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 |
|
A76 F1 I1 R1
|
13 |
52.2 |
3332858 |
96.5% |
3216207 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,529 |
+CT |
coding (31/825 nt) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,526 | 1 | . | T | 89.3%
| 99.7
/ 5.8
| 28 | coding (34/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base T (0/25); total (1/27) |
| Fisher's exact test for biased strand distribution p-value = 1.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.25e-01 |
| * | REL606 | 4,202,526 | 2 | . | C | 89.3%
| 102.7
/ 6.6
| 28 | coding (34/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base C (0/25); total (1/27) |
| Fisher's exact test for biased strand distribution p-value = 1.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.30e-01 |
TCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTT‑‑TCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGA > REL606/4202456‑4202586
||
tCCAGTAATTTCAGGCCGCGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAGCGGCGGG‑‑TTT‑‑TCtct < 1:836885/76‑3 (MQ=255)
tCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTT‑‑TCtct < 2:8403/76‑3 (MQ=255)
ccAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTT‑‑TCtctg < 2:72382/76‑4 (MQ=255)
gTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTGCcg > 1:1457135/1‑76 (MQ=255)
tCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTc < 1:1547618/76‑1 (MQ=255)
tCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTc < 2:1164655/76‑1 (MQ=255)
ccACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCggg < 2:1337958/76‑1 (MQ=255)
cgcgTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAAt < 2:454434/76‑1 (MQ=255)
gcgTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATg < 2:1600675/76‑1 (MQ=255)
gTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑GTT‑‑TCTTCCGCGGTGCGCGGGGGTggggg > 1:309185/1‑74 (MQ=255)
ttAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTGCCGCGCTTCGCGGGGGTgggg > 1:735403/1‑75 (MQ=255)
tAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTTCCGCGGTTCGCGGGGATggggg > 2:680597/1‑74 (MQ=255)
tAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTg < 1:81267/76‑1 (MQ=255)
aaaGACTGACCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGc < 2:435899/76‑1 (MQ=255)
aaaGACTGAACCTGTCCAGTCGCTGGTTCGGTGGCGACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGc < 2:299359/76‑1 (MQ=255)
aaaGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTGCCGCGTTTCGCGGGGATgggggg > 2:1359977/1‑73 (MQ=255)
aaGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCg < 1:1609624/76‑1 (MQ=255)
aGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGa < 2:335662/76‑1 (MQ=255)
aCTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGAcc < 2:9388/76‑1 (MQ=255)
tGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTT‑‑TCTGCCGCGGTTCGCGGGGATGGGGGGGGCCAt > 2:1644937/1‑76 (MQ=255)
gAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATg < 2:111435/76‑1 (MQ=255)
aaCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCTGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGa < 2:243988/76‑1 (MQ=255)
aaCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGa < 2:1155798/76‑1 (MQ=255)
aCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGAc < 2:1299892/76‑1 (MQ=255)
tGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTGCCGCGTTTCGCGGGGATGGGGGGGGCCATGACAgg > 2:600957/1‑75 (MQ=255)
gTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCtt < 2:1253227/76‑1 (MQ=255)
gTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCtt < 1:1457127/76‑1 (MQ=255)
cGCTGGTGCGGTGGCAACGGCGGGGTTTT‑‑TCTGCCGCGGTTCGCGGGGGTGGGGGGGAGCATGAGCGTCTTCtttt > 2:862721/1‑76 (MQ=255)
tGGTGCGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCt < 2:1634338/76‑1 (MQ=255)
cGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATc < 1:1446263/76‑1 (MQ=255)
cGGTGGCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATc < 1:1594726/76‑1 (MQ=255)
ggCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTgg < 2:334154/76‑1 (MQ=255)
ggCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTgg < 2:1150611/76‑1 (MQ=255)
ggCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTgg < 1:284341/76‑1 (MQ=255)
gCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGa < 2:1125821/76‑1 (MQ=255)
gCAACGGCGGG‑‑TTTTCTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGa < 1:696868/76‑1 (MQ=255)
||
TCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGG‑‑TTT‑‑TCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGA > REL606/4202456‑4202586
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
