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 |
|
A14 F34 I0 R1
|
25 |
22.0 |
717516 |
96.1% |
689532 |
148.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP009273 |
3,960,035 |
C→G |
36.7% |
R87G (CGC→GGC) |
rho → |
transcription termination factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,960,035 | 0 | C | G | 36.7%
| 18.0
/ 19.7
| 26 | R87G (CGC→GGC) | rho | transcription termination factor |
| Reads supporting (aligned to +/- strand): ref base C (11/4); new base G (3/6); total (15/11) |
| Fisher's exact test for biased strand distribution p-value = 9.18e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.51e-01 |
CATCCTGAAGCAGCACGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGCAACAAAATCCTCTTTGAGAACT > CP009273/3959887‑3960182
|
cATCCTGAAGCAGCACGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCGGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATcc > 2:308605/1‑149 (MQ=255)
tCCTGAAGCAGCTCGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATcggc < 2:3393/149‑1 (MQ=255)
tCCTGAAGCAGCACGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATcggc > 2:140052/1‑149 (MQ=255)
agcaCGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCAGGTC‑CGGGTGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAAc > 2:155985/1‑149 (MQ=255)
aCGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTGCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTc > 2:340517/1‑149 (MQ=255)
ggggAAGATAGCTTTGGTGGTGGCGGACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCAGCCGTTTCAACCTCCGCACTGGTGa < 1:199383/146‑1 (MQ=255)
ggCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGa < 2:275551/149‑1 (MQ=255)
ggCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGa < 1:156119/149‑1 (MQ=255)
tttGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTgg > 2:62861/1‑149 (MQ=255)
ttGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGt < 2:59891/149‑1 (MQ=255)
gATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCAGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAAAt > 1:73525/1‑149 (MQ=255)
tGGCGTACTGGAGATATTGCAGGATGGATTTGGTCTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTc < 2:317035/149‑1 (MQ=255)
ggCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTcg > 1:181363/1‑149 (MQ=255)
gaTATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAaag > 2:248864/1‑149 (MQ=255)
gaTATTGCAGGAGGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGACGGTC‑CTGGTGACATCTACGTTTCCCCTAGCCAAATCCGCCGGTTCAACCTCCGCACTGGTGATACCATCACTGGTCAGGTTGCCCCGCCCaaac > 1:4291/1‑148 (MQ=255)
atTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAaagaag > 2:119701/1‑149 (MQ=255)
ggTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGGC‑CTGATGACCTCTACCTTTCCCCTAGCCAAATCCCCCGGTTCCACCTCCCCACTGGGGATAACATCCCTCGGCAGATTCCCCCCCCGAAAGAACGTGACCgaacttttga > 1:26509/1‑140 (MQ=255)
cctccGTTCGCCAGACACCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCgctgc < 1:340517/149‑1 (MQ=255)
ctccGTTCCGCAGACAGCTCCTACCTAACAGGTCGCAGA‑GTGATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCGATTTTGCgctgct > 2:174824/1‑149 (MQ=255)
ccGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTCTGCGCTGCTGAAAGtt < 2:224014/149‑1 (MQ=255)
aGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGt < 2:268203/149‑1 (MQ=255)
cTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAACGTTAACGAAGTTAACt > 2:343555/1‑149 (MQ=255)
tCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGAc > 2:209727/1‑149 (MQ=255)
acgaCATCTGCGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCCTCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAAc < 2:346991/147‑1 (MQ=255)
tCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGc > 2:124719/1‑149 (MQ=255)
cTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGca > 1:181418/1‑149 (MQ=255)
tccccctccAAAGCGGCCGTTTCAACCTCCGCCCTGGTGATTCCCTCTCTGCTAACACTCGTCCGCCGAAAGAATGTGACCGCTATTTTTCGCTTCTGAAAGACAACGAATTTAACTACGACAAACCTGAAAACGCCCTCATCAAAATc < 1:64599/142‑1 (MQ=255)
cccTAGCCAAATCCGCCGTTTCAACCTCCGAACTGGTGATACCAACTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGCAGTTAACTTCTACAACCCAGAAAACGCCCGCCACAAAAtac > 1:272880/1‑147 (MQ=255)
cAAATCGGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGCAACAAAATCCTCTTTga < 1:119701/149‑1 (MQ=255)
ccgccgTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGCAACAAAATCCTCTTTGAGAACt < 1:235610/149‑1 (MQ=255)
|
CATCCTGAAGCAGCACGCAAAGAGTGGCGAAGATATCTTTGGTGATGGCGTACTGGAGATATTGCAGGATGGATTTGGTTTCCTCCGTTCCGCAGACAGCTCCTACCTCGCCGGTC‑CTGATGACATCTACGTTTCCCCTAGCCAAATCCGCCGTTTCAACCTCCGCACTGGTGATACCATCTCTGGTAAGATTCGCCCGCCGAAAGAAGGTGAACGCTATTTTGCGCTGCTGAAAGTTAACGAAGTTAACTTCGACAAACCTGAAAACGCCCGCAACAAAATCCTCTTTGAGAACT > CP009273/3959887‑3960182
|
| 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
