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 |
|
A52 F1 I1 R1
|
19 |
66.0 |
4263516 |
97.2% |
4144137 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,718,725 |
A→G |
F161L (TTT→CTT) |
ygaD ← |
competence damage‑inducible protein A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,718,725 | 0 | A | G | 98.2%
| 228.0
/ ‑3.9
| 55 | F161L (TTT→CTT) | ygaD | competence damage‑inducible protein A |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (29/25); total (29/26) |
| Fisher's exact test for biased strand distribution p-value = 4.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01 |
ATACCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAATTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTGAAG > REL606/2718652‑2718795
|
aTACCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGtt < 1:1170549/76‑1 (MQ=255)
aCCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgt > 1:1400604/1‑76 (MQ=255)
aCCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgt > 2:1286017/1‑76 (MQ=255)
aCCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgt > 2:1286029/1‑76 (MQ=255)
ccGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAgttgtt < 1:1645188/76‑1 (MQ=255)
cGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgttg < 2:1431497/76‑1 (MQ=255)
cGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgttg > 2:428518/1‑76 (MQ=255)
cGGATAGTCAATATGCTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGttgttg > 1:221781/1‑76 (MQ=255)
ggATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGc < 2:1246909/76‑1 (MQ=255)
aTAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCca > 2:719556/1‑76 (MQ=255)
aTAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCca > 2:1465339/1‑76 (MQ=255)
aGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCcaca > 2:820455/1‑76 (MQ=255)
atatGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTc > 1:851102/1‑76 (MQ=255)
atGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTg > 2:723479/1‑76 (MQ=255)
tCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAAt < 2:1978419/76‑1 (MQ=255)
cTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATg < 2:300246/76‑1 (MQ=255)
tGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGc < 2:1980137/76‑1 (MQ=255)
gAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATAc < 1:1618717/76‑1 (MQ=255)
gAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATAc < 2:472119/76‑1 (MQ=255)
aGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGc > 1:1555173/1‑76 (MQ=255)
gCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCa > 1:1373772/1‑76 (MQ=255)
cAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAg < 1:431352/76‑1 (MQ=255)
cAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAg < 2:1290406/76‑1 (MQ=255)
ttATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAg < 1:566604/76‑1 (MQ=255)
tataCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGc > 1:649923/1‑76 (MQ=255)
ataCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGcc > 2:758372/1‑76 (MQ=255)
ataCTGTATGCTCATACAGTATCAAGTGCTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGcc > 1:1497594/1‑76 (MQ=255)
taCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGccc > 1:584538/1‑75 (MQ=255)
taCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCt < 1:1623566/76‑1 (MQ=255)
aCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTg > 2:1223339/1‑76 (MQ=255)
aCTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTg < 1:551028/76‑1 (MQ=255)
cTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTga < 1:649879/76‑1 (MQ=255)
cTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTga > 2:1523042/1‑76 (MQ=255)
cTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTga < 2:1207309/76‑1 (MQ=255)
tGTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgac < 1:483368/76‑1 (MQ=255)
gTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacg > 1:432416/1‑76 (MQ=255)
gTATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacg > 2:362854/1‑76 (MQ=255)
tATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacga < 1:837502/76‑1 (MQ=255)
tATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacga > 2:1704353/1‑76 (MQ=255)
tATGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacga > 2:2006604/1‑76 (MQ=255)
aTGCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTgacgac > 1:2095683/1‑76 (MQ=255)
gCTCATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGc > 2:952602/1‑76 (MQ=255)
cATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCAcc > 2:686244/1‑76 (MQ=255)
cATACAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCAcc > 2:1818476/1‑76 (MQ=255)
ncAGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCa > 1:1451203/2‑76 (MQ=255)
aGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATc < 2:2097087/76‑1 (MQ=255)
aGTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATc < 2:378007/76‑1 (MQ=255)
gTATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCa < 2:148227/76‑1 (MQ=255)
tATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCAc < 1:1542385/76‑1 (MQ=255)
tATCAAGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCAc < 2:1002687/76‑1 (MQ=255)
tATCAAGTGTTTTGTAGAAATTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCAc < 1:559091/76‑1 (MQ=255)
aGTGTTTTGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTcg < 2:1037088/76‑1 (MQ=255)
ttGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTg > 1:300980/1‑76 (MQ=255)
ttGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTg > 2:902498/1‑76 (MQ=255)
tGTAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTGa < 2:1660776/76‑1 (MQ=255)
tAGAAGTTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTGAAg < 1:514517/76‑1 (MQ=255)
|
ATACCGGATAGTCAATATGTTCTGTTGAAGCAATTATACTGTATGCTCATACAGTATCAAGTGTTTTGTAGAAATTGTTGCCACAAGGTCTGCAATGCATACGCAGTAGCCTGACGACGCACCGCATCACGGTCGCCGCTGAAG > REL606/2718652‑2718795
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
