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 |
|
A10 F1 I1 R1
|
77 |
35.1 |
1569012 |
96.6% |
1515665 |
112.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,319,725 |
T→C |
E51G (GAA→GGA) |
rcsC ← |
hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,319,725 | 0 | T | C | 95.3%
| 138.4
/ ‑2.1
| 43 | E51G (GAA→GGA) | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (22/19); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
CGCGGGGAAAGCACACCGTTTTCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATTCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAA > NC_000913/2319605‑2319857
|
cgcgGGGAAAGCACACCGTTTTCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGAtt < 2:588910/139‑1 (MQ=255)
cacCGTTTTCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGATTAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTaa < 1:488349/139‑1 (MQ=255)
gTTTTCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCa < 2:105433/139‑1 (MQ=255)
ttCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTa < 2:708777/139‑1 (MQ=255)
aTAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTa > 2:760494/1‑139 (MQ=255)
tGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGc < 1:58378/139‑1 (MQ=255)
tGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGc > 1:401004/1‑139 (MQ=255)
gCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTaa > 2:757416/1‑97 (MQ=255)
gCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTaa < 1:757416/97‑1 (MQ=255)
ctctTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGc > 1:494555/1‑139 (MQ=255)
tcaGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACg > 2:427546/1‑139 (MQ=255)
gTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAGACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATg > 2:735509/1‑139 (MQ=255)
gTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATg > 1:534084/1‑139 (MQ=255)
cGTTGAATAAAGCGCTGTGCCAGATCGGAACTCAGATTAAATCCCTGATGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGctc < 1:244698/139‑1 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTg < 1:442511/68‑1 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTg > 2:442511/1‑68 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCAc < 2:275158/125‑1 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCAc > 1:275158/1‑125 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGctc > 2:616077/1‑139 (MQ=255)
cGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGctc > 1:468714/1‑139 (MQ=255)
ttGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTg > 1:335269/1‑139 (MQ=255)
aaTAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAAc > 2:392182/1‑139 (MQ=255)
ggCCTGATCCGAACTCAGATTAAATCCCTTACGTATTTCCGACTCTCGCTGATGGATCGGATTAACCATGTAAAAAGCGGATGAAAGAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAg < 2:300632/138‑1 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAATAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAg < 2:534084/139‑1 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGctc < 2:406075/122‑1 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGctc > 1:406075/1‑122 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAg > 2:638750/1‑139 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAg < 1:427546/139‑1 (MQ=255)
aGCCTGATCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAg < 2:401004/139‑1 (MQ=255)
aTCGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTc > 1:226910/1‑139 (MQ=255)
cGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTaa < 1:677248/49‑1 (MQ=255)
cGGAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTaa > 2:677248/1‑49 (MQ=255)
gAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAggg > 1:481647/1‑139 (MQ=255)
gAACTCAGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAggg < 2:616383/139‑1 (MQ=255)
aGATTAAATTCCTGACGAATTTCCGATTCTCGCTGATGTaa < 1:16488/41‑1 (MQ=255)
aGATTAAATTCCTGACGAATTTCCGATTCTCGCTGATGTaa > 2:16488/1‑41 (MQ=255)
aGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGc > 2:191830/1‑104 (MQ=255)
aGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGc < 1:191830/104‑1 (MQ=255)
aGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCa < 2:107688/130‑1 (MQ=255)
aGATTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCa > 1:107688/1‑130 (MQ=255)
aTTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGTGCGAGGCttt > 1:688141/1‑126 (MQ=255)
aTTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCttt < 2:688141/126‑1 (MQ=255)
aTTAAATCCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATG‑AAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGaa > 2:540314/1‑139 (MQ=255)
|
CGCGGGGAAAGCACACCGTTTTCTGCCGATAAGCGATTTTCGGCGATGTACTTCAGCTCTTTCATCACATCAGAGGTGCGTTGAATAAAGCGCTGAGCCTGATCGGAACTCAGATTAAATTCCTGACGAATTTCCGATTCTCGCTGATGTAACGCATTAACGATGTAAAAAACGGATGAAAAAGCAATCAACAGCCAGAGCACTAACGCCAATGCTCTGAACATGTAGCGCGAGGCTTTCAGGGTTGTACGAA > NC_000913/2319605‑2319857
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
