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 |
2,359,876 |
C→G |
41.6% |
noncoding (1219/2905 nt) |
rrlA ← |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,359,876 | 0 | C | G | 41.6%
| 156.7
/ 186.1
| 192 | noncoding (1219/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base C (87/7); new base G (65/10); total (160/32) |
| Fisher's exact test for biased strand distribution p-value = 3.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.72e-01 |
Only 100 of 192 total aligned reads displayed.
TATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTT > minE/2359822‑2359940
|
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:941792/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:1451251/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:3360407/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:2791972/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:1267829/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:2395271/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:1125299/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:3084566/1‑68 (MQ=11)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAgg > 1:1131114/1‑68 (MQ=11)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2604245/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:569405/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1217575/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:2427552/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:735322/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:149483/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:400037/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1682582/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:1371674/1‑68 (MQ=35)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:644065/68‑1 (MQ=255)
tCGTTACTTATGTCAGCATTCGCACTTCTGAGACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:3145594/1‑68 (MQ=25)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAGGCTTa < 1:340087/68‑1 (MQ=11)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAGGCTTa < 1:2862248/68‑1 (MQ=11)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAGGCTTa < 1:2288187/68‑1 (MQ=11)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAGGCTTAc > 1:2077053/1‑68 (MQ=11)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCAACCCTCACAGGCCACCTTCACAGGCTTAc > 1:2599404/1‑68 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:1397196/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:1366094/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:609084/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:1231974/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:1173309/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:3029088/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:3424697/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:3046725/60‑1 (MQ=11)
tATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:103759/60‑1 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGc > 1:2633202/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:2698356/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:2564163/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc < 1:1012203/69‑1 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc < 1:3261700/69‑1 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:154547/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:1333756/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc > 1:878108/1‑69 (MQ=35)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcc < 1:1145529/69‑1 (MQ=35)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcccc > 1:3245896/1‑69 (MQ=11)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACATTCACAGGCTTACAGAACGCTcacc > 1:1307533/1‑69 (MQ=11)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:2557774/1‑68 (MQ=255)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:1468303/1‑68 (MQ=255)
cGCACTTCTGATACCTCCAGCATGCCTCACTGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:1617826/1‑68 (MQ=255)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg > 1:2706018/1‑53 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:465190/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:485687/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:3332045/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:3266157/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:714963/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:648698/1‑68 (MQ=35)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:3218946/1‑68 (MQ=35)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:3316545/1‑67 (MQ=11)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:2037778/1‑67 (MQ=11)
cTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATa > 1:2510337/1‑65 (MQ=255)
cTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:1556064/1‑69 (MQ=255)
cTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:3108664/1‑69 (MQ=255)
cTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:3289554/1‑69 (MQ=255)
cTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:1757099/1‑69 (MQ=255)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:2807150/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:1795919/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:330571/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:1627691/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:782238/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:1893489/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:2643662/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:89436/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:2190161/1‑42 (MQ=14)
ccAGCAACCCTCACAGGCCACCTTCACAGGCTTACAGAACGc > 1:2151649/1‑42 (MQ=14)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:2477373/1‑69 (MQ=255)
cATGCCTCACAGCACACCTTCACAGGCGTACAGCACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:2218878/1‑69 (MQ=255)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:385253/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:2548108/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:10643/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:294518/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:1117140/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:1988576/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:3184260/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:1810867/3‑67 (MQ=17)
acccTCACAGGCCACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc > 1:1765904/3‑67 (MQ=17)
gCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGc < 1:1854423/69‑1 (MQ=255)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:1162133/1‑46 (MQ=38)
cacaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaacaa > 1:3384706/1‑46 (MQ=38)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:2351360/1‑39 (MQ=40)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:1958958/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:1025369/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:1284873/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:135390/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:1437157/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:1570986/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:2042850/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:2715672/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:2763092/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:2858436/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:2978748/1‑69 (MQ=255)
acaGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCtt > 1:3018668/1‑69 (MQ=255)
|
TATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCGCAGCTT > minE/2359822‑2359940
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
