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 |
|
A13 F1 I2 R1
|
762 |
35.5 |
1545288 |
95.5% |
1475750 |
117.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,662,226 |
A→T |
intergenic (‑95/+357) |
iscR ← / ← trmJ |
isc operon transcriptional repressor, suf operon transcriptional activator, oxidative stress‑ and iron starvation‑inducible, autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,662,226 | 0 | A | T | 98.0%
| 157.1
/ NA
| 50 | intergenic (‑95/+357) | iscR/trmJ | isc operon transcriptional repressor, suf operon transcriptional activator, oxidative stress‑ and iron starvation‑inducible, autorepressor/tRNA mC32,mU32 2'‑O‑methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base T (26/23); total (27/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCATAGCGCCCTTTAGATGTCAGTCTCATGTCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTAAATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTG > NC_000913/2662103‑2662356
|
gCATAGCGCCCTTTAGATGTCAGTCTCATGTCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTAttt > 1:269438/1‑139 (MQ=255)
ccTTTAGATGTCAGTCTCATGTCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTg > 2:220729/1‑139 (MQ=255)
cAGTCTCATGTCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCggg > 1:276821/1‑139 (MQ=255)
gTCTTCCTTCACCTCAAACTCGCCCCTGCCCGGGGTTTCATATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGTCCTTCCCGAGTATATTGGTCAACTATTTACTTTACTGATTGCGTCGGGCATTTAAcc > 2:638802/1‑139 (MQ=255)
tACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCa > 1:708153/1‑139 (MQ=255)
ccTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCAt > 1:442558/1‑139 (MQ=255)
cTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCAtt > 1:724185/1‑139 (MQ=255)
aCTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACt > 2:274779/1‑89 (MQ=255)
aCTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACt < 1:274779/89‑1 (MQ=255)
cGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGc > 2:667571/1‑127 (MQ=255)
cGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGc < 1:667571/127‑1 (MQ=255)
ccccTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCgg < 2:559324/107‑1 (MQ=255)
ccccTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCgg > 1:559324/1‑107 (MQ=255)
ccccTGCCCGGGGTCTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGt > 1:241669/1‑139 (MQ=255)
gCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGt > 1:228868/1‑139 (MQ=255)
ggTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTAc < 2:276821/139‑1 (MQ=255)
ggTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTAc < 1:220729/139‑1 (MQ=255)
tttATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTc < 2:620577/64‑1 (MQ=255)
tttATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTc > 1:620577/1‑64 (MQ=255)
tttATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCtgtt > 1:521461/1‑139 (MQ=255)
tAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGAt > 1:311652/1‑139 (MQ=255)
aaaGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGAAAATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGTTgc > 1:22614/1‑139 (MQ=255)
ggTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGaa > 1:17048/1‑139 (MQ=255)
tGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTg > 1:101347/1‑55 (MQ=255)
tGCATAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTg < 2:101347/55‑1 (MQ=255)
aTAGCAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGCATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCatat < 2:442558/139‑1 (MQ=255)
cAGGGTCAAGTCTGACATTCCCGAGTATATTGGTc > 1:692154/1‑35 (MQ=255)
cAGGGTCAAGTCTGACATTCCCGAGTATATTGGTc < 2:692154/35‑1 (MQ=255)
cAGGGTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGc > 1:676804/1‑139 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCg > 1:676826/1‑58 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCg < 2:676826/58‑1 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTAt > 1:629204/1‑88 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTAt < 2:629204/88‑1 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGt < 2:415428/91‑1 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGt > 1:415428/1‑91 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGCCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTg < 1:712768/99‑1 (MQ=255)
ggTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGCCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTg > 2:712768/1‑99 (MQ=255)
gTCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTg < 2:269438/139‑1 (MQ=255)
tCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCa > 2:45793/1‑71 (MQ=255)
tCAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCa < 1:45793/71‑1 (MQ=255)
cAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTggg < 2:521461/139‑1 (MQ=255)
cAAGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTggg < 2:676804/139‑1 (MQ=255)
aGTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGt > 2:95524/1‑139 (MQ=255)
gTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGtt < 2:241669/139‑1 (MQ=255)
gTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGtt < 1:739008/139‑1 (MQ=255)
gTCTGACATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGtt < 2:724185/139‑1 (MQ=255)
aCATTCCCGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTa < 2:228868/139‑1 (MQ=255)
cccGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCgg < 2:248485/43‑1 (MQ=255)
cccGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCgg > 1:248485/1‑43 (MQ=255)
cccGAGTATATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTg < 2:708153/139‑1 (MQ=255)
|
GCATAGCGCCCTTTAGATGTCAGTCTCATGTCTTACTTCACCTCAAACTCGCCCCTGCCCGGGGTTTTTTATTGTAAAAGTGGGGGTATTGCATAGCAGGGTCAAGTCTGACATTCCCGAGTAAATTGGTCAACTATTTACTTGACTGATTTAGTCGGGTATTTAACCTTCAGTGCCATTTTTTTATCGTGGCGTTTGTACCTGTTGTCGGATGCGGCGTGAACGCCATATCCGCCCTGGGGTTCTGTACACTG > NC_000913/2662103‑2662356
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
