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 |
|
A2 F13 I0 R1
|
203 |
85.6 |
3649704 |
98.8% |
3605907 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
4,586,163:1 |
+C |
65.6% |
intergenic (+139/+76) |
PP_4061 → / ← PP_4063 |
hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 4,586,163 | 1 | . | C | 65.6%
| 71.1
/ 37.6
| 32 | intergenic (+139/+76) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| Reads supporting (aligned to +/- strand): ref base . (3/8); new base C (2/19); total (5/27) |
| Fisher's exact test for biased strand distribution p-value = 3.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑C‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCT > NC_002947_CJ‑RC/4586016‑4586303
|
aaGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGa < 8:93808/149‑1 (MQ=255)
aGGGTAGACCACGGCACCGGCGTGAACAGCTGATGTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCATGGTGAAGATCTTGCATTGTTGGGGCCGGCCTCTTCGCGGGTAAAGCCGCTGCTACGAGGGagcgtggc < 4:161435/148‑8 (MQ=255)
aGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCg < 2:433841/149‑1 (MQ=39)
aGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGCATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCg < 5:90983/149‑1 (MQ=38)
gTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGcc < 6:61306/149‑1 (MQ=39)
tAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCt < 1:119409/149‑1 (MQ=39)
tAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCt < 5:121788/149‑1 (MQ=39)
aCCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGa < 8:238139/149‑1 (MQ=39)
ccACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATAGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGTCTTGaa < 5:328414/149‑1 (MQ=38)
cGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATg‑c < 1:344435/149‑1 (MQ=39)
gCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATg‑cgg < 4:111815/149‑1 (MQ=39)
ccgtgaccggcaaggtgcagaagttccgcatgcgtgagatcagtgtggcggagattgcggctgcatctgcgggttgatgtgctggcgcggccggcctcttcgcgCGTAAACCCGCTACTACCAGGGA‑CCGTGCCGGCCTTGAATg‑cggc < 7:280011‑M1/45‑1 (MQ=255)
cgtgaccggcaaggtgcagaagttccgcatgcgtgagatcagtgtggcggagattgcggctgcatctgcgggttgatgtgctggcgcggccggcctcttcgcgGGTAAAACCCCACCTACCACGGC‑CCGTGCCGGCCGTGAATg‑cggcg < 8:363569‑M1/46‑1 (MQ=255)
cGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCt < 7:17040/149‑1 (MQ=39)
gCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGc < 5:350748/149‑1 (MQ=39)
gcaaggtgcagaagttccgcatgcgtgagatcagtgtggcggagattgcggctgcatctgcgggttgatgtgctggcgcggccggcctcttcgcgGGTAAACCCGCTCCTACCAGGGA‑CCGTGCCTGCCTTGAATG‑CGGCGCTGCCCCt > 8:280011‑M1/96‑149 (MQ=255)
aCAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGGATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTgg < 4:375048/149‑1 (MQ=38)
cAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGt < 1:354843/149‑1 (MQ=39)
gtgcagaagttccgcatgcgtgagatcagtgtggcggagattgcggctgcatctgcgggttgatgtgctggcgcggccggcctcttcgcgGGTAAACCCGCTCCTACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAg > 6:430486‑M1/91‑149 (MQ=255)
cTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCTGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTa < 8:148526/147‑1 (MQ=39)
aTCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTgg < 4:196041/142‑1 (MQ=38)
aTCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTgg > 3:196041/1‑142 (MQ=38)
cgcTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGG‑CAGCGCC‑GCATTCAAGGCCGGCACGGTCCCTGGTAGGAGCgg < 1:331545/146‑1 (MQ=14)
cgcTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGCGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCgg < 6:166840/146‑1 (MQ=38)
ctgctCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTa < 3:62090/149‑1 (MQ=38)
gcatgcgtgagatcagtgtggcggagattgcggctgcatctgcgggttgatgtgctggcgcggccggcctcttcgcgGGTAAACCCGCTCCTACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTAcc > 7:363569‑M1/78‑149 (MQ=255)
ctCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGTTCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGTAGGGGGTTTAcc < 4:232219/148‑1 (MQ=38)
aaaGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTgg > 7:469711/1‑124 (MQ=38)
aaaGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACC‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTgg < 8:469711/124‑1 (MQ=38)
CCCGCTCCTACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACt < 1:220334‑M1/149‑1 (MQ=255)
CCGCTCCTACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACtt < 8:166080‑M1/149‑1 (MQ=255)
CCGCTCCTACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACt < 1:395472‑M1/148‑1 (MQ=255)
TACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCAcc < 7:49617‑M1/149‑1 (MQ=255)
ACCAGGGA‑CCGTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCt < 2:230428‑M1/149‑1 (MQ=255)
|
AAGGCTTAAGGGTAGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑C‑GTGCCGGCCTTGAATG‑CGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCT > NC_002947_CJ‑RC/4586016‑4586303
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
