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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,707,088 |
T→C |
24.9% |
H96R (CAC→CGC) |
yphB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,707,088 | 0 | T | C | 24.9%
| 148.2
/ 46.0
| 125 | H96R (CAC→CGC) | yphB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (34/59); new base C (24/7); total (58/67) |
| Fisher's exact test for biased strand distribution p-value = 1.30e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.09e-01 |
Only 100 of 140 total aligned reads displayed.
TTACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATC > minE/1707026‑1707143
|
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:46744/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:3172951/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:1185779/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:1209724/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:2078093/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:1262358/68‑1 (MQ=255)
ttACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCgag < 1:1855154/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:641449/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:464605/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:588679/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:2504919/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:3002865/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:2335742/68‑1 (MQ=255)
ccGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:3293655/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:1836660/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:2538249/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:2644411/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:1003143/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:3078880/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:679054/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:700534/68‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATGTGCATAGACCAGACACAAACTATCATCGCTGTGCGAGacac < 1:2847347/67‑1 (MQ=255)
cGATAGTGATAGACACCGCTGCGATCTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:210285/68‑1 (MQ=255)
gATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGAcaca < 1:1919366/67‑1 (MQ=255)
tAGTGATAAACACCGCTGAGATGTTCATACACCAGACACAAGCTATCATCGCTGCGCGAGACACATTGc < 1:2666356/69‑1 (MQ=255)
tAGTGATAAACACCGCTGAGATGTTCATACACCAGACACAAGCTATCATCGCTGCGCGAGACACATTGc < 1:507764/69‑1 (MQ=255)
tAGTGATAAACACCGCTGAGATGTTCATACACCAGACACAAGCTATCATCGCTGCGCGAGACACATTGc < 1:401521/69‑1 (MQ=255)
aGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCg < 1:1664555/68‑1 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2869830/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2996514/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:3349733/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2500704/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:251454/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2414976/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2351151/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:364370/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2331494/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:272944/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:50941/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2220828/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:871035/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:2091840/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:1785264/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:966177/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:1112239/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:1119431/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:1707165/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCcca > 1:1626135/1‑67 (MQ=255)
ccGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTCCGAGACACATTGCCACTCGCcca > 1:1765849/1‑67 (MQ=255)
cGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGGGCGAGAcaca < 1:160136/52‑1 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2631757/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:1328951/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2929578/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2883195/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:1466124/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2702372/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:1638175/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2530992/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:1965604/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2454554/1‑41 (MQ=255)
gCTGCGATGTTCATACACCAGACACAAACTATCATCGCtgt > 1:2145725/1‑41 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGcc > 1:1240862/1‑64 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGcc > 1:2128303/1‑64 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:3199790/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:479002/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:3405830/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:3408903/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:827053/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:650320/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:431721/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:589254/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:257763/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:2975125/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:1729313/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:1842155/1‑65 (MQ=255)
acacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:2776716/1‑65 (MQ=255)
aaacCAGACACAAGCTATCATCGCTGCGCGAGACACATTGCCACTCGCCCAACCAGCCATCGCCg > 1:358920/3‑65 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCATCCAGCCATCGCCGTGTAGATAg < 1:864330/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:3153017/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:972974/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:1512909/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:2223151/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:2272111/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:2275691/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:262821/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:401098/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:2966859/69‑1 (MQ=255)
aGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAg < 1:3173154/69‑1 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCGTCGCCGTGTAGATAGTGCGCAt > 1:2809766/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:1001229/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:2223367/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:615729/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:1702347/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:3323650/1‑69 (MQ=255)
aaCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCAt > 1:1009052/1‑69 (MQ=255)
aCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATc < 1:16213/69‑1 (MQ=255)
aCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATc < 1:3008822/69‑1 (MQ=255)
aCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATc < 1:1430342/69‑1 (MQ=255)
aCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATc < 1:1426023/69‑1 (MQ=255)
aCTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATc < 1:1290987/69‑1 (MQ=255)
|
TTACCCGATAGTGATAGACACCGCTGCGATGTTCATACACCAGACACAAACTATCATCGCTGTGCGAGACACATTGCCACTCGCCCAGCCAGCCATCGCCGTGTAGATAGTGCGCATC > minE/1707026‑1707143
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
