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 |
|
A6 F17 I0 R2
|
159 |
90.8 |
4763082 |
92.7% |
4415377 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,636 |
A→G |
17.6% |
noncoding (208/1542 nt) |
rrsG ← |
16S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,763,636 | 0 | A | G | 17.6%
| 113.9
/ 19.7
| 51 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (29/13); new base G (4/5); total (33/18) |
| Fisher's exact test for biased strand distribution p-value = 2.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.11e-01 |
GCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCC > minE/1763567‑1763703
|
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:1053618/71‑1 (MQ=255)
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg > 1:4255611/1‑71 (MQ=255)
ttGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt < 1:596083/70‑1 (MQ=255)
tGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcc > 1:516459/1‑71 (MQ=255)
tGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcc > 1:4708828/1‑71 (MQ=255)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:630173/1‑71 (MQ=39)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:245894/1‑71 (MQ=39)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:4703849/1‑71 (MQ=39)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:2346465/1‑71 (MQ=39)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:2290360/1‑71 (MQ=39)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCct > 1:493510/1‑70 (MQ=40)
cGTTACCCCACCAACAAGCTAATCTCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCtt < 1:264689/70‑1 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg < 1:4394891/71‑1 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCttt > 1:2466649/1‑70 (MQ=40)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg > 1:1945801/1‑71 (MQ=39)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:3529859/71‑1 (MQ=255)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg > 1:3055949/1‑71 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:469849/1‑71 (MQ=39)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:4468803/1‑71 (MQ=39)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:3615093/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:1335174/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc < 1:1540704/70‑1 (MQ=40)
cccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCttt > 1:3792273/1‑65 (MQ=40)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGc > 1:2515560/1‑71 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc < 1:3596735/71‑1 (MQ=39)
ccaACAAGCTAATCCCATCTGGGCACATCAGATGGCAAGAGGCCCGAAGGTCCCCctct < 1:3667579/59‑1 (MQ=255)
acaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCtt < 1:2742813/64‑1 (MQ=35)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:4151963/1‑70 (MQ=37)
cTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTa > 1:4485221/1‑68 (MQ=35)
cTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTa > 1:2018780/1‑68 (MQ=35)
tAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc < 1:1928594/70‑1 (MQ=35)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc > 1:340388/1‑71 (MQ=34)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc < 1:3812205/71‑1 (MQ=34)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc > 1:3357235/1‑65 (MQ=35)
ccGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc > 1:1185001/1‑69 (MQ=35)
cGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCag < 1:378356/71‑1 (MQ=34)
cGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCag > 1:2535436/1‑71 (MQ=34)
tGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc > 1:2959417/1‑60 (MQ=35)
tGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc > 1:1655281/1‑60 (MQ=35)
tGGCAAGACGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagtag > 1:1863891/1‑71 (MQ=21)
gCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGtt < 1:1848356/71‑1 (MQ=34)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:4246139/1‑37 (MQ=33)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:2231027/1‑37 (MQ=33)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAg > 1:3972735/1‑50 (MQ=38)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa > 1:523583/1‑53 (MQ=35)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa > 1:1965757/1‑53 (MQ=35)
gagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcc > 1:3107810/1‑71 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:2492939/1‑71 (MQ=34)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc < 1:3757237/71‑1 (MQ=34)
cGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTcc < 1:1207742/71‑1 (MQ=34)
gAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:2818165/36‑1 (MQ=40)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa > 1:1324300/1‑37 (MQ=40)
|
GCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCC > minE/1763567‑1763703
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
