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 |
|
A93 F1 I1 R1
|
15 |
55.4 |
3682408 |
94.4% |
3476193 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,484 |
T→A |
I1210N (ATC→AAC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,484 | 0 | T | A | 91.7%
| 122.1
/ 2.0
| 36 | I1210N (ATC→AAC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (2/1); new base A (21/12); total (23/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
TGTTCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGATCCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTTACATGTACATGCTGAA > REL606/4164412‑4164556
|
tgtTCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCg < 2:1438871/76‑1 (MQ=255)
gtTCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGCCAGAACCGc > 1:407281/1‑76 (MQ=255)
ttCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGcc > 2:1659380/1‑76 (MQ=255)
tCGACGGTGCTAAATAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGGCCTGCCGACTTCCGGTCAGAACCGCCt < 2:1728278/76‑1 (MQ=255)
tCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCt > 1:1344218/1‑76 (MQ=255)
gAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGATCCGCCTGTACGATGGt > 2:1095779/1‑76 (MQ=255)
gAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGt > 2:1120596/1‑76 (MQ=255)
aagaagCAGAAATTAAAGAGCTGCTGAAACTTGGCGCCCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCg < 1:473967/76‑1 (MQ=255)
aaaTAAAAGAGCTGCTGAAACTTGGCGCCCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGa < 1:898913/76‑1 (MQ=255)
aTTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAAc < 1:1356417/76‑1 (MQ=255)
ttAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACa > 2:166743/1‑76 (MQ=255)
ttAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACa > 2:1532868/1‑76 (MQ=255)
ttAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACa > 2:238375/1‑76 (MQ=255)
ttAAAGAGCTGCTAAAACTTGGCGCCCTGCCGCCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACa < 1:94921/76‑1 (MQ=255)
tAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAg < 2:996103/76‑1 (MQ=255)
aaaGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGt > 2:440454/1‑76 (MQ=255)
gagCTGCTGAAACTTGGCGACCTGCCGCCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGATCAGTTCg < 1:1183086/76‑1 (MQ=255)
ctgctgAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGc > 1:634011/1‑76 (MQ=255)
ctgctgAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGc > 1:1342410/1‑76 (MQ=255)
gAAACTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCg > 1:1536368/1‑76 (MQ=255)
ctaggCGCCCTGCCGCCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTaa < 2:1078771/73‑1 (MQ=255)
cTTGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTaa > 1:162917/1‑76 (MQ=255)
ttGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAAc > 1:1765834/1‑76 (MQ=255)
tgggCGCCCGGCCGCCTCCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAAc < 2:1098648/74‑1 (MQ=255)
tGGCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAAcc > 2:1648776/1‑76 (MQ=255)
ggCGACCTGCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCg > 2:1570703/1‑76 (MQ=255)
cGACCTGCCGACTTCCGGTCAGATCCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGtt > 2:1536896/1‑76 (MQ=255)
cccTGCCGACTTCCGGTAAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTgg < 2:1156427/75‑1 (MQ=255)
aCCTGCCGACTTCCGGTCAGAACCGCCCGCACGATGGCCGCACTGGTGAACAGATCGAGCGCCCGCTACCCATTgg > 2:1178586/1‑76 (MQ=255)
tGCCGCCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTta < 1:1648776/76‑1 (MQ=255)
gCCGACTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtac > 1:1721957/1‑76 (MQ=255)
ccTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgt < 2:396314/75‑1 (MQ=255)
aCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgt > 2:1447831/1‑76 (MQ=255)
aCTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgt > 2:1316165/1‑76 (MQ=255)
cTTCCGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgta < 1:1289592/76‑1 (MQ=255)
tCCGGTCAGATCCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgtaca < 2:1695446/76‑1 (MQ=255)
ccGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgtacat > 1:887021/1‑76 (MQ=255)
ccGGTAAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgtacat < 2:1594728/76‑1 (MQ=255)
cGGTCAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTtacatgtacatg < 2:1342410/76‑1 (MQ=255)
ggccAGAACCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTTACATGTACATGc < 1:547054/73‑1 (MQ=255)
aGAACCGCCTGTACGATGGTCGCACTGGTGAACAGATCGAGCGTCCGGTAACCGTTGGTTACATGTACATGCTGaa > 2:1643956/1‑76 (MQ=255)
aGAACCGCCTGCATGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTTACATGTACATGCTGaa > 2:1676338/1‑76 (MQ=255)
|
TGTTCGACGGTGCGAAAGAAGCAGAAATTAAAGAGCTGCTGAAACTTGGCGACCTGCCGACTTCCGGTCAGATCCGCCTGTACGATGGTCGCACTGGTGAACAGTTCGAGCGTCCGGTAACCGTTGGTTACATGTACATGCTGAA > REL606/4164412‑4164556
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
