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 F3 I0 R1
|
41 |
86.6 |
4450826 |
94.1% |
4188227 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,636 |
A→G |
33.3% |
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 | 33.3%
| 67.5
/ 60.0
| 63 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (16/26); new base G (9/12); total (25/38) |
| Fisher's exact test for biased strand distribution p-value = 7.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT > minE/1763568‑1763705
|
ccTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg > 1:486569/1‑70 (MQ=255)
ttGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGt > 1:888668/1‑70 (MQ=255)
ttGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt < 1:2172284/70‑1 (MQ=255)
tGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTcc > 1:2995231/1‑71 (MQ=255)
gTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTcccc < 1:3166292/71‑1 (MQ=39)
gTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc < 1:1439905/70‑1 (MQ=40)
tGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGCAGGTcccc > 1:2893700/1‑70 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAggg < 1:4375749/62‑1 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct > 1:3317491/1‑71 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctct < 1:204932/71‑1 (MQ=39)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctct < 1:1687396/71‑1 (MQ=39)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCtt > 1:1704582/1‑71 (MQ=39)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCtt > 1:1833526/1‑71 (MQ=39)
cGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct < 1:3833578/69‑1 (MQ=255)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg > 1:2653239/1‑71 (MQ=255)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg > 1:3793794/1‑71 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGt < 1:404452/70‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:3260439/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:2465692/71‑1 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:2462185/71‑1 (MQ=255)
ccaccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg < 1:1417955/65‑1 (MQ=255)
ccaccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg < 1:3203305/65‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGc < 1:4433541/71‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGc < 1:2366469/71‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGc < 1:2078098/71‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc > 1:955714/1‑71 (MQ=39)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGc > 1:1789811/1‑70 (MQ=255)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCg < 1:2629574/71‑1 (MQ=255)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:294654/63‑1 (MQ=255)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGa < 1:759909/71‑1 (MQ=39)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:1507244/1‑46 (MQ=40)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:608494/1‑46 (MQ=40)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTccc > 1:2079030/1‑52 (MQ=255)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTc > 1:2091702/1‑63 (MQ=255)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCGAcg > 1:714151/1‑70 (MQ=19)
aacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:3169670/1‑71 (MQ=38)
acaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc > 1:3708501/1‑66 (MQ=35)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAtt < 1:697708/71‑1 (MQ=38)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:1111246/1‑70 (MQ=37)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:2555813/1‑70 (MQ=37)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg < 1:965747/71‑1 (MQ=34)
aaTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:1539488/64‑1 (MQ=33)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa < 1:92241/62‑1 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa < 1:4181423/62‑1 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa < 1:3561474/62‑1 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg > 1:230841/1‑70 (MQ=35)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCt < 1:433879/68‑1 (MQ=35)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa < 1:2530549/69‑1 (MQ=35)
gCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa < 1:1673583/68‑1 (MQ=35)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc < 1:426447/68‑1 (MQ=35)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAtt > 1:550273/1‑59 (MQ=35)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGt > 1:3356151/1‑68 (MQ=35)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGt > 1:3784267/1‑68 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTcc < 1:1054084/71‑1 (MQ=34)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTcc < 1:1522682/71‑1 (MQ=34)
cGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc > 1:1399811/1‑68 (MQ=35)
cGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCag < 1:3906233/71‑1 (MQ=34)
aTGGCAAGAGGCCCGAAGGTCGCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCt < 1:2129847/58‑1 (MQ=255)
aTGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagt < 1:1139916/70‑1 (MQ=35)
tGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc < 1:632307/65‑1 (MQ=35)
gCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagtagt < 1:1221281/70‑1 (MQ=35)
gaaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTa < 1:3647705/40‑1 (MQ=38)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa < 1:4433326/36‑1 (MQ=33)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATc > 1:3113265/1‑71 (MQ=34)
agGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccc > 1:2596124/1‑71 (MQ=34)
cGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTcc < 1:196109/71‑1 (MQ=34)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc > 1:3309282/1‑51 (MQ=35)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc > 1:2589470/1‑51 (MQ=35)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAt < 1:887235/71‑1 (MQ=34)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAt > 1:1456962/1‑71 (MQ=34)
|
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT > minE/1763568‑1763705
|
| 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
