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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,824,362 |
A→T |
100% |
pseudogene (495/687 nt) |
rph → |
ECK3633:JW3618:b3643; ribonuclease PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,824,362 | 0 | A | T | 100.0%
| 185.4
/ NA
| 63 | pseudogene (495/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (31/32); total (31/32) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGA > W3110S.gb/3824295‑3824424
|
aGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAtt > 1:3641157/1‑71 (MQ=255)
aGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAtt > 1:2333468/1‑71 (MQ=255)
aGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTAt < 1:3849773/70‑1 (MQ=255)
tggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAAc < 1:3459786/71‑1 (MQ=255)
gCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGc > 1:3943012/1‑70 (MQ=255)
tGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGc > 1:610660/1‑71 (MQ=255)
aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg < 1:3496848/70‑1 (MQ=255)
aaaaCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg < 1:350950/70‑1 (MQ=255)
aCCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg < 1:3361217/67‑1 (MQ=255)
cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:1021298/71‑1 (MQ=255)
cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:2033232/71‑1 (MQ=255)
cAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGGCGGTATTGTAACCGGTGAAGCAATTTGCGATCTgg < 1:3730322/71‑1 (MQ=255)
cAACCCGATG‑AAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:1766045/70‑1 (MQ=255)
acccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGaa < 1:606789/69‑1 (MQ=255)
cccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg < 1:3612276/61‑1 (MQ=255)
ccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:211847/1‑62 (MQ=255)
ccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGAt > 1:2002473/1‑63 (MQ=255)
ccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGAt > 1:1648232/1‑63 (MQ=255)
ccGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGAt > 1:2570181/1‑63 (MQ=255)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta < 1:1766153/38‑2 (MQ=38)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta < 1:1326989/38‑2 (MQ=38)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta < 1:3038544/38‑2 (MQ=38)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATtgta < 1:2985767/38‑2 (MQ=38)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATa < 1:2110420/67‑1 (MQ=255)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATa < 1:4010269/67‑1 (MQ=255)
tGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGCAATa < 1:1312683/67‑1 (MQ=255)
gAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGtt > 1:3640234/1‑70 (MQ=255)
aaGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa < 1:695342/71‑1 (MQ=255)
gggATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGaa > 1:2627856/1‑60 (MQ=255)
gggATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGa > 1:3939322/1‑71 (MQ=255)
aTGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTgg < 1:2792880/55‑1 (MQ=255)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:3073153/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:2779632/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:3927718/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:2212050/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:3548620/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:93076/41‑2 (MQ=37)
tGGTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGca < 1:1062499/41‑2 (MQ=37)
gTAGCCTCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa < 1:550/63‑1 (MQ=255)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCg < 1:2418701/46‑1 (MQ=25)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa > 1:4070183/1‑63 (MQ=255)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa > 1:681364/1‑63 (MQ=255)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa > 1:3337982/1‑63 (MQ=255)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGaa > 1:3494366/1‑63 (MQ=255)
gTAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGc > 1:2409979/1‑71 (MQ=255)
tAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:841309/1‑46 (MQ=25)
tAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:1793118/1‑46 (MQ=25)
tAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGa > 1:1723619/1‑46 (MQ=25)
tAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGcc > 1:3556558/1‑71 (MQ=255)
tAGCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGcc > 1:3234946/1‑71 (MQ=255)
gCCGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCg < 1:363868/70‑1 (MQ=255)
ccGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCa < 1:3884274/71‑1 (MQ=255)
ccGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCa < 1:3462913/71‑1 (MQ=255)
cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCg > 1:975391/1‑68 (MQ=255)
ttCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGAcc > 1:3221884/1‑70 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGa > 1:3889590/1‑41 (MQ=19)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:2740603/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:107740/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:806512/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:1253759/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:2713519/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:1003676/1‑71 (MQ=255)
tCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa > 1:3724334/1‑71 (MQ=255)
|
AGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGA > W3110S.gb/3824295‑3824424
|
| 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
