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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
505,179 |
C→T |
34.6% |
L348L (CTG→TTG) |
ushA → |
bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 505,179 | 0 | C | T | 34.6%
| 59.7
/ 47.4
| 52 | L348L (CTG→TTG) | ushA | bifunctional UDP‑sugar hydrolase and 5'‑nucleotidase |
| Reads supporting (aligned to +/- strand): ref base C (22/12); new base T (12/6); total (34/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCAATGGT > W3110S.gb/505111‑505244
|
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc < 1:1543444/69‑1 (MQ=255)
gggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:3040989/1‑69 (MQ=255)
ggAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCt > 1:1301540/1‑69 (MQ=255)
aGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt < 1:1925370/69‑1 (MQ=255)
aGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt < 1:1822575/69‑1 (MQ=255)
gACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGc > 1:496256/1‑64 (MQ=255)
gAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCAcc > 1:2829540/1‑69 (MQ=255)
gagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt > 1:784765/1‑56 (MQ=255)
gagcgCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt < 1:162327/56‑1 (MQ=255)
ttACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATGAc < 1:305918/50‑1 (MQ=255)
tACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCAc < 1:2814126/49‑1 (MQ=255)
cacTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAg > 1:200506/1‑68 (MQ=255)
cacTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAg > 1:3408348/1‑68 (MQ=255)
cacTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAg > 1:2121672/1‑68 (MQ=255)
cTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAgcgc > 1:1584443/1‑69 (MQ=255)
cTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAgcgc > 1:1202953/1‑69 (MQ=255)
cTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAgcgc > 1:2528656/1‑69 (MQ=255)
tCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCaa < 1:1832932/63‑1 (MQ=255)
tCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCa > 1:61088/1‑69 (MQ=255)
tCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCa > 1:125444/1‑69 (MQ=255)
ccTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGtt < 1:3257120/38‑1 (MQ=255)
ccTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACTGTTCCAGAACAAAGGCAAAGCGCAg > 1:1421642/1‑69 (MQ=255)
ccTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAg > 1:832666/1‑69 (MQ=255)
cTGAAATCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGc > 1:3087641/1‑69 (MQ=255)
aaaTCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAg < 1:1459016/65‑1 (MQ=255)
aaaTCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCt > 1:2840140/1‑67 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACa < 1:2349735/49‑1 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACa > 1:570732/1‑49 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACa > 1:1982671/1‑49 (MQ=255)
aTCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCa > 1:1561716/1‑55 (MQ=255)
tCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTgg > 1:2324579/1‑66 (MQ=255)
cGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGt < 1:1217615/69‑1 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGaa > 1:3334260/1‑44 (MQ=255)
gCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACaa > 1:2413751/1‑47 (MQ=255)
tGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:1684807/69‑1 (MQ=255)
tGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:3368135/69‑1 (MQ=255)
tGAAAACCAGCAAATGATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:2060133/69‑1 (MQ=255)
tGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:3665319/69‑1 (MQ=255)
tGAAAACCAGCAAATGATCTCGCTGTTATCACCATTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGaa < 1:2631602/69‑1 (MQ=255)
ccAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAg > 1:1519447/1‑68 (MQ=255)
tGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCa < 1:1646748/69‑1 (MQ=255)
tGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCa > 1:32182/1‑69 (MQ=255)
tGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCa > 1:2537520/1‑69 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTgg < 1:1574790/47‑1 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTgg < 1:1280128/47‑1 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:2098780/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:525285/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:3478155/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:2719850/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:2057623/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:249619/1‑58 (MQ=255)
gATCTCGTTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATa > 1:20607/1‑58 (MQ=255)
aTCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCaa > 1:370280/1‑68 (MQ=255)
tcGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCAATGgt > 1:551748/1‑69 (MQ=255)
tcGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCAATGgt > 1:1192822/1‑69 (MQ=255)
|
GGGAAGACGGGAAAAGCGAGCGCGTGCTTTACACTCCTGAAATCGCTGAAAACCAGCAAATGATCTCGCTGTTATCACCGTTCCAGAACAAAGGCAAAGCGCAGCTGGAAGTGAAAATAGGCGAAACCAATGGT > W3110S.gb/505111‑505244
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
