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 |
|
A56 F1 I1 R1
|
16 |
62.6 |
4005459 |
97.2% |
3893306 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,570,953 |
G→T |
D52Y (GAT→TAT) |
uspA → |
universal stress global response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,570,953 | 0 | G | T | 97.5%
| 299.0
/ 1.5
| 79 | D52Y (GAT→TAT) | uspA | universal stress global response regulator |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base T (38/39); total (39/40) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
TCGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCACTA > REL606/3570880‑3571025
|
tCGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCttatttat > 2:1252751/1‑76 (MQ=255)
cGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTAtg < 1:639638/76‑1 (MQ=255)
cGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTAtg > 2:722091/1‑76 (MQ=255)
cccTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGa > 2:1001666/1‑76 (MQ=255)
cTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAAt > 2:1576322/1‑76 (MQ=255)
tACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATc < 1:433434/76‑1 (MQ=255)
aCAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCt < 1:1710983/76‑1 (MQ=255)
cAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTg < 2:1856629/76‑1 (MQ=255)
cAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTg > 2:1018159/1‑76 (MQ=255)
aaTGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTgg > 1:257262/1‑76 (MQ=255)
tGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGt < 2:1159226/76‑1 (MQ=255)
aaaGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGata < 1:1924353/76‑1 (MQ=255)
aaGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCATATTTATGTGAATCTGGGTGatat > 1:1873918/1‑76 (MQ=255)
tgttCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGc < 1:1773648/74‑1 (MQ=255)
tttCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCa < 2:1296166/76‑1 (MQ=255)
tttCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATATGAATCTGGGTGATATGCa < 2:1120205/76‑1 (MQ=255)
ttCTCTTATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAg < 1:1245280/76‑1 (MQ=255)
ttCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAg < 1:1833748/76‑1 (MQ=255)
tctGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGaaa < 1:74920/76‑1 (MQ=255)
ctGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAAc > 1:1126797/1‑76 (MQ=255)
gATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGc > 1:826168/1‑76 (MQ=255)
aTCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCa > 1:36507/1‑76 (MQ=255)
aTCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCa > 1:1352147/1‑76 (MQ=255)
aTCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCa > 1:1409899/1‑76 (MQ=255)
tCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCAt > 1:1084180/1‑76 (MQ=255)
ccACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCAtc < 2:475211/76‑1 (MQ=255)
cACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCAtct > 2:1807198/1‑76 (MQ=255)
cACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCAtct > 2:435257/1‑76 (MQ=255)
cGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCa < 1:1812654/76‑1 (MQ=255)
gTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCag < 2:1924019/76‑1 (MQ=255)
gTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCag > 1:675205/1‑76 (MQ=255)
tAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCaga < 1:259759/76‑1 (MQ=255)
tAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCaga > 1:113593/1‑76 (MQ=255)
tAGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCaga > 1:1575862/1‑76 (MQ=255)
aGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCagaa > 1:678280/1‑76 (MQ=255)
aGATGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCagaa > 1:88754/1‑76 (MQ=255)
tGTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAagag < 1:123014/76‑1 (MQ=255)
gTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAgaga < 1:1001667/76‑1 (MQ=255)
gTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAgaga > 1:1123529/1‑76 (MQ=255)
gTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAgaga < 1:544953/76‑1 (MQ=255)
gTAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAgaga > 1:657082/1‑76 (MQ=255)
tAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGac > 1:1226225/1‑76 (MQ=255)
tAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGac > 1:513408/1‑76 (MQ=255)
tAAACTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGac > 2:1730906/1‑76 (MQ=255)
aaaCTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGaca > 2:234239/1‑76 (MQ=255)
aaaCTACTCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGaca > 1:1526836/1‑76 (MQ=255)
aaCTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGacac < 2:840183/76‑1 (MQ=255)
actCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACAcatca < 1:1121960/76‑1 (MQ=255)
actCTGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACAcatca > 1:1492101/1‑76 (MQ=255)
ctctGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACAcatcat > 2:568321/1‑76 (MQ=255)
ctctGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACAcatcat < 2:973215/76‑1 (MQ=255)
ctctGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACAcatcat < 1:143362/76‑1 (MQ=255)
ctGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATgc < 2:1315592/76‑1 (MQ=255)
tGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATgcg < 1:795128/76‑1 (MQ=255)
tGACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATgcg < 2:1462303/76‑1 (MQ=255)
gACCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATgcgc > 1:1753194/1‑76 (MQ=255)
aCCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCt > 1:18148/1‑76 (MQ=255)
aCCTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCt < 2:1443509/76‑1 (MQ=255)
aCCTATACACCGGGCTTATTTATGTGAATCTGAGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCt < 2:1443515/76‑1 (MQ=255)
aCCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCt > 2:551490/1‑76 (MQ=255)
cTATACACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGa < 1:1883399/76‑1 (MQ=255)
ataCACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGAcc < 1:1618922/76‑1 (MQ=255)
taCACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCg > 1:34559/1‑76 (MQ=255)
taCACCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCg < 1:188333/76‑1 (MQ=255)
acacCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGa < 2:1918694/76‑1 (MQ=255)
acacCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGa > 2:1821468/1‑76 (MQ=255)
acacCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGa > 2:1319480/1‑76 (MQ=255)
cacCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAg < 1:1573549/76‑1 (MQ=255)
acCGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGc > 1:176004/1‑76 (MQ=255)
ccGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCt > 1:1325143/1‑76 (MQ=255)
ccGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCt < 1:104582/76‑1 (MQ=255)
cGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCtt > 1:600095/1‑76 (MQ=255)
cGGGCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCtt < 1:907514/76‑1 (MQ=255)
gggCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCttt < 1:1756109/76‑1 (MQ=255)
ggCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTc > 1:1555611/1‑76 (MQ=255)
gCTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTcc < 1:372900/76‑1 (MQ=255)
cTTATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCa > 1:1862122/1‑76 (MQ=255)
ttatttatGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCAc > 1:1268856/1‑76 (MQ=255)
ttatttatGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCAc > 2:957226/1‑76 (MQ=255)
tATTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCACt < 2:1422653/76‑1 (MQ=255)
aTTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCACTa < 1:1950107/76‑1 (MQ=255)
aTTTATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACAGCATGCGCTGACCGAGCTTTCCACtg < 1:547747/76‑2 (MQ=255)
|
TCGCCCCTACAATGCGAAAGTTTCTCTGATCCACGTAGATGTAAACTACTCTGACCTATACACCGGGCTTATTGATGTGAATCTGGGTGATATGCAGAAACGCATCTCAGAAGAGACACATCATGCGCTGACCGAGCTTTCCACTA > REL606/3570880‑3571025
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
