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 |
|
A3 F9 I0 R1
|
113 |
83.2 |
1840812 |
91.6% |
1686183 |
224.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
884,189 |
A→G |
32.4% |
M173V (ATG→GTG) |
mdfA → |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 884,189 | 0 | A | G | 32.4%
| 37.8
/ 5.6
| 33 | M173V (ATG→GTG) | mdfA | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base A (11/9); new base G (9/2); total (21/12) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTATCA > NC_000913/883965‑884408
|
cAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGGAT‑CAAAATCACCGCGCTGCTGGCGAACCTGGCGCTGATTGCTCCGC‑TACTTGGGCCGCTGGCGGGCGCGGCGGGGGTCCATGTGCTGCCCCGGGAGGGGGTG‑TTtgtttt‑gttt > 1:260843/1‑239 (MQ=255)
ttGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCCCGCTGGTGGCGAACGTGGAGCCGATTGTTCCGC‑TCCTTGTGCCCCTGGGGGGCGCGGGGGGGGTCCACGTGCTGGCCTGGGGGGGGGGG‑TGtgtttt‑tttttgcg > 2:8439/1‑234 (MQ=255)
gcgcAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCGGGGGGGCGCGGCGTGGATCCATGTGCTGGCCTGTGGGGGGGTG‑TTTGGTTT‑GTTTTCCCGATTGGc > 1:656192/1‑239 (MQ=255)
tGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCCCCCTGATTGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGGTCCATGTGCTGCCCTGGGAGGGGGTG‑TTTTTTTT‑TTTTTCCGCCTTGGCcgcgcgctc > 1:441468/1‑232 (MQ=255)
aCAATTCACCCTTTTTCGCTTCTTGCAGGGCATAAGCCTCTTTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCtttt < 1:643310/239‑1 (MQ=255)
aaTTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGGGTGGGTCCCTGTGCTTCCCTGGGGGGGGGGG‑TTTGTTTT‑TGTTGCCGCATTGGCAGCGGC‑TT‑CCTTTTTc > 1:17628/1‑239 (MQ=255)
gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGGT‑CT‑CCTTTTTCGGTCTGCaaa > 1:671023/1‑238 (MQ=255)
gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGGAT‑CAAGATCACCGCGCTGTTGGCGAACGTAGCGCCGGCTCGTCCGC‑TACTGTGTGCGCTGCTGGGCGCGGCCTGGGTCCCTTGGCGTCCCTGGGAGGGGGGGTTTTTTTTT‑GGTTG‑CGCGTTGGCAGCGGG‑GT‑CCTGTTTGGGTGTGCGAc > 2:913888/1‑239 (MQ=255)
gTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGGTTGTAT‑CAAAATCACCGCGCTGATAGCGAACGTGGGGCTGATTGCTCCGC‑TCCTTGGTCCGCTGGTGGGCGCGGCGGGGAGCCCTGTGGCGGCCTGGGGGGGGGTG‑GTTGTTTT‑GTTTTGCCCAGTGGCAGCGAG‑CC‑CCCTTTTTGGttgtcaaa > 2:542073/1‑232 (MQ=255)
tGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGCAGGCGGACGTGGCGCTGATTGCTCCGC‑TACTTGGGCCGCTGGCGGGCGCGGCGGGGGTCCATGGGCTGCCCCGGGGGGGGGTG‑TTTGTTTTGGTTTGCGGC‑TTGGCGGCGGTGCC‑CCTTTTTGGGT‑TGCAAcca > 2:786375/1‑237 (MQ=255)
tGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGGGGGCGCGGCGTGGATCCACTTGCTGCCCTGGGGGGGGGTG‑TTTGTTTT‑GTTTGCCGCATTGGCAGAGAG‑CT‑CCTTTTTTGGGTTGCAACgg > 1:525568/1‑238 (MQ=255)
ttttttGCGGGGCATAAGCCTTTGTTTCATGGGCGTTGTGGGATACGCCCCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCCCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGcc < 2:441468/234‑1 (MQ=255)
aTTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCCTGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑TTTTTCCGCATTGGCAGCGAT‑CT‑CCCTTTTTGGTCTGCAACGAGCCATGCCTGAAACCGCCACCCGTATAGGCgg > 1:350950/1‑238 (MQ=255)
ttGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGGT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCggg > 1:123938/1‑237 (MQ=255)
gggtgtgggggtgacgcgggaagttCGGGACTCTTTGGAGGGGGGGGTTGGTAA‑CAAGATCCCGGCGCGGGTGGCGAACGGGGGGGTGTTTGC‑CCGCGTATTGGATCGGGGGGGGGGGGGGGCGGGGATCCGTGTGCTGCCATGGGAGGGGGTG‑TTTTTTTT‑GTTTGCGGCATTGGCAGCGTT‑CT‑CCTTTTTCGGTCTGCAACGAGCCAGGCCTGAAACCGCCACGCGTATAGGCgaga < 2:144637/216‑1 (MQ=255)
ggggacccccccgaaTTCAGGAACTCTGCGGAG‑GGGGGTTTTTGTGCAAGCTCCCCGCGCGGGGGGAGAACGGGGCTGGGTTTGCTCCGT‑TACTTGGCCCGGTGGTGGGCGGGGGGGGGACCCAGGTGGTGCCCGGGGAGGGGATG‑TTTGTTTT‑TTTTGCCGCATGGGCAGCGAT‑CT‑CCTTTTCCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCa < 2:671023/226‑1 (MQ=255)
cAGGAATCCTCCGAAGGGGCGGTTTGTAT‑CAAGATCCCCGCGCGGAGGGCGAACGTGGCGCTGATTGCCCCGC‑TCCTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCGGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCg < 1:542073/239‑1 (MQ=255)
aacccTTCGAAGGGGCGTTTTGTAT‑CAGGTTCACCGGGCTGATGGCGAACGTGGCGCGGATTGCTCGGT‑TCTTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGt < 1:750207/233‑1 (MQ=255)
aaTCTTTGGAGGGGGCGGTTTGTAT‑CAAGATCCCCGCGCGGTTGGCGAACGTGGCGCTGATTGCTCCGC‑TATTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGt < 1:8439/236‑1 (MQ=255)
gATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGCGGGGCTG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAGAAACTCGGTCGTGACCATAAGCTGGGGCTGAAGAACGGCCGCt > 2:918357/1‑239 (MQ=255)
aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGGGAAACTGTCCCTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTtgt > 1:882373/1‑239 (MQ=255)
aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGCAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTtgt > 1:89292/1‑239 (MQ=255)
aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAACAAACTCGGGCGTGACTATAAGCTGGTGCTGAAGAACGGCCGGttttg > 2:151901/1‑237 (MQ=255)
aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAAc > 1:327042/1‑196 (MQ=255)
aCCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGGGCTGAAGAACGGCCGCTTtgt > 1:223226/1‑239 (MQ=255)
tGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGggggccgggggcg > 1:183852/1‑234 (MQ=255)
aTTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGc < 1:802527/187‑1 (MQ=255)
aTTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGc > 2:802527/1‑187 (MQ=255)
gcgctcgggctttgtGGTCCGGGGGGGGGGGGGGGGTGGGTCATTGGGCTGCCGGGGGGGGTGATG‑TTGGTTTT‑GTTGGCCGAATGGGCAGGGAC‑CT‑CGTTGTCGGGGCTGAAAGGGGCAATGGCGGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCg < 2:353094/224‑1 (MQ=255)
ttGGTCCGTTGGGGGTGGGGGGGGGGCTCCTTTTGTTCCCCTGGGGGGGGTTG‑TTTGTTGT‑TTGTGCCCAGTGGGCAG‑GAT‑ATCCCTTTTTCGGTCTGCAACGACCCAGGCGTGAAACCGCCACGCGTAGAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGTGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTg < 2:223226/239‑1 (MQ=255)
ggTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTCTAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCGGGCGCCggggctgtgtatttgtccccgtc > 1:353094/1‑218 (MQ=255)
gtgggccgcCCGGGGGGGGGGTG‑TTTGTTTT‑GTTTCCCGCATTGGCAGCGAT‑CC‑CCTTTTTCGGTCCGAAAGGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTatc < 1:396571/232‑1 (MQ=255)
tgctgcCCGGGGAGGGGATT‑GTTTTTTT‑GTTTGCCGCTTGGGCAGGGAT‑TC‑CTTTTTTCGGTCGGCAACGGGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTatca < 1:201059/237‑1 (MQ=255)
|
CAATATTGCTGGCGCAAAACATTGAACAATTCACCCTGTTGCGCTTCTTGCAGGGCATAAGCCTCTGTTTCATTGGCGCTGTGGGATACGCCGCAATTCAGGAATCCTTCGAAGAGGCGGTTTGTAT‑CAAGATCACCGCGCTGATGGCGAACGTGGCGCTGATTGCTCCGC‑TACTTGGTCCGCTGGTGGGCGCGGCGTGGATCCATGTGCTGCCCTGGGAGGGGATG‑TTTGTTTT‑GTTTGCCGCATTGGCAGCGAT‑CT‑CCTTTTTCGGTCTGCAACGAGCCATGCCTGAAACCGCCACGCGTATAGGCGAGAAACTGTCACTGAAAGAACTCGGTCGTGACTATAAGCTGGTGCTGAAGAACGGCCGCTTTGTGGCGGGGGCGCTGGCGCTGGGATTCGTTAGTCTGCCGTTGCTGGCGTGGATCGCCCAGTCGCCGATTATCA > NC_000913/883965‑884408
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
