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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,564,525 |
G→A |
M1M (ATG→ATA) † |
yffS → |
CPZ‑55 prophage; uncharacterized protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,564,525 | 0 | G | A | 97.8%
| 149.9
/ ‑4.0
| 46 | M1M (ATG→ATA) † | yffS | CPZ‑55 prophage; uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (27/18); total (27/19) |
| Fisher's exact test for biased strand distribution p-value = 4.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.27e-01 |
GATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGC > NC_000913/2564430‑2564620
|
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTGCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGtt > 2:1075081/1‑100 (MQ=255)
gATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGtt > 2:1279956/1‑100 (MQ=255)
aaTATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCaa > 2:732039/1‑100 (MQ=255)
aaTATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCaa > 2:345926/1‑100 (MQ=255)
atTCGCGTCCGTGACGCTTACCCTCCACCAAGACGTGTGGTAACCGAACAACGGATTCTATGAAATGGGAGATAAAAATCATAAGTTACGAAATCAAAAt < 2:514960/100‑1 (MQ=255)
cccTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTg < 2:179934/100‑1 (MQ=255)
cTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCg > 1:648242/1‑100 (MQ=255)
tCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGAc < 1:122400/100‑1 (MQ=255)
ccGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTTACGAAATCAAAATTTGCGACa < 1:1164813/100‑1 (MQ=255)
ccGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACa > 1:617165/1‑100 (MQ=255)
ttACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAATTACGAAATCAAAATTTGCGACATcc > 2:825550/1‑100 (MQ=255)
cGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATACTCa > 2:765120/1‑100 (MQ=255)
ttACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAg > 1:955676/1‑100 (MQ=255)
ttACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAg < 2:1025897/100‑1 (MQ=255)
cccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgcg > 1:865015/1‑100 (MQ=255)
ccTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGgcgc > 2:635852/1‑100 (MQ=255)
ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc < 1:348061/100‑1 (MQ=255)
ccaccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc < 2:773865/100‑1 (MQ=255)
caccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGc > 2:819279/1‑99 (MQ=255)
caccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCg < 1:345929/100‑1 (MQ=255)
accaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGa > 1:453366/1‑100 (MQ=255)
ccaATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGAt < 1:1158169/100‑1 (MQ=255)
aaTACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATgg > 2:811410/1‑100 (MQ=255)
aaTACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATgg < 1:142812/100‑1 (MQ=255)
cgcgTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAgg > 2:920900/1‑100 (MQ=255)
gcgTGTTAACCTCCCAATGGATTGTATGAGATGGGAGATAAAAATCATAAGTTACGAAATTAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAg > 2:511823/1‑98 (MQ=255)
gtTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAat > 2:877837/1‑100 (MQ=255)
tAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAatat > 2:236949/1‑100 (MQ=255)
tAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAatat > 2:1230536/1‑100 (MQ=255)
ccTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAg > 2:228786/1‑100 (MQ=255)
ccTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAg > 1:61330/1‑100 (MQ=255)
cTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAgg < 1:680361/100‑1 (MQ=255)
tCCCAATGGATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAggg < 2:469591/100‑1 (MQ=255)
gATTCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAAc > 2:441530/1‑100 (MQ=255)
ttCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACg < 1:732044/99‑1 (MQ=255)
tCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTg < 1:839038/100‑1 (MQ=255)
tCTATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTg < 1:839062/100‑1 (MQ=255)
tATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTggg > 1:249529/1‑100 (MQ=255)
tATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTggg > 1:584346/1‑100 (MQ=255)
tATGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTggg < 2:893157/100‑1 (MQ=255)
tGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGc > 1:332598/1‑100 (MQ=255)
tGAGATGGGAGATAAAAATCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGc < 1:819372/100‑1 (MQ=255)
aaaTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGAt > 2:1153863/1‑100 (MQ=255)
aTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCg < 1:1279967/100‑1 (MQ=255)
aTCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCg > 1:1051024/1‑100 (MQ=255)
tCATAAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGc < 1:228788/100‑1 (MQ=255)
|
GATCTGCGTCAATATTCCCTTCCGTTACGCTTACCCTCCACCAATACGCGTGTTAACCTCCCAATGGATTCTATGAGATGGGAGATAAAAATCATGAGTTACGAAATCAAAATTTGCGACATCCTCAAAGGCGCTGCGATGGAAGGACAATATAAGGGCGCTCAACGTGGGGCCAAATGCGAGGAGATCGC > NC_000913/2564430‑2564620
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
