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 |
2,713,572 |
A→G |
30.4% |
I263I (ATT→ATC) |
nirB ← |
nitrite reductase, large subunit, NAD(P)H‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,713,572 | 0 | A | G | 30.4%
| 74.0
/ 37.7
| 82 | I263I (ATT→ATC) | nirB | nitrite reductase, large subunit, NAD(P)H‑binding |
| Reads supporting (aligned to +/- strand): ref base A (24/33); new base G (14/11); total (38/44) |
| Fisher's exact test for biased strand distribution p-value = 3.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.43e-01 |
CATTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGCGGACG > minE/2713516‑2713631
|
cATTCACCGATGGCGTAGATATCCGTATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCAcg < 1:785391/68‑1 (MQ=255)
cATTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCAcg < 1:1195662/68‑1 (MQ=255)
cATTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCAcg < 1:1726519/68‑1 (MQ=255)
cATTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCAcg < 1:552212/68‑1 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1717911/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:2643480/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:2081316/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:2914001/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1975817/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:43805/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:51841/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:674329/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1589849/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1399015/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1388240/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1531136/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:1252598/1‑67 (MQ=255)
aTTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCAcg > 1:243918/1‑67 (MQ=255)
cACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGa > 1:2939817/1‑68 (MQ=255)
ccGATTGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:84649/68‑1 (MQ=255)
ccGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:2433336/68‑1 (MQ=255)
ccGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:2420086/68‑1 (MQ=255)
ccGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:1268211/68‑1 (MQ=255)
ccGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:333502/68‑1 (MQ=255)
ccGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:1190037/68‑1 (MQ=255)
gATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:2396073/57‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:2976942/68‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:2151579/68‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:208712/68‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:207206/68‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:3138167/68‑1 (MQ=255)
tatCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACca < 1:447488/68‑1 (MQ=255)
atCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACcaca > 1:2914705/1‑69 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:2616022/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:1097170/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:2706985/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:515519/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:791166/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:887489/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:90896/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:1472002/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:2265327/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:1648169/56‑1 (MQ=255)
ccGGATCGGAAGTCTGGCAGGAATCATTTATGACGATACCCCCACGCGGAGCAACg < 1:2538738/56‑1 (MQ=255)
cGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTg < 1:2093811/69‑1 (MQ=255)
aGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAg > 1:403707/1‑69 (MQ=255)
aGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAg > 1:1022963/1‑69 (MQ=255)
aGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAg > 1:1421586/1‑69 (MQ=255)
aGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAg > 1:452353/1‑69 (MQ=255)
gTCTTGCAGGAATCATTAATGACAATACCCCCACGCGGAGc < 1:3233622/41‑1 (MQ=255)
tCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCt < 1:822975/69‑1 (MQ=255)
tCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCt < 1:1878508/69‑1 (MQ=255)
tCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCt < 1:1989074/69‑1 (MQ=255)
cTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCt < 1:2497175/68‑1 (MQ=255)
tGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTa > 1:3081235/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1992323/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:2820135/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1827444/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:739262/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg < 1:902076/69‑1 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:632990/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1742218/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1373507/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1739165/1‑69 (MQ=255)
aaTCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATcgcgcg > 1:1682144/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:71010/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:1605414/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:418466/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:524593/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:1764228/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:2722188/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:2014278/1‑69 (MQ=255)
tCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcgga > 1:2834040/1‑69 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:2609711/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:2550228/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:1206712/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:2659475/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:532712/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:2677281/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:1822482/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:3302696/69‑1 (MQ=255)
aTTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGcggacg < 1:3106898/69‑1 (MQ=255)
|
CATTCACCGATGGCGTAGATATCCGGATCGGAAGTCTGGCAGGAATCATTAATGACAATACCCCCACGCGGAGCAACGTCCAGACCACACTGGGTTGCCAGCTTATCGCGCGGACG > minE/2713516‑2713631
|
| 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
