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 F64 I1 R1
|
60 |
70.4 |
2989830 |
98.5% |
2944982 |
146.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,070,248 |
+GA |
intergenic (+48/+94) |
aroP‑I → / ← PP_0928 |
aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,070,246 | 1 | . | G | 75.0%
| 75.9
/ 21.5
| 34 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| Reads supporting (aligned to +/- strand): ref base . (3/5); new base G (4/20); total (7/27) |
| Fisher's exact test for biased strand distribution p-value = 3.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | NC_002947_CJ‑RC | 1,070,246 | 2 | . | A | 75.8%
| 67.6
/ 22.1
| 34 | intergenic (+46/+96) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| Reads supporting (aligned to +/- strand): ref base . (3/5); new base A (4/21); total (7/27) |
| Fisher's exact test for biased strand distribution p-value = 3.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGT‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA > NC_002947_CJ‑RC/1070100‑1070379
||
tGACGACGCCCATTCGCATCTCGCTAATGCTGATCCCGTCATGGATCGCTCTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGCCTGATCGGGTTTGTTCGTAACGGATATGACGTTAGGTTTTCGGCGCC‑‑agt‑‑g > 7:55563/1‑148 (MQ=255)
aCGCCGCCGATTCGCATCTCGGTAGTGTTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑AGT‑‑G‑‑aa > 4:145585/1‑147 (MQ=255)
gccgccGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGT‑‑G‑‑agatc < 7:383507/149‑5 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCgcgggcgg < 2:199026/148‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCgcgggcg < 2:210064/147‑1 (MQ=255)
ggTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGggcggc > 2:206906/1‑149 (MQ=255)
gTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGgcggcg > 6:331773/1‑149 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTc < 5:61640/149‑1 (MQ=255)
aTGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCGCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGGTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCCCGCGCGGCGCTc < 4:218599/149‑1 (MQ=38)
cTGATCCCGGCTTGGATCGCTGGGCTGGGGGTGGGTTTCAAGCTGAAGAAGGCTCGCCAGGCCATGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGCC‑‑TGTTAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGAt < 2:169373/149‑1 (MQ=38)
cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGa < 4:43475/148‑1 (MQ=255)
cTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCCCGCGCGGCGCTCGa < 3:269558/148‑1 (MQ=38)
aTCCCGGATTGGATCGCTGTGCTGTGGGGGGCTTCCACGCTCAACACGGCGCGCCTGGCCATGGGCTGACCGGGTTTGTTCTTATGGGGTATGCCTTTAGGTTTTCGGCGCC‑‑GGTTAG‑‑ATCGCGCGCCGCGCGGGCGGCGCTCTAtc < 4:289837/147‑1 (MQ=255)
tCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGACGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGaaa < 8:175453/149‑1 (MQ=255)
tCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGaaa < 6:184379/149‑1 (MQ=255)
cgtggggtggCTTTCAAGGTGACGTAGGCTGGCCTGGCCATGGGCTTTTCGGGTTGGTGGGTATGGGGTTTGCCGTTAGGTTTTCGGCGCC‑‑GGT‑‑GATATCGCGCGCCGGGCGGGCGCGGCTCGATCTCACAGGCGATGAAAGCCTAAAg < 4:102942/145‑1 (MQ=255)
tttCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTg > 2:219905/1‑149 (MQ=255)
agaagGATCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGAc < 8:209953/149‑1 (MQ=255)
ggCTCGCCAGGCCAAGGGCGGATCGGGTTGGTTCGTAAGGGGTATGCCGTTTGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGt < 8:139832/149‑1 (MQ=38)
cTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTTTGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑c < 8:73792/149‑1 (MQ=255)
ggCCAAGGGCTGACGGGGTTTGTCCGTAAGGGGTATCCCGTTAGGTTTGCGGCGCC‑‑TGTGAG‑‑ACCGACCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTcc < 3:100707/149‑1 (MQ=37)
gggCTGAGCGGGTTGGTGCGAAAGGGGTAGGCCGTTAGGTTTCCGGCGCC‑‑TGTGAG‑‑AGCGCGCCCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGccc < 3:85106/149‑1 (MQ=37)
gggTTTGTTCGTACGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAAtgc < 4:10992/148‑1 (MQ=255)
gggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCCGGTGA‑‑G‑‑ACCGAGCGCCGCGCGGGCGGCGCGCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAAtgct < 6:217237/149‑1 (MQ=38)
ggTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATAGAGCGCCGCGCGGGCGGCGCGCGATGTAACAAGGGATGAAAACCAAAAAGGATTCGTCTGGCGGCCCTGACCCGGT‑GCCCGTCCCAGCCCCACAAagctg > 8:95082/1‑149 (MQ=255)
tttggTATGGGGTAGGCGTTTAGGTTTTCGGGGCCTGTGT‑‑G‑‑AGCGAGGGCGGCGGGGGGGGGGCTGGATCTGACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTc < 4:89264/144‑1 (MQ=255)
gTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGCGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGcc < 5:163929/148‑1 (MQ=255)
gggTATGCCGTTAGGTTTTCGGCCCCAGTGA‑‑G‑‑ATAGAGCGCCGCGCGGGCGGCGCAAGATATAAAACGCGAAGAAAGCCAAAAAGGAATCGTCTGGCGGCCCAGACGCGTT‑ACCCATCCAAGCCCCTCAATGCTGCCAACCCCAAccac > 4:297920/1‑149 (MQ=255)
gTATGCCGTTAGGTTTTCGGCGCCAGTGA‑‑G‑‑ATAGAGCGCCCCGCGGGCGGCGCGCGATATAACAGGCGATGAAAGCCAAAAAGCCTTGGTATGGCGGCCCGGGCGCGTTGCCCCTACCA‑GCCCCACAAATCTGCCGCCCCCaacccccc > 4:288226/1‑143 (MQ=255)
ggtttgtttttCGGCGCCTTTGA‑‑G‑‑ATCGCGCGCGGCGGGGGGGGGGCTCTATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtg < 4:45395/142‑1 (MQ=255)
ttcggTTTTCGGCGCC‑‑TGTGCG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggt < 2:122051/146‑1 (MQ=255)
ttAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggt < 8:29989/149‑1 (MQ=255)
ttAGGTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAgtggt < 1:219905/149‑1 (MQ=255)
ggTTTTCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGgtgt < 1:206906/148‑1 (MQ=255)
ttttCGGCGCC‑‑TGTGAG‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACa < 4:226834/149‑1 (MQ=255)
||
TGACGCCGCCGATTCGCATCTCGGTAATGCTGATCCCGGCATGGATCGCTGTGCTGTGGGTGGCTTTCAAGCTGAAGAAGGCTCGCCAGGCCAAGGGCTGATCGGGTTTGTTCGTAAGGGGTATGCCGTTAGGTTTTCGGCGCC‑‑TGT‑‑G‑‑ATCGAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGATGAAAGCCTAAAGGCATGCGTCTGGCGGCCCTGACGCGTT‑CCCCTTCCATGCCCCTCAATGCTGCCTCCGCCAAGCACGCACAGTGGTGTACA > NC_002947_CJ‑RC/1070100‑1070379
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
