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 |
890,121 |
T→C |
28.6% |
intergenic (‑128/+240) |
fabI ← / ← ycjD |
enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 890,121 | 0 | T | C | 28.6%
| 57.1
/ 27.3
| 42 | intergenic (‑128/+240) | fabI/ycjD | enoyl‑[acyl‑carrier‑protein] reductase, NADH‑dependent/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (7/23); new base C (4/8); total (11/31) |
| Fisher's exact test for biased strand distribution p-value = 6.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01 |
TAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAACCCTCTCCCCAGAGG > minE/890052‑890185
|
tAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGt < 1:238150/70‑1 (MQ=255)
aGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTcc > 1:3929926/1‑71 (MQ=255)
tAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGt < 1:1486473/67‑1 (MQ=255)
aaaCAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGAc > 1:2292756/1‑71 (MQ=255)
aCAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCg < 1:3384936/71‑1 (MQ=255)
aCAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCg < 1:715483/71‑1 (MQ=255)
cAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGAcctg < 1:3761446/71‑3 (MQ=255)
cAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCg > 1:560078/1‑70 (MQ=255)
cAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCgg < 1:2731966/71‑1 (MQ=255)
gTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAg < 1:1424921/71‑1 (MQ=255)
cGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAg > 1:1531677/1‑71 (MQ=255)
cAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTg < 1:2065692/71‑1 (MQ=255)
tAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGc < 1:1414533/71‑1 (MQ=255)
aaaCGGTTATTATAATCTACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGa < 1:379112/53‑1 (MQ=255)
aaCGGTTATTATAATCACCCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGAcc > 1:3425928/1‑54 (MQ=255)
aaCGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAg > 1:2716026/1‑71 (MQ=255)
aCGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgg < 1:2411881/71‑1 (MQ=255)
cGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAggg < 1:2514551/71‑1 (MQ=255)
ggTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAgggg < 1:3933622/71‑1 (MQ=255)
gTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAggggg < 1:290015/71‑1 (MQ=255)
ttattaTAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggggg < 1:2677782/71‑1 (MQ=255)
ttattaTAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggggg < 1:507280/71‑1 (MQ=255)
ttattaTAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAgggggg < 1:2974543/71‑1 (MQ=255)
ttatAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCa > 1:2494361/1‑62 (MQ=255)
taATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCtt > 1:2384180/1‑71 (MQ=255)
aTCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCtttt < 1:2031373/71‑1 (MQ=255)
aTCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCtttt < 1:2387766/71‑1 (MQ=255)
aTCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCttt < 1:278093/70‑1 (MQ=255)
aTCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCttt < 1:3736833/70‑1 (MQ=255)
tCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggg > 1:3471399/1‑60 (MQ=255)
tCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggg > 1:1880953/1‑60 (MQ=255)
cTGGCTGTGAGTAGCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTc < 1:3131148/71‑1 (MQ=255)
cTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCgg < 1:494759/45‑1 (MQ=255)
tgtgAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCtt < 1:3138295/58‑1 (MQ=255)
tgAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCt < 1:2850738/69‑1 (MQ=255)
gTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAAccc < 1:2096936/71‑1 (MQ=255)
tAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAggg < 1:3166798/43‑1 (MQ=255)
gCTATAGTTGCCAGGCCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAACCctc < 1:3553722/70‑1 (MQ=255)
cTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggg < 1:1583862/41‑1 (MQ=255)
cTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAgggg < 1:3863555/41‑1 (MQ=255)
tataGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAggggggg < 1:2637437/43‑1 (MQ=255)
ttGCCAGGCCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAAc > 1:1449955/1‑59 (MQ=255)
ccAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAACCCTCTCCCCAGAgg < 1:3093127/70‑1 (MQ=255)
ccAGGCCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAACCCTCTCCCCAGAgg < 1:3353720/70‑1 (MQ=255)
|
TAGTAAACAGTACGAACAGATAAACGGTTATTATAATCAACCTGGCTGTGAGTAGCTATAGTTGCCAGGTCCGACCGGAGCAGGCTGCGGCAGGGGGGGCGCTTTTCCCCTCACCCTAACCCTCTCCCCAGAGG > minE/890052‑890185
|
| 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
