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 |
|
A4 F1 I1 R1
|
765 |
39.6 |
1867486 |
94.4% |
1762906 |
108.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,614,614 |
Δ2 bp |
coding (681‑682/849 nt) |
focB → |
putative formate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,614,613 | 0 | C | . | 94.1%
| 60.9
/ ‑1.8
| 17 | coding (680/849 nt) | focB | putative formate transporter |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base . (7/9); total (7/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-01 |
| * | NC_000913 | 2,614,614 | 0 | T | . | 100.0%
| 69.6
/ NA
| 17 | coding (681/849 nt) | focB | putative formate transporter |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (7/10); total (7/10) |
TTATTGCGGGCGTTCGTTATGCGACAAAATCGTCGCCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCCCTCCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCGGTGATGCTGGGTAATATTATCGGCGGTGCGGTGCTG > NC_000913/2614476‑2614737
||
ttATTGCGGGCGTTCGTTATGCGACAAAATCGTCGCCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGccccc > 2:798624/1‑138 (MQ=255)
ggCGTTCGTTATGCGACAAAATCGTCACCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAACTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCccccccccttct > 1:230065/1‑135 (MQ=255)
tcgttATGCGACAAAATCGTCGCCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAg > 2:577061/1‑139 (MQ=255)
aCAAAATCGTCGCCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGcaca > 1:454486/1‑139 (MQ=255)
tCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGa > 1:835810/1‑139 (MQ=255)
ccTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGt < 2:454486/139‑1 (MQ=255)
cTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCCC‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGt < 1:798624/139‑1 (MQ=255)
cTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCACCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTATCGCAGACAATTTTCCGGCACTGACGGTc < 1:577061/139‑1 (MQ=255)
tttGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGc < 1:167089/139‑1 (MQ=255)
tttGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGc < 2:911786/139‑1 (MQ=255)
tGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCa > 2:297856/1‑139 (MQ=255)
gAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAAt < 1:297856/139‑1 (MQ=255)
cTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCt < 1:783273/139‑1 (MQ=255)
tGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTc > 2:807143/1‑139 (MQ=255)
tCGCCATTTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCgg < 2:464129/139‑1 (MQ=255)
aTTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGcccccc > 1:456491/1‑46 (MQ=255)
aTTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGcccccc < 2:456491/48‑3 (MQ=255)
ttgtttgtGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGCCAATTTTCCGGCCCTGACGGTCAGCCATTTTATTACCGCCAATCCGCTCCCGGTGATGcag > 2:141476/1‑137 (MQ=255)
aTTCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTACTCGCAGCTGGCGCACAGTAGCGCAGACCATTTTCCGCCACTGACGGTCGGCCATTTTATTACCGCCAATCTGCTCCAGGTGATGCTGGGTAatagt < 2:230065/139‑3 (MQ=255)
ttCCGTTCGCCATTGCCATTCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCGGTGATGCTGGGTAAtatta > 2:448213/1‑139 (MQ=255)
ccattgccattCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCGGTGATGCTGGGTAATATTATCGgcggtg < 1:448213/139‑1 (MQ=255)
attCGCCATTTCGCCC‑‑CCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCGGTGATGCTGGGTAATATTATCGGCGGTGCGGTGCTg < 1:141476/139‑1 (MQ=255)
||
TTATTGCGGGCGTTCGTTATGCGACAAAATCGTCGCCATGATTTTGCCCATCACCCTGTTTGTCGCCAGTGGCTTTGAGCACTGTATCGCCAATTTGTTTGTGATTCCGTTCGCCATTGCCATTCGCCATTTCGCCCCTCCCCCCTTCTGGCAGCTGGCGCACAGTAGCGCAGACAATTTTCCGGCACTGACGGTCAGCCATTTTATTACCGCCAATCTGCTCCCGGTGATGCTGGGTAATATTATCGGCGGTGCGGTGCTG > NC_000913/2614476‑2614737
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
