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 |
423,948 |
C→T |
44.4% |
E316E (GAG→GAA) |
nagC ← |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 423,948 | 0 | C | T | 44.4%
| 10.3
/ 40.7
| 54 | E316E (GAG→GAA) | nagC | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base C (23/7); new base T (13/11); total (36/18) |
| Fisher's exact test for biased strand distribution p-value = 9.29e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 |
GCGGATTAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTC > minE/423890‑424016
|
gCGGATTAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACt < 1:2546939/68‑1 (MQ=255)
gCGGATTAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACt < 1:1589776/68‑1 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:1224392/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:127276/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:2140068/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:359384/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:2841774/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:2722717/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:3150095/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:2992403/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:1873873/60‑2 (MQ=255)
ttAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:3090353/60‑2 (MQ=255)
tAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATATTCAAtc < 1:3092996/59‑2 (MQ=255)
gCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGcc > 1:2257439/1‑68 (MQ=255)
gCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCt > 1:2375872/1‑69 (MQ=255)
gCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCt > 1:2831701/1‑69 (MQ=255)
gCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCt > 1:3310372/1‑69 (MQ=255)
gCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCt > 1:2639576/1‑69 (MQ=255)
aTGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTg > 1:2040861/1‑69 (MQ=255)
aTGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTg > 1:611437/1‑69 (MQ=255)
gagggTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcg > 1:1776778/4‑68 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:89124/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:2747669/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:2632527/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:2748706/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:279974/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:2831648/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:3256724/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:3260802/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:444162/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:713633/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcgc > 1:2583271/1‑69 (MQ=255)
gATGGTTTTACCCAGATGACGACCGACATATTCAATCACTTCCGAGGCCAGGCTATCGCCTTTGTTcg > 1:120051/1‑68 (MQ=255)
tGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCgg > 1:3352662/1‑69 (MQ=255)
tGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCgg > 1:250918/1‑69 (MQ=255)
tGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCgg > 1:2264083/1‑69 (MQ=255)
ttACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCgg > 1:768015/1‑64 (MQ=255)
tGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt > 1:2987232/1‑69 (MQ=255)
gacgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt > 1:14394/1‑68 (MQ=255)
gacgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt > 1:1354006/1‑68 (MQ=255)
gacgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt > 1:1248505/1‑68 (MQ=255)
acgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2835399/69‑1 (MQ=255)
acgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2321829/69‑1 (MQ=255)
acgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2324239/69‑1 (MQ=255)
acgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2513664/69‑1 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:852223/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:804161/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:2615373/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:2764638/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:470054/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:3432243/1‑69 (MQ=255)
accgacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:2662999/1‑69 (MQ=255)
cATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCgg < 1:228784/45‑1 (MQ=255)
aTACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTAGATGGTGCa > 1:1135707/1‑69 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGtt > 1:33088/1‑36 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:1449464/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:345287/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc < 1:1496774/42‑1 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc < 1:1745862/42‑1 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:628983/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:1929542/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:2845229/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:2129673/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGc > 1:2814588/1‑42 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgtc > 1:3312162/1‑69 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgtc > 1:166855/1‑69 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgtc > 1:1917738/1‑69 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgt > 1:1360210/1‑68 (MQ=255)
cTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgt > 1:576326/1‑68 (MQ=255)
|
GCGGATTAAATAAGTTGATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTC > minE/423890‑424016
|
| 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
