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 |
|
A5 F13 I0 R1
|
213 |
60.4 |
2554362 |
98.6% |
2518600 |
147.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
3,996,335 |
T→G |
26.6% |
intergenic (+13/+32) |
PP_3523 → / ← PP_3524 |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 3,996,335 | 0 | T | G | 26.6%
| 50.6
/ 3.8
| 42 | intergenic (+13/+32) | PP_3523/PP_3524 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (9/16); new base G (8/3); total (22/20) |
| Fisher's exact test for biased strand distribution p-value = 7.04e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAAAGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATCTTGCGCTC > NC_002947_CJ‑RC/3996192‑3996483
|
aaaaGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACTGCTGCCTGATGTTGGACGGGCTGGGTCCTGCCATGCGTTTCTACATCCTGCCCAAATGACCCTCGACGGCCACAGgc > 2:267242/1‑149 (MQ=255)
aaaaGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAg < 2:147450/147‑1 (MQ=255)
aaaaGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGgc < 1:59149/149‑1 (MQ=255)
aaaaGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCACAGgc > 7:307673/1‑149 (MQ=255)
aaaGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGgcg > 4:108575/1‑149 (MQ=255)
gcgATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGccc < 7:125611/149‑1 (MQ=255)
gcgATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCACAGGCGCCCCCGCGccc > 7:98093/1‑149 (MQ=255)
cgATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATACTGCCCAAATGACCCTCGACCGCCGCAGGCCCCCCCCCGaccc > 3:200518/1‑148 (MQ=255)
ttACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCACAGGCGCCCCCCCGCCCGA‑gg > 4:103897/1‑149 (MQ=255)
cATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCaaa < 5:38932/149‑1 (MQ=255)
tGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCCGGCGCCCCCGCGCCCGA‑GGCCGCAAAcc < 8:291084/149‑1 (MQ=255)
tGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCAGGCCCCCCCCCCCCCCA‑GGCCGGCAAcc > 3:230993/1‑149 (MQ=255)
cTCATGCAACTGCGGGTACTGTCCACGGTGAAGTTCTACGGCTGCCTGTTGGTGGAGGGGCTGGGTCCTGCCATGGGTTTCGACATCCTGCCCAAATGACCCTCGTCGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCAttt < 4:149801/149‑1 (MQ=255)
aaGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCCAGCGCCCCCCCCCCCGC‑CGCCCCAAACCCGCActttt > 5:38298/1‑148 (MQ=255)
aaGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTc < 8:307673/149‑1 (MQ=255)
gtaaCTGCGCGTACTGTCCACGGTGATGTTCTACGGCTGCCTGATGGTTGAGGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCCGGCGCCCCGGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCt < 4:191928/147‑1 (MQ=255)
ggAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCCGGCGCCCCCCCGCCCCC‑GGCCGCAAACCGTCAATTTTACt > 7:257233/1‑149 (MQ=255)
cgTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCCGGCGCCCCCCCGCCCGC‑GGCCGCAAACCCTCATTTTTACAGCAACAccc > 6:31214/1‑148 (MQ=255)
tGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCgccctg > 5:68945/1‑149 (MQ=255)
tgcACCGTGAAGTTCTACGGATGCGTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCAAATTGACCCTCGTCGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCgctatgc < 6:314045/146‑6 (MQ=255)
cACCGTGAAGTTCTACGGCTGCCTTATGGTGGACGGGCTGGGTCCTGCCATGGGTTTCGACATCCTGCCAAAATGACCCTCGACGGCCTCCGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCgccctg < 3:114064/145‑1 (MQ=255)
cACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCCCGCCCCCCCCCCCCCCACGCCCCCAAACCG‑CATTTTTTCAGCAACAACccccagcag > 4:114064/1‑146 (MQ=255)
aCCGTGATGTTCTACGGCTGCCTGTTGGTGGACGGGGTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATTACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCGGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCtt < 7:113660/149‑1 (MQ=255)
gTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGAAACACCCCCCAGCCCTTCACCGccc > 8:149032/1‑149 (MQ=255)
cGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCg < 2:210200/146‑1 (MQ=255)
cGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGa < 7:160740/148‑1 (MQ=255)
cGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCCCGCCCGA‑GGCCGCCAACCGTCATTTTTACTGCAACACCCCCCTGCCCATCACCGCCCGCGGa > 8:160740/1‑148 (MQ=255)
gtGATGGTGGACGGGCTGGGTCCGGCCATGTGTTTCGACATCGTGCCCAAATGACCCTCGACGGCCGCTGGCGCACCCGCGCCCGA‑GGCCTCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCa < 1:267242/148‑1 (MQ=255)
gATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCCCCCCCGC‑CGCCGCAAACCGGCATTTTTACAGCAAAACCCGCCCGCCCGTAACCGCCCACGGCCCCCGccccg > 6:274125/1‑146 (MQ=255)
ggggCTGGGGCCTGCCATGCGTTTCGAAACCCTGCCAAAATCACCCTCGACGCCCCCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACa < 3:69961/148‑1 (MQ=255)
cGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACa < 8:187160/149‑1 (MQ=255)
gggCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCCCGCCCGA‑GGCCGCAAACCGGAATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAg > 2:285037/1‑149 (MQ=255)
gggCTGGGTCCTGCCATGCGCTTCGACATCCTGCCCAAATGACCCTCGACGGCCGCAAGCGCCCCCCCGCCCCA‑CGCCCCCAACCGGCATTTTTGATGAAAAACCCCCCAGCCCTTCACCGCCCACGGGCCCCCCCCGGCCCaccacaa > 2:141344/1‑143 (MQ=255)
ccTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCggg < 4:153111/149‑1 (MQ=255)
tttCGACATCCTGCCCAAATGACCCTCGACGGCCGCCGGCGCCCCCCCGCCCGC‑GGCCGCAAACCGTGATTTTTGCTGCCACCCCGCCCTGCCCGTCACCGCCCGCGGGCCGCGCCCGGCCCCGAACCGC‑CAACCGGGGGAGGGTGCGt > 8:244745/1‑149 (MQ=255)
ttCGACATCCTGCCCAAATGACCCTCGACGGCCGCCCGCGCCCCCCCCCCCCC‑GGGCGCCAACCCACAATTTTTATGCAACCCCCCCCAGCCCGTGACCCCCCCCGGCCCGCCCCCCGCCCACCACACCAAAACCGGGGAggggggggt > 6:19677/1‑144 (MQ=255)
cATCCTGCCCAAATGACCCTCGACCGCCACAGGCGCCCCCCCGCCCCA‑GGCCGCAAAACCTAATTTTTACTGCAACACCGCCCTGCCCATAACCCCCCACGGACCCCCCCAGGCCCACAACATC‑AAACCCGGGAAGGGTGCGTAGAcc > 2:67392/1‑148 (MQ=255)
ccaaaaTCACCCTCGACGGCCGCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCATCACCGCCCTGCCCTTCACCGCCCTCGGACCGCGACAGGCCCAGAACATC‑AAACCGGGGAAGTGTGCGTAGACCACTAAGa < 4:200518/145‑1 (MQ=255)
aaTGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATc < 7:187843/149‑1 (MQ=255)
gACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATc < 8:257233/148‑1 (MQ=255)
gCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCAACAGCATCTTgcg > 8:192258/1‑149 (MQ=255)
cTCAGGCGCCCCCGCGCCCTG‑GGCCGCAAACAGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGACCTCGGACCGCGCCAGGCCCAGAACAGC‑AACCCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATCTTGCGCt > 8:42924/1‑149 (MQ=255)
tCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATCTTGCGCTc > 2:1440/1‑149 (MQ=255)
tCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATCTTGCGCTc > 4:306788/1‑149 (MQ=255)
|
AAAAGCTGGTCCGCGATTACATCCATGACGCGCTCAAGGAACTGCGCGTACTGTCCACCGTGAAGTTCTACGGCTGCCTGATGGTGGACGGGCTGGGTCCTGCCATGCGTTTCGACATCCTGCCCAAATGACCCTCGACGGCCTCAGGCGCCCCCGCGCCCGA‑GGCCGCAAACCGTCATTTTTCCTGCAACACCGCCCTGCCCTTCACCGCCCTCGGACCGCGCCAGGCCCAGAACAGC‑AAACCGGGGAAGGGTGCGTAGACCACGAAGACGATCCACAGCATCTTGCGCTC > NC_002947_CJ‑RC/3996192‑3996483
|
| 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
