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 |
|
A69 F1 I1 R1
|
20 |
59.3 |
3764421 |
95.9% |
3610079 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,845 |
T→G |
I1330M (ATT→ATG) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,845 | 0 | T | G | 98.0%
| 194.0
/ NA
| 50 | I1330M (ATT→ATG) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (1/0); major base G (27/21); minor base A (1/0); total (29/21) |
| 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 |
AAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGTTA > REL606/4164772‑4164917
|
aaaaCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGAtgcg < 2:808733/76‑1 (MQ=255)
aaCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGAtgcgtt < 2:722013/76‑1 (MQ=255)
cATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGAtgcgttcg < 1:1080000/76‑1 (MQ=255)
tCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCt < 1:646959/76‑1 (MQ=255)
tGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTggg > 1:1013351/1‑76 (MQ=255)
tGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTggg > 1:1013338/1‑76 (MQ=255)
ggACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGt > 1:1081403/1‑76 (MQ=255)
gACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTa > 2:373412/1‑76 (MQ=255)
ggCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTTGCTGGGTATCa > 1:114605/1‑76 (MQ=255)
ggCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCa > 2:934997/1‑76 (MQ=255)
cAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCacc > 1:651299/1‑74 (MQ=255)
aCCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACAt > 1:755399/1‑76 (MQ=255)
ccATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATc > 1:1200709/1‑76 (MQ=255)
cATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCg > 1:480661/1‑76 (MQ=255)
tCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGaa < 2:779070/76‑1 (MQ=255)
cAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAAc > 2:1546699/1‑76 (MQ=255)
aGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACt < 2:1262246/76‑1 (MQ=255)
gATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTg > 1:446661/1‑76 (MQ=255)
gATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTg > 2:441196/1‑76 (MQ=255)
tGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGa < 1:657162/76‑1 (MQ=255)
tGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGa < 2:1278437/76‑1 (MQ=255)
gAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATACGTTCGCTGGGTATCAACATCGAACTGGAAg > 2:577364/1‑76 (MQ=255)
gCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGAc < 2:1166592/76‑1 (MQ=255)
ccGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACg < 2:664645/76‑1 (MQ=255)
ggCATGCCAGAATCCTTCAACGTATTGTTGAGAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGt < 2:1287062/76‑1 (MQ=255)
gCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTa < 1:329822/76‑1 (MQ=255)
aTGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGCAAt > 2:102352/1‑76 (MQ=255)
aTGCCAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAt > 1:17454/1‑76 (MQ=255)
ccAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtct > 1:427128/1‑76 (MQ=255)
ccAGAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtct > 2:1788137/1‑76 (MQ=255)
gAATCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGc > 2:1268360/1‑76 (MQ=255)
aaTCCTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCGACAGCGAACGGGAAGAAGAGCACTTCgcgcg > 2:1217430/1‑75 (MQ=255)
ccTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCaa > 1:1282962/1‑76 (MQ=255)
cTTCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCaaa > 1:1599770/1‑76 (MQ=255)
ttCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAAc < 2:678458/76‑1 (MQ=255)
tCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACa > 2:1118019/1‑76 (MQ=255)
tCAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACa < 1:50195/76‑1 (MQ=255)
cAACGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAg > 1:1184478/1‑76 (MQ=255)
aaCGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAgg < 1:1107422/76‑1 (MQ=255)
aaCGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAgg < 1:162458/76‑1 (MQ=255)
aaCGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAgg < 1:162466/76‑1 (MQ=255)
aCGTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGt < 1:1218757/76‑1 (MQ=255)
gTATTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCa > 1:154597/1‑76 (MQ=255)
aTTGTTGAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCAct > 2:756553/1‑76 (MQ=255)
tgAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGt < 2:1364417/76‑1 (MQ=255)
tgAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGt < 1:1122569/76‑1 (MQ=255)
gAAAGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTc > 1:770782/1‑76 (MQ=255)
aaaGAGATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCg > 1:1121649/1‑76 (MQ=255)
gagagATGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCgg > 1:990257/2‑76 (MQ=255)
gagaTGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGt > 2:265871/1‑76 (MQ=255)
agaTGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGtt < 2:427412/76‑1 (MQ=255)
agaTGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGtt < 1:1788088/76‑1 (MQ=255)
gaTGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGTTa < 2:36798/76‑1 (MQ=255)
gaTGCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGTTa < 2:1558981/76‑1 (MQ=255)
|
AAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCAAACAGGTCACTGCTGTCGGGTTA > REL606/4164772‑4164917
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
