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 |
|
A1 F14 I0 R1
|
248 |
61.6 |
2601574 |
98.7% |
2567753 |
146.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
5,754,561 |
A→C |
25.2% |
intergenic (‑184/‑287) |
thiI ← / → glnA |
tRNA sulfurtransferase/glutamine synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 5,754,561 | 0 | A | C | 25.2%
| 46.2
/ 6.7
| 32 | intergenic (‑184/‑287) | thiI/glnA | tRNA sulfurtransferase/glutamine synthetase |
| Reads supporting (aligned to +/- strand): ref base A (15/6); new base C (2/5); total (20/12) |
| Fisher's exact test for biased strand distribution p-value = 7.64e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGGCGCGAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCACGCAAACGCCCCCTT > NC_002947_CJ‑RC/5754413‑5754704
|
ggggCGCGAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGa < 8:44166/149‑1 (MQ=255)
ggCGCGAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCTCCTACGGGCTTTGCACCGCCTGTAGgcgc < 6:289705/149‑1 (MQ=37)
ggCGCGAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACGGGCTTTGCACCGCCTGTAGgcgc < 4:149587/149‑1 (MQ=38)
cgcgAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑gg < 4:192178/149‑1 (MQ=255)
gAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTTAA‑ACCGCGCCAACAGGCGGTGCAAAGCCCGTAGGGGC‑GGGtt > 6:66323/1‑149 (MQ=255)
gAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGtt < 2:272242/149‑1 (MQ=255)
ttATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTAc < 4:24744/149‑1 (MQ=255)
cGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGCGGGGTAAA‑ACCCCCCCGAAAGGCGG‑GCTAAACCCCCAAGAGC‑GGGttttcacccg > 1:36584/1‑141 (MQ=255)
taaaTTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGAAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAag < 7:170261/148‑1 (MQ=255)
tCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTTAA‑ACCCCCCCAAAAGGCGGGGGAAAACCCCGAGGGGCGGGGTTTACCC‑CGCAGAGGccc > 4:273849/1‑147 (MQ=255)
aGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑ACCGCGCCGACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGGTTTCCCGCGAAGAGGCCCTAg > 8:235539/1‑148 (MQ=255)
cacaaaCTTTTTATCATACGCTTTTTTAAAAATGCAGCGCCCTGTTTTGGCCGCGCGTTTCCGGGCCGTTTCGG‑GGTTAAC‑CCCGCGCAAACCGGGGGTCAAAAGCCGTTCGGCGG‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTgg < 8:210936/144‑1 (MQ=255)
aCCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGCGGGGTAAA‑CCC‑CCCCGAAAGGCGGGGGCAAGCCCCGTGGGGC‑GGGGTTTCACGCGCAGAGGGCCGAGAACCAGGcc > 1:86037/1‑148 (MQ=255)
aaCTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTTAA‑AACCCCCCGAAAAGCGGTGGAAAGCCCCTAGGAGCGGGGTTTACCC‑CGAAGAGGCCCAATAACCAGGccccc > 1:220661/1‑145 (MQ=255)
taTAAATCCAGCGGCCAGGTTTGGCAGCGCCTGTCCCGGCCATTTCGG‑GGGTAAC‑CCCGCGCATACCGGCGGTGAAAAGCCCTTAGGAGG‑GTGTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTAt < 8:184226/147‑1 (MQ=255)
gcggCCCGGTTTTGCCGCGCCTGTCCCGGCCCTTTGGC‑GGTTAAC‑CCCGCGCCAACCGGGGGGCAAAAGCCGTTAGTAGC‑GGGTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGacac < 2:55209/147‑1 (MQ=255)
gTTTTGCCCCGCCTGTCCCGCCCCTTGCG‑‑GGGTAAACCCCGCGCAAACCGGGGGGGAAATGCCCGTCGGCGC‑GGGTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCaa < 7:331538/147‑1 (MQ=255)
gCAGCGCGTGTTCCGGCCATTTCGG‑GGGTAAC‑CCCGGGCTTACGGGGGGTGAAATGCCGGTAGTCGG‑GGTTTTACCCGCGAAGAGGCCCTAGAACCTTTATCACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACg < 2:36584/148‑1 (MQ=255)
cAGCGCGTGTTCCGCCCCTTTCG‑‑GGGTAAACCCCGCGCCTACTGGCGGTTAAAAGCCCGTTGGTGC‑GGTTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGc < 8:58507/148‑1 (MQ=255)
cAGCGCCTGTTCCGGCCCTTTCGT‑GGGTAAA‑ACCCCCCCAACAAGCGGTGGAAAGCCCCGAGGAGC‑GGGGTTAACCGCGCAGATGGCCTAGAAACTGGCCCACCACAAACCCCACCCCCCCAATTGGTGCGACAAGATCAAAAAACGc > 6:109591/1‑148 (MQ=255)
tcccGCCCCTTGCGC‑GGTAAAC‑CCCGCGCAAACCGGGGGTCAAACGCCGTTTGTCGG‑GGGTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAgg < 7:52384/146‑1 (MQ=255)
gggTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGc > 6:230905/1‑149 (MQ=255)
ggTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGc > 1:207330/1‑148 (MQ=255)
gTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCt > 8:328470/1‑148 (MQ=255)
gTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCt > 6:65282/1‑148 (MQ=255)
aaccccGCGCATACCGGCGGTGAAAAGCCGGACGGCGC‑GGGTTAACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTaa < 7:235539/145‑1 (MQ=255)
a‑CCCGCTCCTACGGGCTTTGCACCGCCTGTAGGCGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAAcc > 8:208050/1‑148 (MQ=37)
ccGCTCCTACGGGCTTTGCACCGCCTGTAGGCGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCaa > 2:270641/1‑149 (MQ=37)
tACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTAACCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCaaa > 4:166536/1‑149 (MQ=255)
ggCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCa > 3:236006/1‑149 (MQ=255)
gCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCAc > 2:83788/1‑149 (MQ=255)
gTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCACGc > 5:136530/1‑148 (MQ=255)
tGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCACGCa > 1:312417/1‑148 (MQ=255)
aaaGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCACGCAAACg > 3:134444/1‑149 (MQ=255)
gTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACACGCTAACCCAACGCCAAATGCACGCAAACGCCCCCtt > 2:305374/1‑149 (MQ=255)
|
GGGGCGCGAATTATATCGGAAATTGCTCAGGATTTGACCAACTTTTGATCAGAAGCTTTGAGATAAATGCAGAGGCCAGGTTTTGCAGCGCCTGTTCCGGCCCTTTCGC‑GGGTAAA‑CCCGCGCCTACAGGCGGTGCAAAGCCCGTAGGAGC‑GGGTTTACCCGCGAAGAGGCCCTAGAACCTGGCACACCACTCACGCCACGCACCCTATTGGTGCGACACGATCAAAAAACGCATCGTAAGGGTGCACTTTCACCCGCTAACCCAACGCCAAATGCACGCAAACGCCCCCTT > NC_002947_CJ‑RC/5754413‑5754704
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
