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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
434,040 |
C→T |
20.4% |
intergenic (‑93/+196) |
fur ← / ← fldA |
DNA‑binding transcriptional dual regulator/flavodoxin 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 434,040 | 0 | C | T | 20.4%
| 111.8
/ 22.5
| 54 | intergenic (‑93/+196) | fur/fldA | DNA‑binding transcriptional dual regulator/flavodoxin 1 |
| Reads supporting (aligned to +/- strand): ref base C (27/16); new base T (4/7); total (31/23) |
| Fisher's exact test for biased strand distribution p-value = 1.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.89e-01 |
ACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCTTACATTTACAA > minE/433977‑434109
|
aCTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCATGCCTaa < 1:1842672/70‑1 (MQ=255)
cTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAAt > 1:826344/1‑71 (MQ=255)
ttCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCAc < 1:744299/62‑1 (MQ=255)
ttCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAAt > 1:3193989/1‑70 (MQ=255)
cATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGc > 1:3670245/1‑62 (MQ=255)
cATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGa > 1:2127251/1‑70 (MQ=255)
aTTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGaa < 1:1803114/70‑1 (MQ=255)
gaagaaGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAAcc < 1:1930052/70‑1 (MQ=255)
gaagTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACaa < 1:3056422/71‑1 (MQ=255)
aagTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAg > 1:1645647/1‑71 (MQ=255)
gTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCAc > 1:3155798/1‑49 (MQ=255)
tGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTcc < 1:171630/71‑1 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTccc < 1:2589069/70‑1 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTccc < 1:2589974/70‑1 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTCCCt > 1:3874686/1‑71 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTCACt > 1:2988077/1‑71 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTaa < 1:2801211/52‑1 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTccc < 1:2497498/70‑1 (MQ=255)
aCAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCt > 1:3276945/1‑71 (MQ=255)
aGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTgg > 1:1452451/1‑71 (MQ=255)
aGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTgg > 1:3668141/1‑71 (MQ=255)
gAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTcc > 1:2449317/1‑66 (MQ=255)
aaTTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGc > 1:2284710/1‑70 (MQ=255)
aaTTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGc > 1:1973637/1‑70 (MQ=255)
aaTTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCa < 1:21083/71‑1 (MQ=255)
aaTTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCa < 1:3839987/71‑1 (MQ=255)
ttGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGt > 1:2567255/1‑70 (MQ=255)
tGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGt > 1:3183985/1‑69 (MQ=255)
gagaTAATGCGTATCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATAtt > 1:2546663/1‑66 (MQ=255)
gagaTAATGCGTATCATTATAGAATTGCCACGCCTAAATGaaaa > 1:3809828/1‑44 (MQ=255)
gaTAATGAGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAatat > 1:1235505/1‑63 (MQ=255)
aTAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTtaataa < 1:1758173/71‑1 (MQ=255)
aTGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCa > 1:2683460/1‑54 (MQ=255)
aTGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATaaaa < 1:3292223/70‑1 (MQ=255)
tGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAAc > 1:170418/1‑71 (MQ=255)
gCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATAtt > 1:282383/1‑58 (MQ=255)
cGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACg < 1:2969514/70‑1 (MQ=255)
tATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGt < 1:1844917/41‑1 (MQ=255)
aTCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCACt > 1:1365728/1‑44 (MQ=255)
tCATTATAGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTgaat > 1:184715/1‑68 (MQ=255)
cATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTtaataa < 1:2387722/60‑1 (MQ=255)
aTTATAGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGcac < 1:1912007/70‑1 (MQ=255)
aTTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGca > 1:1744752/1‑69 (MQ=255)
aTTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGca > 1:3583159/1‑69 (MQ=255)
ttATAGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAg < 1:1493181/71‑1 (MQ=255)
ttATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAg > 1:2431517/1‑71 (MQ=255)
ttATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAg > 1:2322199/1‑71 (MQ=255)
ttATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAg > 1:3471661/1‑71 (MQ=255)
tataGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGGACAg > 1:3713505/1‑70 (MQ=255)
taGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCt < 1:947789/70‑1 (MQ=255)
taGAATTGCCATGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCt < 1:952323/70‑1 (MQ=255)
taGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTta > 1:3396593/1‑51 (MQ=255)
gAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCTTa > 1:2664680/1‑70 (MQ=255)
gAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCTTAc < 1:3350299/71‑1 (MQ=255)
ttGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAatat < 1:2390854/41‑1 (MQ=255)
aCGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCTTACATTTACaa < 1:1503887/71‑1 (MQ=255)
|
ACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATAGAATTGCCACGCCTAAATGAAAACCACAAGTCCCTGGCAAATATTGTTAATAAAAACGTGGCACAGCTTACATTTACAA > minE/433977‑434109
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
