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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
267,502 |
G→T |
32.7% |
P228H (CCT→CAT) |
ykfA ← |
predicted GTP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 267,502 | 0 | G | T | 32.7%
| 106.7
/ 37.7
| 58 | P228H (CCT→CAT) | ykfA | predicted GTP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base G (20/19); new base T (7/12); total (27/31) |
| Fisher's exact test for biased strand distribution p-value = 4.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.70e-01 |
GGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCCA > W3110S.gb/267438‑267568
|
ggCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGa < 1:2248932/71‑1 (MQ=255)
ggCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATg > 1:4955495/1‑69 (MQ=255)
cGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc < 1:2715526/71‑1 (MQ=255)
gACGGTTTCCCCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAg > 1:668444/1‑66 (MQ=255)
gACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAATGGAAGGATGGAGTTGc > 1:891279/1‑70 (MQ=255)
gACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc > 1:3207248/1‑70 (MQ=255)
gACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc > 1:3977844/1‑70 (MQ=255)
gACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc < 1:4497244/70‑1 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGa < 1:4321338/71‑1 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:1610013/1‑71 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:3871045/1‑71 (MQ=255)
gTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATgg < 1:3997252/60‑1 (MQ=255)
gTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATgg < 1:565995/60‑1 (MQ=255)
gTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGacac < 1:95475/71‑1 (MQ=255)
gTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGaca < 1:720735/70‑1 (MQ=255)
tttCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGtt < 1:3204326/63‑1 (MQ=255)
tttCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGtt < 1:2627451/63‑1 (MQ=255)
ttCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAaggaagga > 1:4656710/1‑55 (MQ=255)
ttCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAg > 1:2305251/1‑60 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:519822/1‑65 (MQ=255)
cAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCTAAAGGAAGGATGGAGTTGCGACACCACCgg > 1:4007472/1‑70 (MQ=255)
aaaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGa > 1:3261391/1‑53 (MQ=255)
aaTCGCTACGAGCCTGTTGCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGtt < 1:312514/54‑1 (MQ=255)
aTCGCTACGAGCCTGTTCCCGGACTTCCGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCtgg > 1:2782622/1‑71 (MQ=255)
aTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCtgg > 1:1835898/1‑71 (MQ=255)
aTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtgg > 1:1907354/1‑71 (MQ=255)
tCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc > 1:606428/1‑54 (MQ=255)
tCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc > 1:3784186/1‑54 (MQ=255)
cTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGc < 1:4484120/71‑1 (MQ=255)
tACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGCCACCACCGGGCTGGTGGc > 1:3962296/1‑70 (MQ=255)
tACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGc > 1:4566097/1‑70 (MQ=255)
aCGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCt > 1:4923040/1‑71 (MQ=255)
aCGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCt > 1:3503090/1‑71 (MQ=255)
cGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACCCCACCGGGCTGGTGGCCt > 1:164839/1‑70 (MQ=255)
cGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGcc < 1:1260165/69‑1 (MQ=255)
ccTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGt < 1:1010747/71‑1 (MQ=255)
gTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCAc < 1:2954201/66‑1 (MQ=255)
gTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCAc < 1:1038634/66‑1 (MQ=255)
ttCCCGGACTACCGTCGTGCGAAAGGAAGGATGGa < 1:3866301/35‑1 (MQ=255)
ccGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggcagg < 1:1759901/70‑1 (MQ=255)
tgACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCAc > 1:4789710/2‑71 (MQ=255)
ggACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCg > 1:2314956/1‑45 (MQ=255)
aCTACCGTTGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:2806602/48‑1 (MQ=255)
cTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACtt < 1:4255877/70‑1 (MQ=255)
gtcgtGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCt < 1:703408/41‑1 (MQ=255)
gtcgtGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAatcat < 1:2790506/71‑1 (MQ=255)
tcgtGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTg < 1:136857/54‑1 (MQ=255)
tcgtGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAatcatc < 1:1864672/71‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:4413569/41‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:4151192/41‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:857627/41‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:1359003/41‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAatcat < 1:2043141/70‑1 (MQ=255)
gtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCg < 1:1594507/71‑1 (MQ=255)
cGAAAGGAATGATGGAGTTGCGACACCCCCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTc > 1:45368/1‑71 (MQ=255)
gAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAatc < 1:2700178/62‑1 (MQ=255)
aaaGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCgg > 1:2019602/1‑71 (MQ=255)
aaaGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCgg > 1:4367334/1‑71 (MQ=255)
aaaGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCgg > 1:3079119/1‑71 (MQ=255)
aaggaaggATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGc < 1:2183750/71‑1 (MQ=255)
aggaaggaTGGAGTTGCGACACCACCGGGCTGGTGGCCTc > 1:1380622/1‑40 (MQ=255)
ggaatgaTGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCCa < 1:1148116/71‑1 (MQ=255)
ggaatgaTGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCCa < 1:935399/71‑1 (MQ=255)
|
GGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCCA > W3110S.gb/267438‑267568
|
| 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
