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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,864,336 |
G→A |
25.2% |
intergenic (+83/+65) |
ygcP → / ← ygcQ |
predicted anti‑terminator regulatory protein/predicted flavoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,864,336 | 0 | G | A | 25.2%
| 187.9
/ 64.7
| 111 | intergenic (+83/+65) | ygcP/ygcQ | predicted anti‑terminator regulatory protein/predicted flavoprotein |
| Reads supporting (aligned to +/- strand): ref base G (45/38); new base A (12/16); total (57/54) |
| Fisher's exact test for biased strand distribution p-value = 3.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
Only 100 of 116 total aligned reads displayed.
AACCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGT > minE/1864266‑1864401
|
tttagcgtgattttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTg < 1:4873076‑M2/18‑1 (MQ=255)
tttagcgtgattttgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTg > 1:209120‑M2/54‑71 (MQ=255)
aCCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGa > 1:2535854/1‑71 (MQ=255)
aCCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGa > 1:2220077/1‑71 (MQ=255)
ccAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAc < 1:3375874/71‑1 (MQ=255)
aTTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAcgcg > 1:4217753/1‑71 (MQ=255)
tgattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTc < 1:2919820‑M2/25‑1 (MQ=255)
tgattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTc > 1:1472609‑M2/47‑71 (MQ=255)
tgattttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTc < 1:2232205‑M2/25‑1 (MQ=255)
tGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTc > 1:5078491/1‑71 (MQ=255)
gattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTc > 1:4360767‑M2/46‑70 (MQ=255)
gattttgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCt > 1:455065‑M2/46‑71 (MQ=255)
gattttgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCt > 1:3931994‑M2/46‑71 (MQ=255)
gAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCt > 1:448279/1‑71 (MQ=255)
gAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCt > 1:1880729/1‑71 (MQ=255)
attttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCtt < 1:3698561‑M2/27‑1 (MQ=255)
attttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCtt < 1:1652032‑M2/27‑1 (MQ=255)
attttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCtt < 1:701828‑M2/27‑1 (MQ=255)
attttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCtt < 1:4347264‑M2/27‑1 (MQ=255)
attttgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCtt < 1:5355782‑M2/27‑1 (MQ=255)
ttttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCtt < 1:3316933‑M2/27‑1 (MQ=255)
ttttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTa < 1:673634‑M2/28‑1 (MQ=255)
ttttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTa < 1:5462559‑M2/28‑1 (MQ=255)
tttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTAt > 1:224601‑M2/43‑71 (MQ=255)
ttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTAt < 1:1293882‑M2/29‑1 (MQ=255)
ttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTAt < 1:4676571‑M2/29‑1 (MQ=255)
ttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTAt < 1:4663289‑M2/29‑1 (MQ=255)
tgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATc < 1:2192035‑M2/30‑1 (MQ=255)
tgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATc < 1:1148611‑M2/30‑1 (MQ=255)
tgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTAt > 1:3968541‑M2/41‑69 (MQ=255)
tgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTAt > 1:3133308‑M2/41‑69 (MQ=255)
tgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATc < 1:653082‑M2/30‑1 (MQ=255)
tgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTG‑C‑CGTCTTATCAg < 1:1112508‑M2/30‑1 (MQ=255)
tGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTg > 1:2004056/1‑58 (MQ=255)
gtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTa > 1:2505612‑M2/40‑67 (MQ=255)
gtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTa > 1:3689311‑M2/40‑67 (MQ=255)
gtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAg > 1:2185675‑M2/40‑71 (MQ=255)
gtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCa < 1:2792159‑M2/31‑1 (MQ=255)
taggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAg < 1:41480‑M2/32‑1 (MQ=255)
taggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAg < 1:2746008‑M2/32‑1 (MQ=255)
ttGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGcc > 1:2599483/1‑71 (MQ=255)
ggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:4881947‑M2/35‑1 (MQ=255)
ggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:3460856‑M2/35‑1 (MQ=255)
ggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:5406054‑M2/35‑1 (MQ=255)
ggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:4076012‑M2/35‑1 (MQ=255)
gATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGa > 1:1372786/1‑53 (MQ=255)
cggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTAc > 1:4184183‑M2/34‑71 (MQ=255)
cggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCt > 1:146894‑M2/34‑59 (MQ=255)
cggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCt > 1:2936739‑M2/34‑59 (MQ=255)
cggataaggcgtttacgccgcatccgacatcaaCGCCTGATGAGACGCTTGCCGCGTCTTATc > 1:146277‑M2/34‑63 (MQ=255)
tttGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTAc < 1:5283338/70‑1 (MQ=255)
gataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc < 1:3081113‑M2/40‑3 (MQ=255)
taaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc > 1:284181‑M2/30‑67 (MQ=255)
tAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGt < 1:3632107/70‑1 (MQ=255)
tAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGt < 1:324661/70‑1 (MQ=255)
aaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc > 1:257903‑M2/29‑66 (MQ=255)
aaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc > 1:2587739‑M2/29‑66 (MQ=255)
aaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc > 1:530452‑M2/29‑66 (MQ=255)
gcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCtat > 1:1068605‑M2/26‑62 (MQ=255)
gtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt < 1:1522535‑M2/36‑1 (MQ=255)
gtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt < 1:4449442‑M2/36‑1 (MQ=255)
gtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt < 1:2674530‑M2/36‑1 (MQ=255)
gtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt < 1:5605964‑M2/36‑1 (MQ=255)
tttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAAcgc < 1:3716734‑M2/22‑1 (MQ=255)
tttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAAcgc < 1:244242‑M2/22‑1 (MQ=255)
cACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGc > 1:4758146/1‑71 (MQ=255)
tacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATc > 1:3476384‑M2/21‑50 (MQ=255)
tacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt > 1:116615‑M2/21‑56 (MQ=255)
acgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCa > 1:4434130‑M2/20‑50 (MQ=255)
gCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAg < 1:4450612/71‑1 (MQ=255)
gccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTAt > 1:4430917‑M2/18‑46 (MQ=255)
gccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa > 1:142877‑M2/18‑54 (MQ=255)
cacaTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGaa > 1:1127775/1‑71 (MQ=255)
cacaTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGACCCCAGGCCAGaa > 1:711889/1‑71 (MQ=255)
cgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAg > 1:5136755‑M2/16‑47 (MQ=255)
aTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATc > 1:2745560/1‑43 (MQ=255)
tCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCg > 1:3269075/1‑70 (MQ=255)
tccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATc < 1:4456975‑M2/30‑1 (MQ=255)
aCATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAgg > 1:40769/1‑70 (MQ=255)
aCATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAgg > 1:5500973/1‑70 (MQ=255)
aCATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAgg > 1:3611824/1‑70 (MQ=255)
acatcaaCGCCTGATGCGACGCTTAACGCGTCTTAt < 1:1674856‑M2/29‑1 (MQ=255)
ttCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCa < 1:3633859/52‑1 (MQ=255)
ttCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAg < 1:1916679/70‑1 (MQ=255)
cAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGat > 1:4839842/1‑71 (MQ=255)
gcgcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCg < 1:4080946/59‑1 (MQ=255)
gcgcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTa > 1:3338958/1‑61 (MQ=255)
gcgcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatca < 1:3661102/71‑1 (MQ=255)
gATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGaa < 1:4016461/50‑1 (MQ=255)
gATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGc < 1:1991609/58‑1 (MQ=255)
aTGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcat > 1:631000/1‑65 (MQ=255)
aTGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGc < 1:3136347/70‑1 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGaa < 1:4197581/43‑1 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGt < 1:1470874/71‑1 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGt < 1:5314842/71‑1 (MQ=255)
gCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCgg > 1:2813409/1‑62 (MQ=255)
gCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCgg > 1:5004839/1‑62 (MQ=255)
ttGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACg > 1:3448423/1‑67 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAg < 1:5368641/49‑1 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAaca > 1:687577/1‑64 (MQ=255)
|
AACCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGT > minE/1864266‑1864401
|
| 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
