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 |
|
A65 F1 I1 R1
|
19 |
67.5 |
4307580 |
97.2% |
4186967 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,540,084 |
A→G |
I219T (ATT→ACT) |
yddV ← |
predicted diguanylate cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,540,084 | 0 | A | G | 96.8%
| 245.5
/ ‑2.0
| 62 | I219T (ATT→ACT) | yddV | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base A (0/2); new base G (34/26); total (34/28) |
| Fisher's exact test for biased strand distribution p-value = 2.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
ACTTTACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAATAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGTCGGC > REL606/1540012‑1540152
|
aCTTTACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCagta < 2:950381/75‑1 (MQ=255)
cTTTACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCagtaa > 1:2112458/1‑75 (MQ=255)
tttACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCagtaat > 1:1307311/1‑75 (MQ=255)
ttACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATc < 1:425905/75‑1 (MQ=255)
ttACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATc < 1:162301/75‑1 (MQ=255)
ttACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATc < 1:149733/75‑1 (MQ=255)
tACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCa < 2:269132/75‑1 (MQ=255)
tACGCAGAATTTCATCGCCAATGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCa > 2:845570/1‑75 (MQ=255)
cGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGc < 1:1820650/75‑1 (MQ=255)
tttCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAATAATCAGCACTGACa < 1:1564843/75‑1 (MQ=255)
ttCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAg > 2:589212/1‑75 (MQ=255)
tCATCGCCAGTGTTATGGCCCCGCGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCGCTGACAGc < 2:543061/75‑1 (MQ=255)
gCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGgtgt < 1:72271/75‑1 (MQ=255)
gCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGgtgt < 2:1316447/75‑1 (MQ=255)
gCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGgtgt < 1:1187669/75‑1 (MQ=255)
gCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGgtgt > 2:1531397/1‑75 (MQ=255)
ccAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTa > 1:2055348/1‑75 (MQ=255)
gtgtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccg > 2:595699/1‑75 (MQ=255)
tgtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccgg < 1:1868285/75‑1 (MQ=255)
tgtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccgg < 1:143316/75‑1 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggt > 1:518441/1‑75 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggt > 1:687694/1‑75 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggt > 1:84187/1‑75 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggt > 2:1944279/1‑75 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggt > 1:1457211/1‑75 (MQ=255)
gtTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccgga > 1:315252/1‑74 (MQ=255)
ttATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggtc < 1:1797252/75‑1 (MQ=255)
tATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTAccggtcc > 1:1892177/1‑75 (MQ=255)
ccccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTg < 2:1903409/75‑1 (MQ=255)
ccccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTg < 2:1840594/75‑1 (MQ=255)
ccccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTg > 1:1058930/1‑75 (MQ=255)
ccccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTg > 1:1622441/1‑75 (MQ=255)
cccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTGCCGGTCCGGTTgg < 2:577424/75‑1 (MQ=255)
cccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTgg < 2:577402/75‑1 (MQ=255)
ccACGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGc > 1:1828545/1‑75 (MQ=255)
cGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATg < 2:2028852/75‑1 (MQ=255)
cGTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATg > 1:493501/1‑75 (MQ=255)
gTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATgg > 2:191585/1‑75 (MQ=255)
gTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATgg < 1:1720154/75‑1 (MQ=255)
gTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCACCACTGACAGCGGTGTACCGGTCCGGTTGGCATgg > 2:1787013/1‑75 (MQ=255)
gTATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATAAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATgg > 1:112516/1‑75 (MQ=255)
tATCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATggg < 1:1359207/75‑1 (MQ=255)
aTCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGc < 1:1081622/75‑1 (MQ=255)
tCGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCa > 1:1465857/1‑75 (MQ=255)
cGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCaa < 2:1726117/75‑1 (MQ=255)
cGTTGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCaa < 2:1860010/75‑1 (MQ=255)
ttGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAAtt < 2:1300986/75‑1 (MQ=255)
ttGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAAtt > 1:244936/1‑75 (MQ=255)
tGATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAAttt > 2:1198204/1‑75 (MQ=255)
gATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTc > 1:802092/1‑75 (MQ=255)
gATCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTc < 1:371963/75‑1 (MQ=255)
aTCTCTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTcg > 1:1762771/1‑75 (MQ=255)
tctcTTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTcgc > 1:1359081/1‑75 (MQ=255)
ctTTGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGtt > 1:2046757/1‑75 (MQ=255)
ctTTGAATTTATCAACGTCAATAATCAGCACTGACAGCGGTGTACCGGTGCGGTTGGCATGGGCAATTTCGCGtt < 2:966829/75‑1 (MQ=255)
tttGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGttt > 2:2133256/1‑75 (MQ=255)
tttGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGttt > 1:438328/1‑75 (MQ=255)
tttGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGttt > 1:1507415/1‑75 (MQ=255)
tttaaTTTATCATCTTCAGTAATCATCACTTACAGCTGTGTACCTTTCCTTTTGGCATGGTCAATTTCGCGTTTg < 1:110469/72‑1 (MQ=255)
tGAATTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGa > 2:1339968/1‑75 (MQ=255)
aaTTTATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAg > 2:1376457/1‑75 (MQ=255)
tttATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGAt > 1:1401862/1‑75 (MQ=255)
tATCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAg < 1:1285769/75‑1 (MQ=255)
aTCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGt > 2:1872270/1‑75 (MQ=255)
aTCAACGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGt < 2:84187/75‑1 (MQ=255)
aaCGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGTCgg > 1:759548/1‑75 (MQ=255)
aCGTCAGTAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGTCGGc > 1:290067/1‑75 (MQ=255)
|
ACTTTACGCAGAATTTCATCGCCAGTGTTATGGCCCCACGTATCGTTGATCTCTTTGAATTTATCAACGTCAATAATCAGCACTGACAGCGGTGTACCGGTCCGGTTGGCATGGGCAATTTCGCGTTTGAAGATAGTCGGC > REL606/1540012‑1540152
|
| 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
