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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,948,808 |
C→T |
61.7% |
V4I (GTA→ATA) |
gcvH ← |
glycine cleavage complex lipoylprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,948,808 | 0 | C | T | 61.7%
| 53.1
/ 72.4
| 107 | V4I (GTA→ATA) | gcvH | glycine cleavage complex lipoylprotein |
| Reads supporting (aligned to +/- strand): ref base C (28/13); new base T (19/47); total (47/60) |
| Fisher's exact test for biased strand distribution p-value = 1.13e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 107 total aligned reads displayed.
AGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAG > minE/1948746‑1948875
|
aGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCt > 1:3175132/1‑69 (MQ=255)
aGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCt > 1:2192582/1‑69 (MQ=255)
aGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCt < 1:1758226/69‑1 (MQ=255)
aGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCt > 1:151105/1‑69 (MQ=255)
cGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatc < 1:2745741/69‑1 (MQ=255)
cGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatc < 1:2594629/69‑1 (MQ=255)
ggCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatca < 1:1071761/69‑1 (MQ=255)
ggCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatca < 1:976947/69‑1 (MQ=255)
ggCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatca < 1:841425/69‑1 (MQ=255)
ggCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatca < 1:687065/69‑1 (MQ=255)
ggCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCatcaatca < 1:3409373/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:381974/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:214240/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:2148475/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:2430155/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:2553769/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:2891626/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:3067941/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1983214/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:3073641/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:3268583/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1815925/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:558496/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1118341/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:742512/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1655441/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1648490/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1622470/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1605514/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:756494/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1091913/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:919736/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1386506/69‑1 (MQ=255)
ggCTTCTTTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:1384481/69‑1 (MQ=255)
cttcttTACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatcaatca < 1:3017147/67‑1 (MQ=255)
tttACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAAtctc > 1:3108293/1‑68 (MQ=255)
tttACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAAtctc > 1:3013548/1‑68 (MQ=255)
tttACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAAtct > 1:2826558/1‑67 (MQ=255)
ttACGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCatctatca < 1:1205875/62‑1 (MQ=255)
cGCAACCATTTGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:144375/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:2153905/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:958451/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:155225/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:1798653/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:3411718/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:3310843/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:31910/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:3151026/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:3130573/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:1910756/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:3046825/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:2917462/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:2794173/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:2141288/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:242375/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:261134/68‑1 (MQ=255)
cGCAACCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTGCTCATCAATCAATCTCCaaa < 1:2140527/68‑1 (MQ=255)
tCGTGTTCTTTGCTTTATTTCAGTTCTGCTGGTATGTTg > 1:3054055/1‑39 (MQ=38)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2713695/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2155647/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:767521/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:1249185/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2239329/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:374120/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:360643/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:3313110/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:3311261/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:1868376/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:1198834/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2133992/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2110562/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:1234594/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:3045324/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:1923910/1‑39 (MQ=255)
tCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTATGTTg > 1:2726498/1‑39 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:670532/1‑69 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:2113913/1‑69 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:1143205/1‑69 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:3294797/1‑69 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:2489045/1‑69 (MQ=255)
cGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCa > 1:3221104/1‑69 (MQ=255)
tCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGa > 1:1273109/1‑69 (MQ=255)
tCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGa > 1:2452224/1‑69 (MQ=255)
tATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTaa < 1:1362056/51‑1 (MQ=255)
tATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTaa < 1:2081170/51‑1 (MQ=255)
tATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTaa < 1:807739/51‑1 (MQ=255)
aTTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTaa < 1:889257/50‑1 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCAcgc > 1:1356941/1‑40 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCAcgc > 1:1033460/1‑40 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCAcgc > 1:679648/1‑40 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCAcgc > 1:2690327/1‑40 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCAcgc > 1:3335177/1‑40 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:1700501/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:1677265/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:582153/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:2857157/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:404349/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:294384/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:203755/1‑69 (MQ=255)
aCGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAg > 1:3264515/1‑69 (MQ=255)
|
AGTGCCGTCGGCTTCTTTACGCAGCCATTCGTGTTCTTTGCTGTATTTCAGTTCTGCTGGTACGTTGCTCATCAATCAATCTCCAAAAAAGTAAATCACGCGACGGCTTTGCCGTTACGCACAAAAACAG > minE/1948746‑1948875
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
