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 |
|
A27 F124 I1 R1
|
28 |
40.1 |
1601150 |
89.4% |
1431428 |
142.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,184,543 |
C→A |
P1100Q (CCG→CAG) |
rpoB → |
RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,184,543 | 0 | C | A | 96.9%
| 90.6
/ NA
| 32 | P1100Q (CCG→CAG) | rpoB | RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (18/13); minor base G (0/1); total (18/14) |
| Fisher's exact test for biased strand distribution p-value = 4.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTC > NC_000913/4184403‑4184676
|
tCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATCTGCCTTCCCATGAAAACGGTACGCCGGTAGACAACGTACTGAACCAGc > 2:165625/1‑143 (MQ=255)
ggCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGGGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCCgg > 2:388009/1‑143 (MQ=255)
gggtAAACGCCGTAGCCAGCCTGGGGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCg < 2:275968/140‑1 (MQ=255)
cgatgTATCCAGGCTGGTGAGAAGCGGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGCTAGACATCGTAATGAACCAGCTGGGCGTACCGtc < 2:741481/139‑1 (MQ=255)
cGCCGTATCCAGCCTGGCGACGAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTAAGCCGGGAGACAGCGTACTGAACCAGCTGGGGGTACGGtg > 2:786620/1‑142 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGAGTAATTTCTAAGATCAACCCGCTCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACCCAACCAGCTCTGCGTACCGTCTCGtg > 1:52670/1‑142 (MQ=255)
aTCCAGCCTGGTGACAAGATGGCAGGTCGTCACGTTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTAt < 1:288496/143‑1 (MQ=255)
tCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATg < 1:701250/143‑1 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTAGCGTCTCGTATgg > 1:779130/1‑142 (MQ=255)
gttGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGCACAACCCGATCGAAGATATTCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTAGGCACATCGGTCAGATcc > 1:436580/3‑143 (MQ=255)
gATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTACGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGACCATCGGTCAGATcc > 1:498706/1‑143 (MQ=255)
tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGCATGTTATTAACATCGGTCAGATCCTc < 2:699538/143‑1 (MQ=255)
aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGaaa > 2:203377/1‑143 (MQ=255)
ggTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTggg > 1:343316/1‑143 (MQ=255)
tgtAAGTTCTAAGATCAAGCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGa < 2:305184/143‑1 (MQ=255)
tCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTAt < 1:396212/143‑1 (MQ=255)
acgATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCgg < 2:322206/141‑1 (MQ=255)
aTCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCCCGGAACCCACCCGGGGAGGGCTGCGCACGGTATGGGCGa > 2:89709/1‑143 (MQ=255)
cccGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAGAGGTATCGGCGACAAGa > 1:446145/1‑143 (MQ=255)
cTTACGATGAAAACGGTCCGCCGATAAAAAACACACTGTTCCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAACCCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGaaa < 1:751755/143‑1 (MQ=255)
acgcggAAAGCGGTGCGCCGGGAGGCAGCGTGCTGAGCCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCGGAGCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcag < 2:798681/138‑1 (MQ=255)
cgacgaACACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGGATGAACATCGGTCAGATCCGCGAACCCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagc < 2:230087/143‑1 (MQ=255)
gATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGAAAAGATCAACGCCAGGCAGAAAcagca > 1:536445/1‑143 (MQ=255)
gAAAACGGTACGCCGGTAGACATCGGACTGAACCATCGGGGCGGACGGTCTCGTATGAACAGCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGGTCAACGCCATGCTGAAACAgcagca > 1:799817/1‑143 (MQ=255)
aaaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTATCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTCTGGCTGCGAACGGTCTCGGCGACAAGCTCAAAGCCATGCTGAAACAgcagcac > 1:557474/1‑142 (MQ=255)
aaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaaga > 1:500210/1‑143 (MQ=255)
tACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcg < 2:376812/143‑1 (MQ=255)
aCATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTgcgc < 1:308761/143‑1 (MQ=255)
cGTACTGAGGCGGCTGGCCGTACCGTCTCGTATGACCATCGGTCAGTTCCTCTAAACCCACCTTGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAAt < 2:44526/143‑1 (MQ=255)
gTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCAACTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAACAAGAAGTAGCGAAACTGCCCGaaat > 2:572005/1‑141 (MQ=255)
tACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACCGCGCGAATTc > 2:233858/1‑143 (MQ=255)
tACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCGGAGACAGCAGCCACAAGTCGCGAAACTGCgagacgtg > 1:210389/1‑139 (MQ=255)
|
TCTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTC > NC_000913/4184403‑4184676
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
