAAAATAAAACAGCATGTCATTCATA‑TTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGc < 2:267491/134‑1 (MQ=255)
aaGATTTATATGAACAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑aaaaaaa‑‑aa > 2:271808/1‑139 (MQ=255)
aGATTTATATGAACAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑aaaaaaa‑‑aat < 2:172789/140‑3 (MQ=255)
gATTTATATGAACAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑aaaaaaa‑‑aatc < 2:704571/140‑4 (MQ=255)
aCAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCAtatta > 2:177284/1‑140 (MQ=255)
aaaCAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCt < 1:46366/140‑1 (MQ=255)
cATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTCTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACaaa > 2:85290/1‑140 (MQ=255)
tGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑AAAAAAAAGATCACTGCATATTATTCGCTGACAAAc > 1:522346/1‑140 (MQ=255)
cattcatATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGt > 1:292507/1‑140 (MQ=255)
ttttAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCtt > 1:696899/1‑140 (MQ=255)
ttattTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGgaga > 2:203839/1‑140 (MQ=255)
ttGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTc > 1:541185/1‑140 (MQ=255)
ggAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTa < 1:85290/140‑1 (MQ=255)
tgtAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATgcg < 1:271808/140‑1 (MQ=255)
aTTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTa < 2:348547/140‑1 (MQ=255)
aTTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTa > 1:348547/1‑140 (MQ=255)
aaaTTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTc < 2:696899/140‑1 (MQ=255)
taaaaAAGCCGGGGCGACCCGGC‑AAAAAAAAGATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGAt < 2:522346/140‑1 (MQ=255)
ccGGGGCGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGATAAATTATTc > 2:255437/1‑140 (MQ=255)
cGACCCGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGATAAATTATTCGCTGCg < 2:292507/140‑1 (MQ=255)
cccGGCAAAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGATAAATTATTCGCTGCGGCa > 2:360964/1‑140 (MQ=255)
|
TTCTGCTTTTAAGATTTATATGAACAATAAAACAGCATGTCATTCATATTTTTTTAGCATATTGTGCAATTATTTTGAGGAAGTGTAGAAATTTTGTACTCAAAATTCGTAAGTAAAATAAAAAAGCCGGGGCGACCCGGC‑AAAAAAA‑‑ATCACTGCATATTATTCGCTGACAAACCAGTCATCGGCGCTTTCCCACGTTTCCTGGAGAATTTCACTAATGCGCTGTTTATCTTCTTTTGTCGCGCCAATAACCGATAAATTATTCGCTGCGGCA > NC_000913/1121083‑1121356
|
| 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
