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 F12 I1 R1
|
58 |
76.7 |
3263832 |
98.3% |
3208346 |
146.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
278,744 |
+A |
intergenic (‑239/+75) |
PP_0224 ← / ← sctC |
DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 278,742 | 1 | . | A | 85.7%
| 55.5
/ 4.4
| 21 | intergenic (‑237/+77) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base A (2/16); total (4/17) |
| Fisher's exact test for biased strand distribution p-value = 7.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGCTACAGCTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑T‑AA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCGGGTTTA‑CCCGCGAAAGGGCCGGAACAGGTTTACTCGGAGGCCGCAGTCCCGAGGAACTTGCGCAAGAACTGCCGCGTACGCTCTTCCTTCGGCG > NC_002947_CJ‑RC/278598‑278883
|
tCGCTACAGCTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑T‑aaa < 1:232306/148‑2 (MQ=255)
tCGCTACAGCTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑T‑aaa < 2:364276/148‑2 (MQ=255)
tCGCTACAGCTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑T‑aaa > 8:136356/1‑147 (MQ=255)
cTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTa < 6:312348/149‑1 (MQ=255)
tGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTa < 7:136356/148‑1 (MQ=255)
aTCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTaca < 6:138287/148‑1 (MQ=255)
tgCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATc < 3:72585/149‑1 (MQ=255)
cTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCt < 6:220375/148‑1 (MQ=255)
tggtccggtggtccggTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCt < 8:277444/147‑1 (MQ=255)
gtccggtATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAg < 3:360630/148‑1 (MQ=255)
gtccggtATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAg < 4:386894/148‑1 (MQ=255)
cggtATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGc < 4:78245/149‑1 (MQ=255)
atatataCCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCggg < 8:80328/148‑1 (MQ=255)
atatataCCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCgg < 7:302720/147‑1 (MQ=255)
aCCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCGGGTTTA‑c < 8:87201/147‑1 (MQ=255)
aCCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCGGGTTTA‑c < 7:228756/147‑1 (MQ=255)
caatAATTATTTATAAAATTATTATGACCTAACTTTTTTGAATATTTATTGATGGGGGATTTGATACAGAGGTGCGGGGCGCTTCGCGGG‑TAAA‑CCCGCTAGTACACACATTCTTCATTATCTG‑TGCACTGTAGGAGCGGGTTTA‑CCcg < 4:20128/146‑1 (MQ=255)
tAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGGTT‑AA‑ACCCCTCCGAAACACCAGGCGCAAGATGTGTTGCA‑TGTAGGAGGGGGGTTT‑GCCGCGa > 6:158660/1‑149 (MQ=255)
ttATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGAt > 7:29947/1‑111 (MQ=255)
tataAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATc < 8:29947/111‑1 (MQ=255)
ttATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGGTT‑AA‑ACCCCGCCGACACACATGGCGCAAGATGTT‑TGCACGGTAGGAGCGGGTTTA‑GCCCCGGAAGGGCCGGGACAGGtt > 8:332868/1‑148 (MQ=255)
ataattTTTTGTAATATTTATCTACGGGGTTTTTGTTACAGCGGTGCCGGGCTATTCGCGGT‑T‑AACCCCGCTCCTCCACACATGCCTCAAGCTCTG‑GCCAGTGTTGGCGGGGGTTTA‑CCCGCGAAAGGGCCGGAACAGGTTTACTCGGa < 2:277533/148‑1 (MQ=255)
gggCCGGGCCCTTCGGGGG‑TAAA‑CCCCCCCCAACAACAATGCCACAATCTCTG‑GTCCCTGTTGGCTGGGGTTTACCCCGCGAAAGGGCCGGAACAGGTTTACTCGGAGGCCGCAGTCCCGAGGAACTTGCGCAAGAACTGCCGCGTACg < 2:88157/147‑1 (MQ=255)
gcgGG‑TAAA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCGGGTTTA‑CCCGCGAAAGGGCCGGAACAGGTTTACTCGGAGGCCGCAGTCCCGAGGAACTTGCGCAAGAACTGCCGCGTACGCTCTTCCTTCGgcg > 8:78076/1‑148 (MQ=255)
|
TCGCTACAGCTGATCGCGACAGACGTGTGCTGGTCCGGTGGTCCGGTATATATACCCTAATGATTTATAAAATTTTTATGAACTAACTTTTTGGAATATTTATAGAAGGGGGATTTGTTACAGAGGTGCCGGGCTCTTCGCGGG‑T‑AA‑CCCGCTCCTACACACATGCCTCAAGATCTG‑TGCACTGTAGGAGCGGGTTTA‑CCCGCGAAAGGGCCGGAACAGGTTTACTCGGAGGCCGCAGTCCCGAGGAACTTGCGCAAGAACTGCCGCGTACGCTCTTCCTTCGGCG > NC_002947_CJ‑RC/278598‑278883
|
| 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
