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 |
2,286,931 |
C→T |
62.8% |
P152P (CCG→CCA) |
argC ← |
N‑acetyl‑gamma‑glutamylphosphate reductase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,286,931 | 0 | C | T | 62.8%
| 31.1
/ 35.5
| 59 | P152P (CCG→CCA) | argC | N‑acetyl‑gamma‑glutamylphosphate reductase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (17/5); new base T (22/15); total (39/20) |
| Fisher's exact test for biased strand distribution p-value = 2.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
GAGGTCAAGAAGATCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGACCGTAG > minE/2286865‑2286991
|
gAGGTCAAGAAGATCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCgg > 1:1103126/1‑69 (MQ=255)
gAGGTCAAGAAGATCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCgg > 1:3186598/1‑69 (MQ=255)
gAGGTCAAGAAGATCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCgg > 1:3170284/1‑69 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATaaag > 1:1424902/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1713827/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:2460240/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:718995/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:872402/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:2497330/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:2571436/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:268451/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:641308/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1872846/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:281663/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1805164/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:2984344/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1647529/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1572715/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:1551126/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaag > 1:3428406/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaa > 1:482846/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaa > 1:258202/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaa > 1:3358785/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaa > 1:1112898/1‑68 (MQ=255)
tCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCaa > 1:1377326/1‑68 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:245206/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:3234805/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:1176309/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:3117192/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:3095463/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:3078080/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:1068179/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:2929654/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:950053/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:544889/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:1886862/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:688170/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:271149/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:532208/69‑1 (MQ=255)
atcaatcaACGGTTTCAGCGCCAGCTGTGCTGCCGTCGGATAACAGCCTGGCACGGCAATCAAGTTCGc < 1:2115201/69‑1 (MQ=255)
aatcaaCGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGcttc > 1:1972490/1‑69 (MQ=255)
aatcaaCGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGcttc > 1:3244726/1‑69 (MQ=255)
aatcaaCGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGcttc > 1:1071325/1‑69 (MQ=255)
caaCGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCa > 1:2194924/1‑56 (MQ=255)
caaCGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCa > 1:918793/1‑56 (MQ=255)
ttCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAAttt > 1:621768/1‑68 (MQ=255)
ttCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAAttt > 1:995849/1‑68 (MQ=255)
ttCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAAttt > 1:396870/1‑68 (MQ=255)
atCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAAttt > 1:2722005/2‑68 (MQ=255)
tCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATttat < 1:2814048/69‑1 (MQ=255)
tCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATttat < 1:2787722/69‑1 (MQ=255)
cgcCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCtttt < 1:534484/58‑1 (MQ=255)
cgcCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCtttt < 1:2001921/58‑1 (MQ=255)
cGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCtttt < 1:1813406/40‑1 (MQ=255)
tAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGAcc > 1:38202/1‑65 (MQ=255)
tAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGACCGTAg > 1:223440/1‑69 (MQ=255)
tAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGACCGTAg > 1:940097/1‑69 (MQ=255)
tAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGACCGTAg > 1:1699649/1‑69 (MQ=255)
tAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCAGCCAGACCGTAg > 1:2363374/1‑69 (MQ=255)
|
GAGGTCAAGAAGATCGGCATCAATCAACGGTTTCAGCGCCAGCTGTGCCGCCGTCGGATAACAGCCCGGCACCGCAATCAAATTCGCTTCTTTTAATTTATTACCGCACCACTCCGCCAGACCGTAG > minE/2286865‑2286991
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
