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 |
|
A27 F1 I1 R1
|
17 |
37.2 |
2333115 |
96.5% |
2251455 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,145,995 |
C→T |
I44I (ATC→ATT) |
rpoD → |
RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,995 | 0 | C | T | 100.0%
| 147.4
/ NA
| 38 | I44I (ATC→ATT) | rpoD | RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/19); total (19/19) |
CTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGATGC > REL606/3145923‑3146062
|
cTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCCGATCAGATCGAAGACattatc > 2:172618/1‑76 (MQ=255)
aTCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCa > 2:269258/1‑76 (MQ=255)
aTCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCa < 2:286796/76‑1 (MQ=255)
tCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCaa < 2:566090/76‑1 (MQ=255)
tGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAAt > 2:444849/1‑76 (MQ=255)
gACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATg > 1:474490/1‑76 (MQ=255)
ccTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGAt < 1:503542/76‑1 (MQ=255)
gAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACa > 2:131118/1‑76 (MQ=255)
aGGTCAATGTCCATCTGCCGGAANATATCNTCGATGCAGATCAGNTCAAAGACATTATCCACATGATCAACGACAt > 2:144582/1‑76 (MQ=255)
ggTCAATGACCATCTGCCGGAAGATATCGTGGATTCAGATCAGATCGAAGACATTATCCAAATGATCAATGACATg > 1:1065321/1‑76 (MQ=255)
cAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGc > 2:95714/1‑76 (MQ=255)
cAATGACCAACTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACCACATGGGc < 1:38088/76‑1 (MQ=255)
tGACCATCTGCCGGAAGATATCGTCGATTCAGNTCAGATCGAAGACATTATCCAAATGATCAACGACATGGGNAtc > 2:1093410/1‑75 (MQ=255)
gACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTc < 1:650264/76‑1 (MQ=255)
gccATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCAttaa < 2:15931/75‑3 (MQ=255)
aCCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCa < 2:182958/76‑1 (MQ=255)
ccGGAAGATATCGTCGATTCAGATCAGATCGAANACATTATCCAAATGATCAACGANATGGGCATACNGGTGATgg > 2:972464/1‑76 (MQ=255)
cGGAAGATATCGTCGATTCAGATCAGATCTAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGga < 2:545407/76‑1 (MQ=255)
gAAGATATCGTCGACTCAGATCAGGTCGCAGNCATTATCCTAATGANCAACGNCATGGGCATTCAGGTGATGgaag < 2:148502/76‑1 (MQ=255)
aaGATATCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaaga > 2:681602/1‑76 (MQ=255)
atatCGTCGATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGc < 1:592261/76‑1 (MQ=255)
tcgtcgATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCAcc > 1:855390/1‑76 (MQ=255)
tcgtcgATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCAcc > 2:638001/1‑76 (MQ=255)
tcgATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGa > 1:694184/1‑76 (MQ=255)
cgATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGAt < 2:872911/76‑1 (MQ=255)
gATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCggcgt > 2:803477/1‑73 (MQ=255)
gATTCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCggcgt > 2:803471/1‑73 (MQ=255)
ttCAGATCAGATCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGcc > 2:578225/1‑76 (MQ=255)
tcagatcagaTCGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCg > 1:196100/1‑76 (MQ=255)
gatcagatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCgatg > 2:136053/1‑76 (MQ=255)
gatcagatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCgatg < 2:900397/76‑1 (MQ=255)
gatcagatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCgatg < 1:360491/76‑1 (MQ=255)
gatcagatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATCCCgatg < 1:68047/76‑1 (MQ=255)
cagatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATc > 1:848336/1‑76 (MQ=255)
agatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCt < 1:165701/76‑1 (MQ=255)
gatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTg < 2:626298/76‑1 (MQ=255)
gatcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTg < 2:922843/76‑1 (MQ=255)
tcGAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGAt < 2:294290/76‑1 (MQ=255)
gAAGACATTATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGATgc < 2:462104/76‑1 (MQ=255)
|
CTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGATGC > REL606/3145923‑3146062
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
