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 |
|
A7 F1 I1 R1
|
20 |
54.5 |
3547384 |
95.1% |
3373562 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,264,050 |
(A)7→6 |
intergenic (‑101/‑147) |
greA ← / → dacB |
transcription elongation factor GreA/D‑alanyl‑D‑alanine carboxypeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,264,044 | 0 | A | . | 88.0%
| 86.0
/ 7.5
| 25 | intergenic (‑95/‑153) | greA/dacB | transcription elongation factor GreA/D‑alanyl‑D‑alanine carboxypeptidase |
| Reads supporting (aligned to +/- strand): ref base A (0/3); new base . (10/12); total (10/15) |
| Fisher's exact test for biased strand distribution p-value = 2.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
TGATGGGGCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCAAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACATTTTGATAGTCATTTTA > REL606/3263973‑3264108
|
tGATGGGGCAAGTCTTAACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTAACCGGGACCAGAAGCaaaaa > 1:1759608/1‑76 (MQ=255)
gATGGGGCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCaaaaaa > 1:782447/1‑76 (MQ=255)
gATGGGGCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCaaaaaa < 1:975699/76‑1 (MQ=255)
tGGGGCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCAAAAAAAt < 2:829607/76‑1 (MQ=255)
ggggCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGCCCAGAAGCaaaaaatac > 1:1397532/1‑73 (MQ=255)
ggCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCg > 1:316404/1‑76 (MQ=255)
aaGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGAcc > 2:447779/1‑76 (MQ=255)
tCTTCACCCCCCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCgg < 2:955496/76‑1 (MQ=255)
tcccccacccCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTa < 2:1092194/73‑1 (MQ=255)
cacccaccCCGGCTGTTCGGCCTGCCCGGCATACCTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTAc < 1:1030436/76‑1 (MQ=255)
ccacccCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGACGC‑AAAAAATACCGACCCGGGTACAAg > 2:1141442/1‑76 (MQ=255)
acccCGGCTGTTCGGCCCGCCCGGCATAACTCCTCACCGNGACCATACGC‑AAAAANTACCGATCCGGGTACAAGTc > 2:1747524/1‑76 (MQ=255)
cccGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTccc > 1:1574343/1‑76 (MQ=255)
cccGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTccc < 2:1530855/76‑1 (MQ=255)
ccGCCTGTTCGGCCTGCCCGGCATACCCCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCa < 2:640522/76‑1 (MQ=255)
cTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTc > 1:787839/1‑76 (MQ=255)
cTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTc < 1:854996/76‑1 (MQ=255)
gTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAg > 2:1207016/1‑76 (MQ=255)
gTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAg > 2:1352749/1‑76 (MQ=255)
tCGGCCTGCCCGGCATACCTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCt < 1:1293912/76‑1 (MQ=255)
cggccggcCCGGCATACCTCCTCCCCGGGACCAGAAGC‑AAGAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTa < 2:1097860/76‑1 (MQ=255)
cGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCAAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCt < 2:1462279/76‑1 (MQ=255)
gCCTGCCCNGCAGAACTCCTCACCGGGCCCAGATGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACa < 2:292460/76‑1 (MQ=255)
cTGCCCGGCATAACTCCTCACCGGGACCAGAAG‑AAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAAt < 1:1564157/76‑1 (MQ=255)
cGGCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTcaca > 2:1221452/1‑76 (MQ=255)
gCATAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACAtt < 2:441561/76‑1 (MQ=255)
aTAACTCCTCACCGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACAtttt > 1:499289/1‑76 (MQ=255)
cctcACCGGGACCAGAAGC‑AAAAGATACCAACCCGGTAACACGTCCCCGGGCAGTTACATCTCACCTTTTGATAGt > 2:12425/1‑76 (MQ=255)
cccccGGGACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACATTTTGATAGTCa < 1:1275197/73‑1 (MQ=255)
ccGGGCCCAGAAGCAAAAANTNCTCGACCNGTGTTCAAGTCCCGGGTCAGCNACNAGTCACATTTTGATAGTCAtt < 2:262010/76‑1 (MQ=255)
gggACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACATTTTGATAGTCATTTTa < 2:487563/76‑1 (MQ=255)
gggACCAGAAGC‑AAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACATTTTGATAGTCATTTTa < 2:1033290/76‑1 (MQ=255)
|
TGATGGGGCAAGTCTTCACCCACCCCGGCTGTTCGGCCTGCCCGGCATAACTCCTCACCGGGACCAGAAGCAAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCTACAATTCACATTTTGATAGTCATTTTA > REL606/3263973‑3264108
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
