Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 50
Found at i:9531065 original size:4 final size:4
Alignment explanation
Indices: 9531056--9533175 Score: 4107
Period size: 4 Copynumber: 534.8 Consensus size: 4
9531046 TTTGCAAAAG
9531056 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531104 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531152 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531200 C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531246 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531294 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531342 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531390 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531438 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531486 CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531532 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531580 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531627 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531673 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531721 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531769 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531817 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531865 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531913 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9531961 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532009 CAT- CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532056 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532104 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532152 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532200 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532248 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532296 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532344 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532392 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532440 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532486 CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532532 CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532578 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532624 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532670 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532718 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532766 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532814 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532862 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532910 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9532958 CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9533005 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9533053 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9533101 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9533149 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
9533176 TAAATTAGTT
Statistics
Matches: 2097, Mismatches: 0, Indels: 38
0.98 0.00 0.02
Matches are distributed among these distances:
2 16 0.01
3 9 0.00
4 2072 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:9534272 original size:20 final size:20
Alignment explanation
Indices: 9534243--9534332 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
9534233 TGATGAGAGT
9534243 AGTATCGATACTCTAGGCTG
1 AGTATCGATACTCTAGGCTG
* *
9534263 AGTATTGATACTCTAGGCTA
1 AGTATCGATACTCTAGGCTG
* *
9534283 AGTATCAATACTCTAGTG-TT
1 AGTATCGATACTCTAG-GCTG
* *
9534303 AGATATTGATA--CTAGACTG
1 AG-TATCGATACTCTAGGCTG
9534322 AGTATCGATAC
1 AGTATCGATAC
9534333 CAAAATTGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 7 0.12
19 7 0.12
20 35 0.62
21 7 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCTAGGCTG
Found at i:9536970 original size:18 final size:20
Alignment explanation
Indices: 9536947--9536985 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9536937 CTTTATCTTA
9536947 ATTTTAT-TTA-ATAAAAAT
1 ATTTTATATTATATAAAAAT
9536965 ATTTTATATTATATAAAAAT
1 ATTTTATATTATATAAAAAT
9536985 A
1 A
9536986 ATTCATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 3 0.16
20 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTATATTATATAAAAAT
Found at i:9540455 original size:4 final size:4
Alignment explanation
Indices: 9540446--9541017 Score: 418
Period size: 4 Copynumber: 146.2 Consensus size: 4
9540436 TTAAAATTTG
* * * * * *
9540446 GAGA GAGA GAGA GGGA GAGA GAGA GAGG GGGA GAGA GAGA GGGG GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
9540494 GAGA GAGA GGGA GAGA GAGA GAGG GAGG GAGA GAGA GAGA GAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
9540542 GA-A G-GA GAGA GAGG GAGA G-GG GAGA GGGG GAGA GAGA GAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
9540587 GAGA GAG- GGGA GAGA GAGA GGGG GAGA GGGA GGGA GAGG GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
9540634 GAGG GAGA GGGA GAGG GGGA G-GA GAGA G-GA GAGA GAG- GGGA GGGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
9540679 GAGA GGGA GAGG GAGA GGGA GAGG GAGG GAGG GAGG GAGA GATG- GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA
* * * * * * *
9540727 GAGA GGGA GAGA GGGA GGGA GATA TAGA GAGG GAGA GAGA G-GA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
9540774 GAGA GAGA GAGA GGGA GAGA GAGA G-GA -AGA GGGA GGGA GAGG GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * *
9540820 GATA GAGA GAGA GGGA GAGA GAGA GAG- GTAGG GAGA GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA G-AGA GAGA GAGA GAGA GAGA
* *
9540868 GAGA GAG- GA-A GAGG GAGA GAGA GAGA GAGA GAGG GAGA G-GA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
9540913 GAGA GAGA GAGA GGGA GAGA GGGA GAGG GAGG GAGG GAGA GGGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
9540961 GAGA GGGA GAGG GAGA GGGA GGGA GGGA GGGA GGGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
9541009 GAGA GAGA G
1 GAGA GAGA G
9541018 GGGGGGGGGG
Statistics
Matches: 451, Mismatches: 100, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
3 31 0.07
4 418 0.93
5 2 0.00
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (4 bp):
GAGA
Found at i:9540457 original size:6 final size:6
Alignment explanation
Indices: 9540446--9541017 Score: 418
Period size: 6 Copynumber: 97.5 Consensus size: 6
9540436 TTAAAATTTG
* * * * * *
9540446 GAGAGA GAGAGA GGGAGA GAGAGA GAGGGG GAGAGA GAGAGG GGGGGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * *
9540494 GAGAGA GAGGGA GAGAGA GAGAGG GAGGGA GAGAGA GAGAGA GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * *
9540542 GA-AG- GAGAGA GAGGGA GAG-GG GAGAGG GGGAGA GAGAGA GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * *
9540587 GAGAGA G-GGGA GAGAGA GAGGGG GAGAGG GAGGGA GAGGGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
9540634 GAGGGA GAGGGA GAGGGG GAG-GA GAGAG- GAGAGA GAG-GG GAGGGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
9540679 GAGAGG GAGAGG GAGAGG GAGAGG GAGGGA GGGAGG GAGAGA TG-GAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA -GAGAGA
* * * * * * *
9540727 GAGAGG GAGAGA GGGAGG GAGATA TAGAGA GGGAGA GAGAG- GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * *
9540774 GAGAGA GAGAGA GGGAGA GAGAGA G-GA-A GAGGGA GGGAGA GGGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * *
9540820 GATAGA GAGAGA GGGAGA GAGAGA GAG-GTA GGGAGA GAGAGG GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAG-A GAGAGA GAGAGA GAGAGA
* *
9540868 GAGAGA G-GA-A GAGGGA GAGAGA GAGAGA GAGAGG GAGAG- GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
9540913 GAGAGA GAGAGA GGGAGA GAGGGA GAGGGA GGGAGG GAGAGG GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
9540961 GAGAGG GAGAGG GAGAGG GAGGGA GGGAGG GAGGGA GAGAGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
9541009 GAGAGA GAG
1 GAGAGA GAG
9541018 GGGGGGGGGG
Statistics
Matches: 455, Mismatches: 94, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
4 6 0.01
5 43 0.09
6 404 0.89
7 2 0.00
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (6 bp):
GAGAGA
Found at i:9540463 original size:12 final size:12
Alignment explanation
Indices: 9540448--9541019 Score: 466
Period size: 12 Copynumber: 48.1 Consensus size: 12
9540438 AAAATTTGGA
9540448 GAGAGAGAGAGG
1 GAGAGAGAGAGG
9540460 GAGAGAGAGAGAG
1 GAGAGAGAGAG-G
9540473 G-G-G-GAGA--
1 GAGAGAGAGAGG
* *
9540480 GAGAGAGGGGGG
1 GAGAGAGAGAGG
9540492 GAGAGAGAGAGGG
1 GAGAGAGAGA-GG
9540505 AGAGAGAGAGAGG
1 -GAGAGAGAGAGG
* *
9540518 GAGGGAGAGAGA
1 GAGAGAGAGAGG
9540530 GAGAGAGAGAGG
1 GAGAGAGAGAGG
9540542 GAAGGAGAGAGAGG
1 G-A-GAGAGAGAGG
*
9540556 GAGAGGGGAGAGGGG
1 GAGA---GAGAGAGG
*
9540571 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
9540583 GAGGGAGAGAGG
1 GAGAGAGAGAGG
9540595 G-GAGAGAGAGAG
1 GAGAGAGAGAG-G
9540607 G-G-G-GAGAGG
1 GAGAGAGAGAGG
9540616 GAG-G-GAGAGG
1 GAGAGAGAGAGG
9540626 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
9540638 GAGAGGGAGAGG
1 GAGAGAGAGAGG
*
9540650 GGGAG-GAGAGAG
1 GAGAGAGAGAG-G
9540662 GAGAGAGAG-GG
1 GAGAGAGAGAGG
* *
9540673 GAGGGGGAGAGG
1 GAGAGAGAGAGG
*
9540685 GAGAGGGAGAGG
1 GAGAGAGAGAGG
9540697 GAGAG-G-GAGG
1 GAGAGAGAGAGG
* * *
9540707 GAGGGAGGGAGA
1 GAGAGAGAGAGG
9540719 GATGGAGAGAGAGG
1 GA--GAGAGAGAGG
*
9540733 GAGAGAGGGAGG
1 GAGAGAGAGAGG
* *
9540745 GAGATATAGAGAG
1 GAGAGAGAGAG-G
9540758 G-GAGAGAGA-G
1 GAGAGAGAGAGG
9540768 GAGAG-G-GA--
1 GAGAGAGAGAGG
9540776 GAGAGAGAGAGG
1 GAGAGAGAGAGG
9540788 GAGAGAGAGA-G
1 GAGAGAGAGAGG
*
9540799 GA-AGAGGGAGG
1 GAGAGAGAGAGG
9540810 GAGAG-G-GAGG
1 GAGAGAGAGAGG
9540820 GATAGAGAGAGAGG
1 G--AGAGAGAGAGG
9540834 GAGAGAGAGAGAG
1 GAGAGAGAGAG-G
9540847 GTAGGGAGAGAGAGG
1 G-A--GAGAGAGAGG
9540862 GAGAGAGAGAGAG
1 GAGAGAGAGAG-G
*
9540875 GAAGAGGGAGAGAGA
1 G-AGA--GAGAGAGG
9540890 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
9540902 GAGAGGAGAGAGA
1 GAGA-GAGAGAGG
9540915 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
9540927 GAGAGAGGGAGAG
1 GAGAGAGAGAG-G
9540940 G-GAG-G-GAGG
1 GAGAGAGAGAGG
*
9540949 GAGAGGGAGAGG
1 GAGAGAGAGAGG
*
9540961 GAGAGGGAGAGG
1 GAGAGAGAGAGG
9540973 GAGAG-G-GAGG
1 GAGAGAGAGAGG
* *
9540983 GAGGGAGGGAGG
1 GAGAGAGAGAGG
*
9540995 GAGAGAGAGAGA
1 GAGAGAGAGAGG
9541007 GAGAGAGAGAGG
1 GAGAGAGAGAGG
9541019 G
1 G
9541020 GGGGGGGGTA
Statistics
Matches: 467, Mismatches: 42, Indels: 102
0.76 0.07 0.17
Matches are distributed among these distances:
7 1 0.00
8 6 0.01
9 8 0.02
10 60 0.13
11 40 0.09
12 248 0.53
13 31 0.07
14 43 0.09
15 14 0.03
16 16 0.03
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.01
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:9540464 original size:14 final size:14
Alignment explanation
Indices: 9540445--9541019 Score: 567
Period size: 14 Copynumber: 42.1 Consensus size: 14
9540435 TTTAAAATTT
9540445 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540459 GGAGAGAGAGAGAGGG
1 GGAGAGAGAGAGA--G
*
9540475 GGAGAGAGAGAGGG
1 GGAGAGAGAGAGAG
*
9540489 GGGGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540503 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540517 GGAG-G-GAGAGA-
1 GGAGAGAGAGAGAG
9540528 -GAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540541 GGA-AGGAGAGAGAG
1 GGAGA-GAGAGAGAG
*
9540555 GGAGAG-GGGAGAG
1 GGAGAGAGAGAGAG
*
9540568 GGGGAGAGAGAGAG
1 GGAGAGAGAGAGAG
* *
9540582 AGAGGGAGAGAG-G
1 GGAGAGAGAGAGAG
*
9540595 GGAGAGAGAGAGGG
1 GGAGAGAGAGAGAG
* *
9540609 GGAGAGGGAGGGAG
1 GGAGAGAGAGAGAG
9540623 AGG-GAGAGAGAGAG
1 -GGAGAGAGAGAGAG
9540637 GGAGAG-G-GAGAG
1 GGAGAGAGAGAGAG
*
9540649 GGGGAG-GAGAGA-
1 GGAGAGAGAGAGAG
*
9540661 GGAGAGAGAGGGGAG
1 GGAGAGAGA-GAGAG
* *
9540676 GGGGAGAGGGAGAG
1 GGAGAGAGAGAGAG
9540690 GGAGAG-G-GAGAG
1 GGAGAGAGAGAGAG
*
9540702 GGAG-G-GAGGGAG
1 GGAGAGAGAGAGAG
9540714 GGAGAGATGGAGAGAG
1 GGAGAGA--GAGAGAG
*
9540730 AGG-GAGAGAGGGAG
1 -GGAGAGAGAGAGAG
* *
9540744 GGAGATATAGAGAG
1 GGAGAGAGAGAGAG
9540758 GGAGAGAGAGGAGAG
1 GGAGAGAGA-GAGAG
9540773 GGAGAGAGAGAGAGG
1 GGAGAGAGAGAGA-G
9540788 GAGAGAGAGAGGAAGAG
1 G-GAGAGAGA-G-AGAG
* *
9540805 GGAGGGAGAGGGAG
1 GGAGAGAGAGAGAG
*
9540819 GGATAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540833 GGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
* *
9540847 GTAGGGAGAGAGAG
1 GGAGAGAGAGAGAG
9540861 GGAGAGAGAGAGA-
1 GGAGAGAGAGAGAG
*
9540874 GGA-AGAGGGAGAG
1 GGAGAGAGAGAGAG
*
9540887 AGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9540901 GGAGAG-GAGAGA-
1 GGAGAGAGAGAGAG
9540913 -GAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
*
9540926 GGAGAGAGGGAGAG
1 GGAGAGAGAGAGAG
* *
9540940 GGAGGGAGGGAGAG
1 GGAGAGAGAGAGAG
9540954 GGAGAG-G-GAGAG
1 GGAGAGAGAGAGAG
9540966 GGAGAG-G-GAGAG
1 GGAGAGAGAGAGAG
*
9540978 GGAG-G-GAGGGAG
1 GGAGAGAGAGAGAG
*
9540990 GGAGGGAGAGAGAG
1 GGAGAGAGAGAGAG
*
9541004 AGAGAGAGAGAGAG
1 GGAGAGAGAGAGAG
9541018 GG
1 GG
9541020 GGGGGGGGTA
Statistics
Matches: 471, Mismatches: 54, Indels: 72
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.01
11 10 0.02
12 88 0.19
13 50 0.11
14 247 0.52
15 27 0.06
16 38 0.08
17 5 0.01
18 3 0.01
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.01
Consensus pattern (14 bp):
GGAGAGAGAGAGAG
Found at i:9558736 original size:24 final size:24
Alignment explanation
Indices: 9558715--9558769 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
9558705 GAATGTTCGG
9558715 TTATGTTCGTTTATATGCGTTCAA
1 TTATGTTCGTTTATATGCGTTCAA
* *
9558739 TTATGTTCGTTTATGTGCGTTCAT
1 TTATGTTCGTTTATATGCGTTCAA
9558763 TTATGTT
1 TTATGTT
9558770 TAACATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (24 bp):
TTATGTTCGTTTATATGCGTTCAA
Found at i:9561549 original size:10 final size:10
Alignment explanation
Indices: 9561534--9561608 Score: 70
Period size: 10 Copynumber: 7.7 Consensus size: 10
9561524 GGGTCTCCAA
9561534 CGTTTATGTT
1 CGTTTATGTT
9561544 CGTTTATGTT
1 CGTTTATGTT
9561554 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
9561565 ATGTTTGTGTT
1 -CGTTTATGTT
9561576 CGTTTATGTT
1 CGTTTATGTT
9561586 CG----TGTT
1 CGTTTATGTT
9561592 CGTTTATGTT
1 CGTTTATGTT
9561602 CGTTTAT
1 CGTTTAT
9561609 TTATTAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
6 6 0.11
10 35 0.66
11 8 0.15
12 4 0.08
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:9561565 original size:16 final size:16
Alignment explanation
Indices: 9561540--9561604 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
9561530 CCAACGTTTA
9561540 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
9561556 TGTTCATTTATGTTTG
1 TGTTCGTTTATGTTCG
9561572 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
9561588 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
9561604 T
1 T
9561605 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:9561585 original size:26 final size:26
Alignment explanation
Indices: 9561534--9561608 Score: 69
Period size: 32 Copynumber: 2.7 Consensus size: 26
9561524 GGGTCTCCAA
*
9561534 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTATGTTCATGTT
* *
9561560 CATTTATGTTTGTGTTCGTTTATGTTCGTGTT
1 C------GTTTATGTTCGTTTATGTTCATGTT
9561592 CGTTTATGTTCGTTTAT
1 CGTTTATGTTCGTTTAT
9561609 TTATTAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
26 16 0.39
32 25 0.61
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (26 bp):
CGTTTATGTTCGTTTATGTTCATGTT
Found at i:9561695 original size:16 final size:16
Alignment explanation
Indices: 9561674--9561705 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9561664 AAAAAAAATT
9561674 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
9561690 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
9561706 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:9565897 original size:20 final size:20
Alignment explanation
Indices: 9565872--9565922 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
9565862 ATTCTTTGAA
9565872 TGTGCATCGATTCACTCTGC
1 TGTGCATCGATTCACTCTGC
9565892 TGTGCATCGATTCACTCTGC
1 TGTGCATCGATTCACTCTGC
9565912 TGTGCATCGAT
1 TGTGCATCGAT
9565923 GCACACGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (20 bp):
TGTGCATCGATTCACTCTGC
Found at i:9568226 original size:13 final size:13
Alignment explanation
Indices: 9568197--9568229 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9568187 GGGGAGTAAT
*
9568197 TTTTCAAAATTGA
1 TTTTCAAAAATGA
9568210 -TTTCAAAAATGA
1 TTTTCAAAAATGA
9568222 TTTTCAAA
1 TTTTCAAA
9568230 GAAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:9571903 original size:6 final size:6
Alignment explanation
Indices: 9571883--9571925 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
9571873 GTTTTACTTG
* *
9571883 TTTCTT TCTCTTT TTTCTT TTTCTT TTTCTT GTTTCCT TTTCT
1 TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT -TTTCTT TTTCT
9571926 CTTATGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:9571905 original size:19 final size:19
Alignment explanation
Indices: 9571883--9571925 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9571873 GTTTTACTTG
* *
9571883 TTTCTTTCTCTTTTTTCTT
1 TTTCTTTCTCTTGTTTCCT
*
9571902 TTTCTTTTTCTTGTTTCCT
1 TTTCTTTCTCTTGTTTCCT
9571921 TTTCT
1 TTTCT
9571926 CTTATGACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTCTTTCTCTTGTTTCCT
Found at i:9571918 original size:13 final size:12
Alignment explanation
Indices: 9571883--9571925 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
9571873 GTTTTACTTG
*
9571883 TTTCTTTCTCTTT
1 TTTCTTTTTC-TT
9571896 TTTCTTTTTCTT
1 TTTCTTTTTCTT
*
9571908 TTTCTTGTTTCCT
1 TTTCTT-TTTCTT
9571921 TTTCT
1 TTTCT
9571926 CTTATGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:9580852 original size:21 final size:22
Alignment explanation
Indices: 9580818--9580897 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
9580808 TGGTGCAGAT
9580818 GGAATCGA-TCCCCCCATGA-G
1 GGAATCGATTCCCCCCATGAGG
**
9580838 GGAATCGATTCCCCCTTTGAAGG
1 GGAATCGATTCCCCCCATG-AGG
* *
9580861 GGAACCGATTCCCCCCA-CAGG
1 GGAATCGATTCCCCCCATGAGG
*
9580882 GGAATCGATACCCCCC
1 GGAATCGATTCCCCCC
9580898 TGGGGTTCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.16
21 25 0.51
22 1 0.02
23 15 0.31
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (22 bp):
GGAATCGATTCCCCCCATGAGG
Found at i:9585115 original size:4 final size:4
Alignment explanation
Indices: 9585106--9585144 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
9585096 ATACGAATCA
9585106 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
9585145 AAGAATTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:9586162 original size:2 final size:2
Alignment explanation
Indices: 9586155--9586219 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
9586145 TTGTTCCAAG
9586155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9586197 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
9586220 TTGAAAATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9586350 original size:46 final size:47
Alignment explanation
Indices: 9586236--9586350 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 47
9586226 ATAAATATAG
* *
9586236 ATATTATAAATATTTTTTGAAAA-TATAGTTTTTAAAAATGTGTATAAT
1 ATATTAT-AATATTTTTTAAAAATTATAGTTTTGAAAAA-GTGTATAAT
* * *
9586284 ATA-TATAAT-TTTTTAAAAAATTTTGGTTTTGAAAAA-T-TATAAT
1 ATATTATAATATTTTTTAAAAATTATAGTTTTGAAAAAGTGTATAAT
*
9586327 ATATTATATATATTTTTTCAAAAT
1 ATATTATA-ATATTTTTTAAAAAT
9586351 ACATAGAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
43 9 0.16
44 5 0.09
45 11 0.20
46 25 0.45
47 3 0.05
48 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (47 bp):
ATATTATAATATTTTTTAAAAATTATAGTTTTGAAAAAGTGTATAAT
Found at i:9586376 original size:46 final size:43
Alignment explanation
Indices: 9586228--9586386 Score: 117
Period size: 48 Copynumber: 3.5 Consensus size: 43
9586218 ATTTGAAAAT
* * * *
9586228 AAATATAGATATTATAAATATTTTTTGAAAAT-ATAGTTTTTAA
1 AAATATATATATTATATATATTTTTT-AAAATAATAGGTTTTGA
* * * *
9586271 AAATGTGTATAATATATATAATTTTTTAAAA-AATTTTGGTTTTGAA
1 AAATATATATATTATATAT-ATTTTTTAAAATAA--TAGGTTTTG-A
9586317 AAATTATAATATATTATATATATTTTTTCAAAATACATAGAGTTTTGA
1 AAA-TAT-ATATATTATATATATTTTTT-AAAATA-ATAG-GTTTTGA
*
9586365 AAATATTTATA-TATAGTATATT
1 AAATATATATATTATA-TATATT
9586387 ATAAAATATA
Statistics
Matches: 91, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
43 19 0.21
44 7 0.08
45 10 0.11
46 14 0.15
47 12 0.13
48 21 0.23
49 7 0.08
50 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (43 bp):
AAATATATATATTATATATATTTTTTAAAATAATAGGTTTTGA
Found at i:9586436 original size:3 final size:3
Alignment explanation
Indices: 9586430--9586498 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
9586420 ATATAATATA
* *
9586430 TAT TAT TAT TAT GGT-T TAT TAT TAT TACA TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT --TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * *
9586477 TAT TTT TAT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
9586499 TTCATGTTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 1 0.02
3 47 0.90
4 3 0.06
5 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9587018 original size:21 final size:21
Alignment explanation
Indices: 9586994--9587033 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9586984 CAATAAAATG
*
9586994 GGCAAAAATCAAACCAAATCA
1 GGCAAAAACCAAACCAAATCA
* *
9587015 GGCAACAACCAAATCAAAT
1 GGCAAAAACCAAACCAAAT
9587034 GGAAATAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.25, G:0.10, T:0.10
Consensus pattern (21 bp):
GGCAAAAACCAAACCAAATCA
Found at i:9589685 original size:31 final size:31
Alignment explanation
Indices: 9589647--9589727 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
9589637 AGGTTCAAGG
*
9589647 GTTTACCTATGTTCTTCGGGATATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATAGACT
* *
9589678 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATAGACT
* *
9589709 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
9589728 AATCTATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATAGACT
Found at i:9595388 original size:20 final size:21
Alignment explanation
Indices: 9595341--9595391 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9595331 CTACTAGCAT
*
9595341 AGTATCGATATTGATTCAATG
1 AGTATCGATATTGAGTCAATG
*
9595362 GGTATCGATATTG-GTC-ATG
1 AGTATCGATATTGAGTCAATG
9595381 CAGTATCGATA
1 -AGTATCGATA
9595392 CTCTCCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 11 0.42
21 12 0.46
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (21 bp):
AGTATCGATATTGAGTCAATG
Found at i:9597383 original size:13 final size:13
Alignment explanation
Indices: 9597365--9597389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9597355 TATTTGAATA
9597365 TTTGGATATTTGT
1 TTTGGATATTTGT
9597378 TTTGGATATTTG
1 TTTGGATATTTG
9597390 GTTGTTTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
TTTGGATATTTGT
Found at i:9597840 original size:18 final size:18
Alignment explanation
Indices: 9597803--9597840 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9597793 TTTTAAGATT
*
9597803 TTATATTCGATTTAAATA
1 TTATATTCGATTCAAATA
*
9597821 TTATATTCGATTCAATTA
1 TTATATTCGATTCAAATA
9597839 TT
1 TT
9597841 GGAATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTCGATTCAAATA
Found at i:9598072 original size:18 final size:18
Alignment explanation
Indices: 9598046--9598080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9598036 ATCGAATGCA
*
9598046 AAAGAGTATTGATACCCT
1 AAAGAGTATCGATACCCT
*
9598064 AAAGGGTATCGATACCC
1 AAAGAGTATCGATACCC
9598081 CTTTATATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (18 bp):
AAAGAGTATCGATACCCT
Found at i:9601684 original size:19 final size:21
Alignment explanation
Indices: 9601661--9601706 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
9601651 AATATTTTTT
9601661 TATTAAAAAATTT-ATTTCTA
1 TATTAAAAAATTTAATTTCTA
* *
9601681 -ATT-ATAAATTTAATTTTTA
1 TATTAAAAAATTTAATTTCTA
9601700 TATTAAA
1 TATTAAA
9601707 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 5
0.71 0.11 0.18
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 3 0.15
21 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAAAAAATTTAATTTCTA
Found at i:9601855 original size:20 final size:20
Alignment explanation
Indices: 9601814--9601855 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9601804 TATTTTCTAT
*
9601814 TATTTTTATTACAAATATGA
1 TATTTTTATTACAAATAAGA
*
9601834 TATTTTTATTACAAGTAAGA
1 TATTTTTATTACAAATAAGA
9601854 TA
1 TA
9601856 CGTAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTTTTATTACAAATAAGA
Found at i:9607652 original size:17 final size:17
Alignment explanation
Indices: 9607630--9607665 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9607620 ACATATCCTT
9607630 GTAAAAATCCATGACAA
1 GTAAAAATCCATGACAA
9607647 GTAAAAATCCATGACAA
1 GTAAAAATCCATGACAA
9607664 GT
1 GT
9607666 TGATTAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (17 bp):
GTAAAAATCCATGACAA
Found at i:9610045 original size:6 final size:6
Alignment explanation
Indices: 9610032--9610112 Score: 99
Period size: 6 Copynumber: 13.5 Consensus size: 6
9610022 CCATATTAAT
* * * * * * *
9610032 TTATTA TAATTA TAATTA TAATTA TCATTA TTATAA TTATTA TAAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
9610080 TTATTA TTATTA TTATTA TTATTA TTATTA TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTA
9610113 AATACATTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (6 bp):
TTATTA
Found at i:9610070 original size:9 final size:9
Alignment explanation
Indices: 9610032--9610112 Score: 99
Period size: 9 Copynumber: 9.0 Consensus size: 9
9610022 CCATATTAAT
*
9610032 TTATTATAA
1 TTATTATTA
*
9610041 TTATAATTA
1 TTATTATTA
* *
9610050 TAATTATCA
1 TTATTATTA
*
9610059 TTATTATAA
1 TTATTATTA
*
9610068 TTATTATAA
1 TTATTATTA
*
9610077 ATATTATTA
1 TTATTATTA
9610086 TTATTATTA
1 TTATTATTA
9610095 TTATTATTA
1 TTATTATTA
9610104 TTATTATTA
1 TTATTATTA
9610113 AATACATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATTATTA
Found at i:9610132 original size:9 final size:9
Alignment explanation
Indices: 9610060--9610134 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
9610050 TAATTATCAT
*
9610060 TATTATAAT
1 TATTATAAA
9610069 TATTATAAA
1 TATTATAAA
* *
9610078 TATTATTAT
1 TATTATAAA
* *
9610087 TATTATTAT
1 TATTATAAA
* *
9610096 TATTATTAT
1 TATTATAAA
9610105 TATTATTAAA
1 TATTA-TAAA
*
9610115 TA-CATTAAA
1 TATTA-TAAA
9610124 TATTATAAA
1 TATTATAAA
9610133 TA
1 TA
9610135 ATAATAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
9 52 0.91
10 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTATAAA
Found at i:9610483 original size:19 final size:17
Alignment explanation
Indices: 9610459--9610497 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9610449 ACAGAGACAA
9610459 AGAAAGACAGAAAATACAC
1 AGAAAGA-AGAAAA-ACAC
*
9610478 AGAAAGAAGAGAAACAC
1 AGAAAGAAGAAAAACAC
9610495 AGA
1 AGA
9610498 GAAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.64, C:0.13, G:0.21, T:0.03
Consensus pattern (17 bp):
AGAAAGAAGAAAAACAC
Found at i:9610500 original size:19 final size:19
Alignment explanation
Indices: 9610459--9610501 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9610449 ACAGAGACAA
*
9610459 AGAAAGACAGAAAATACAC
1 AGAAAGACAGAAAACACAC
*
9610478 AGAAAGA-AGAGAAACACAG
1 AGAAAGACAGA-AAACACAC
9610497 AGAAA
1 AGAAA
9610502 TCAAATACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.65, C:0.12, G:0.21, T:0.02
Consensus pattern (19 bp):
AGAAAGACAGAAAACACAC
Found at i:9622535 original size:14 final size:13
Alignment explanation
Indices: 9622516--9622596 Score: 87
Period size: 14 Copynumber: 6.1 Consensus size: 13
9622506 TATTATGCTT
9622516 GAAGAAAAAAAAGA
1 GAAGAAAAAAAA-A
9622530 GAAGAAAGAAAAAA
1 GAAGAAA-AAAAAA
9622544 GAAAGAAAAAAAAA
1 G-AAGAAAAAAAAA
*
9622558 GGAA-AAAAAGAAA
1 -GAAGAAAAAAAAA
9622571 G-AGAAAAAAAAA
1 GAAGAAAAAAAAA
9622583 GAA-AAAAGAAAAA
1 GAAGAAAA-AAAAA
9622596 G
1 G
9622597 GGGGTCAAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
11 1 0.02
12 14 0.24
13 15 0.25
14 17 0.29
15 12 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAAAAA
Found at i:9622545 original size:11 final size:11
Alignment explanation
Indices: 9622531--9622593 Score: 83
Period size: 11 Copynumber: 5.5 Consensus size: 11
9622521 AAAAAAAGAG
9622531 AAGAAAGAAAA
1 AAGAAAGAAAA
9622542 AAGAAAGAAAA
1 AAGAAAGAAAA
9622553 AA-AAAGGAAAAA
1 AAGAAA-G-AAAA
9622565 AAGAAAGAGAAA
1 AAGAAAGA-AAA
*
9622577 AAAAAAGAAAA
1 AAGAAAGAAAA
9622588 AAGAAA
1 AAGAAA
9622594 AAGGGGGTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
10 3 0.07
11 23 0.50
12 17 0.37
13 3 0.07
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:9622556 original size:30 final size:27
Alignment explanation
Indices: 9622520--9622595 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 27
9622510 ATGCTTGAAG
9622520 AAAAAAAAGAGAAGAAAGAAAAAAGAAAGA
1 AAAAAAAAGAGAA-AAAGAAAAAAG--AGA
*
9622550 AAAAAAAAG-GAAAAA-AAGAAAGAGA
1 AAAAAAAAGAGAAAAAGAAAAAAGAGA
9622575 AAAAAAAAGA-AAAAAGAAAAA
1 AAAAAAAAGAGAAAAAGAAAAA
9622596 GGGGGTCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 17 0.40
26 4 0.10
27 6 0.14
28 3 0.07
29 3 0.07
30 9 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (27 bp):
AAAAAAAAGAGAAAAAGAAAAAAGAGA
Found at i:9622565 original size:39 final size:38
Alignment explanation
Indices: 9622521--9622597 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
9622511 TGCTTGAAGA
*
9622521 AAAAAAAGAGAAGA-AAGAAAAAAGAAAGAAAAAAAAAGG
1 AAAAAAAGA-AAGAGAAAAAAAAAGAAA-AAAAAAAAAGG
*
9622560 AAAAAAAGAAAGAGAAAAAAAAAGAAAAAAGAAAAAGG
1 AAAAAAAGAAAGAGAAAAAAAAAGAAAAAAAAAAAAGG
9622598 GGGTCAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 14 0.40
39 21 0.60
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (38 bp):
AAAAAAAGAAAGAGAAAAAAAAAGAAAAAAAAAAAAGG
Found at i:9622568 original size:23 final size:23
Alignment explanation
Indices: 9622534--9622593 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
9622524 AAAAGAGAAG
9622534 AAAGAAAAAAGAAAGA-AAAAAA
1 AAAGAAAAAAGAAAGAGAAAAAA
*
9622556 AAGGAAAAAAAGAAAGAGAAAAAA
1 AAAG-AAAAAAGAAAGAGAAAAAA
9622580 AAAGAAAAAAGAAA
1 AAAGAAAAAAGAAA
9622594 AAGGGGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 3 0.09
23 22 0.65
24 9 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAGAAAGAGAAAAAA
Found at i:9622596 original size:25 final size:23
Alignment explanation
Indices: 9622517--9622594 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
9622507 ATTATGCTTG
9622517 AAGAAAA-AAAAGAGAAGAAAGAAAA
1 AAGAAAAGAAAA-A-AA-AAAGAAAA
*
9622542 AAG-AAAGAAAAAAAAAGGAAAA
1 AAGAAAAGAAAAAAAAAAGAAAA
9622564 AA-AGAAAGAGAAAAAAAAAGAAAA
1 AAGA-AAAGA-AAAAAAAAAGAAAA
9622588 AAGAAAA
1 AAGAAAA
9622595 AGGGGGTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 9 0.20
23 7 0.15
24 22 0.48
25 8 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAGAAAAGAAAAAAAAAAGAAAA
Found at i:9622596 original size:29 final size:29
Alignment explanation
Indices: 9622523--9622595 Score: 50
Period size: 29 Copynumber: 2.6 Consensus size: 29
9622513 CTTGAAGAAA
*
9622523 AAAAAGAG-AAGAAAGAAAAAAGAAAGAAAA
1 AAAAAGAGAAAGAAA-AAAAAAGAAA-AAAG
*
9622553 AAAAAG-GAAA-AAAAGAAAGAGAAAAAA-
1 AAAAAGAGAAAGAAAA-AAAAAGAAAAAAG
9622580 AAAGAA-A-AAAGAAAAA
1 AAA-AAGAGAAAGAAAAA
9622596 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
27 7 0.19
28 10 0.27
29 12 0.32
30 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (29 bp):
AAAAAGAGAAAGAAAAAAAAAGAAAAAAG
Found at i:9623870 original size:83 final size:83
Alignment explanation
Indices: 9623746--9624372 Score: 1114
Period size: 83 Copynumber: 7.6 Consensus size: 83
9623736 GAATTTGCCA
9623746 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
9623811 TAGAAGATGAATGTGTTC
66 TAGAAGATGAATGTGTTC
9623829 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
* *
9623894 TAGAAGATGAATTTG-CC
66 TAGAAGATGAATGTGTTC
*
9623911 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAGAACCAATCATTGAAT
1 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
* * *
9623976 TTAGAAGATGAATTTGCTA
65 TTAGAAGATGAATGTGTTC
9623995 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
9624060 TAGAAGATGAATGTGTTC
66 TAGAAGATGAATGTGTTC
9624078 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
9624143 TAGAAGATGAATGTGTTC
66 TAGAAGATGAATGTGTTC
9624161 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
9624226 TAGAAGATGAATGTGTTC
66 TAGAAGATGAATGTGTTC
* *
9624244 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCTGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
* * *
9624309 TAAAAGATGAATTTG-CC
66 TAGAAGATGAATGTGTTC
*
9624326 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGG
1 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
9624373 TAAGAACTAC
Statistics
Matches: 525, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
82 2 0.00
83 523 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
TAGAAGATGAATGTGTTC
Found at i:9625268 original size:113 final size:113
Alignment explanation
Indices: 9625081--9625614 Score: 745
Period size: 113 Copynumber: 4.6 Consensus size: 113
9625071 TGGATTGACA
* *
9625081 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-AGAGGAAGAAGAAATTCATAATAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA-AGGAAGAAGAAGTTCATAATGAG
*
9625145 AAGAATTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
9625194 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * *
9625259 AGAGCTTGTTCAACCTTTTGC-TCAAATCCATCATTTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTACAT-GAATTCATCAATTGATGGATCAGCT
9625307 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
9625372 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCA
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
*
9625420 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * *
9625484 AGAACTTGTTCAACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCCT
66 AGAACTTGTTCAACCTTTTACATGAATTC-AT--C------A-ATTGA-T-GGATCAG-CT
* *
9625544 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC-GAAAGAAGGATGAAGAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAAGGAAGAAGAAGTTCATAATGAG
9625608 AAGAACT
65 AAGAACT
9625615 CATTAAAAGC
Statistics
Matches: 380, Mismatches: 23, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
111 5 0.01
112 78 0.21
113 215 0.57
114 3 0.01
120 1 0.00
121 4 0.01
122 1 0.00
123 6 0.02
124 10 0.03
125 57 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (113 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
Found at i:9625609 original size:40 final size:41
Alignment explanation
Indices: 9625554--9625662 Score: 184
Period size: 42 Copynumber: 2.7 Consensus size: 41
9625544 TTTCTAGAGA
*
9625554 AAGTTCATAATGAGAAGAACTCATCGAAA-GAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
*
9625594 AAGTTCATAATGAGAAGAACTCATTAAAAGCGAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAA-CGAAGGATGAAG
9625636 AAGTTCATAATGAGAAGAACTCATCAA
1 AAGTTCATAATGAGAAGAACTCATCAA
9625663 GAGCTTATTC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 27 0.42
42 37 0.58
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.19
Consensus pattern (41 bp):
AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
Found at i:9625750 original size:175 final size:175
Alignment explanation
Indices: 9625552--9625948 Score: 742
Period size: 175 Copynumber: 2.3 Consensus size: 175
9625542 CTTTTCTAGA
9625552 GAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAGAAGTTCATAATGAGAAGAACTCA
1 GAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAGAAGTTCATAATGAGAAGAACTCA
*
9625617 TTAAAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTTG
66 TCAAAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTTG
9625682 AATGACTCTATCACAAAAAGAAAGAGGTCAACATCATCCCCAGTG
131 AATGACTCTATCACAAAAAGAAAGAGGTCAACATCATCCCCAGTG
*
9625727 GAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAGAAGTTCATAATGAGAATAACTCA
1 GAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAGAAGTTCATAATGAGAAGAACTCA
9625792 TCAAAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTTG
66 TCAAAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTTG
9625857 AATGACTCTATCACAAAAAGAAAGAGGTCAACATCATCCCCAGTG
131 AATGACTCTATCACAAAAAGAAAGAGGTCAACATCATCCCCAGTG
* *
9625902 GAAAGTTCATAATGAGAAGAACTCATTTGAAAGAAAGA-GAAGAAGTT
1 GAAAGTTCATAATGAGAAGAACTCA-TCGAAAGAAGGATGAAGAAGTT
9625949 ATTCAACATC
Statistics
Matches: 217, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
175 207 0.95
176 10 0.05
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (175 bp):
GAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAGAAGTTCATAATGAGAAGAACTCA
TCAAAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTTG
AATGACTCTATCACAAAAAGAAAGAGGTCAACATCATCCCCAGTG
Found at i:9625773 original size:40 final size:41
Alignment explanation
Indices: 9625729--9625837 Score: 184
Period size: 42 Copynumber: 2.7 Consensus size: 41
9625719 CCCCAGTGGA
*
9625729 AAGTTCATAATGAGAAGAACTCATCGAAA-GAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
*
9625769 AAGTTCATAATGAGAATAACTCATCAAAAGCGAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAA-CGAAGGATGAAG
9625811 AAGTTCATAATGAGAAGAACTCATCAA
1 AAGTTCATAATGAGAAGAACTCATCAA
9625838 GAGCTTATTC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 27 0.42
42 37 0.58
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (41 bp):
AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
Found at i:9626097 original size:3 final size:3
Alignment explanation
Indices: 9626089--9626190 Score: 150
Period size: 3 Copynumber: 34.0 Consensus size: 3
9626079 CCATATTAAT
* * * * * *
9626089 TTA TTA TTA TTA TAA TTA TAA TTA TCA TTA TTA TAA TTA TTA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9626137 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9626185 TTA TTA
1 TTA TTA
9626191 AATACATTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9626330 original size:15 final size:16
Alignment explanation
Indices: 9626310--9626347 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9626300 ATCCCTAGCT
9626310 GCCTCT-AATCCAGCC
1 GCCTCTGAATCCAGCC
*
9626325 GCCTCTGACTCCAGCC
1 GCCTCTGAATCCAGCC
9626341 GCCTCTG
1 GCCTCTG
9626348 CCTCCACCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.13, C:0.47, G:0.18, T:0.21
Consensus pattern (16 bp):
GCCTCTGAATCCAGCC
Found at i:9626339 original size:16 final size:16
Alignment explanation
Indices: 9626318--9626357 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9626308 CTGCCTCTAA
9626318 TCCAGCCGCCTCTGAC
1 TCCAGCCGCCTCTGAC
*
9626334 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGAC
9626350 TCCA-CCGC
1 TCCAGCCGC
9626358 TGCCACGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.10, C:0.55, G:0.17, T:0.17
Consensus pattern (16 bp):
TCCAGCCGCCTCTGAC
Found at i:9626575 original size:19 final size:17
Alignment explanation
Indices: 9626551--9626589 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9626541 ACAGAGACAA
9626551 AGAAAGACAGAAAATACAC
1 AGAAAGA-AGAAAA-ACAC
*
9626570 AGAAAGAAGAGAAACAC
1 AGAAAGAAGAAAAACAC
9626587 AGA
1 AGA
9626590 GAAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.64, C:0.13, G:0.21, T:0.03
Consensus pattern (17 bp):
AGAAAGAAGAAAAACAC
Found at i:9626592 original size:19 final size:19
Alignment explanation
Indices: 9626551--9626593 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9626541 ACAGAGACAA
*
9626551 AGAAAGACAGAAAATACAC
1 AGAAAGACAGAAAACACAC
*
9626570 AGAAAGA-AGAGAAACACAG
1 AGAAAGACAGA-AAACACAC
9626589 AGAAA
1 AGAAA
9626594 TCAAATACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.65, C:0.12, G:0.21, T:0.02
Consensus pattern (19 bp):
AGAAAGACAGAAAACACAC
Found at i:9632466 original size:21 final size:21
Alignment explanation
Indices: 9632440--9632484 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
9632430 GACTCAGTAG
9632440 CTCTCTTAATTTATCCTGTAC
1 CTCTCTTAATTTATCCTGTAC
*
9632461 CTCTCTTAATTTGTCCTGTAC
1 CTCTCTTAATTTATCCTGTAC
9632482 CTC
1 CTC
9632485 ACTAGACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.47
Consensus pattern (21 bp):
CTCTCTTAATTTATCCTGTAC
Found at i:9634645 original size:20 final size:20
Alignment explanation
Indices: 9634620--9634666 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
9634610 AGCCTGCTCG
9634620 GTATCGAAACCGGGATCTCA
1 GTATCGAAACCGGGATCTCA
9634640 GTATCGAAACCGGGATCTCA
1 GTATCGAAACCGGGATCTCA
9634660 GTATCGA
1 GTATCGA
9634667 TACACTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (20 bp):
GTATCGAAACCGGGATCTCA
Found at i:9638308 original size:2 final size:2
Alignment explanation
Indices: 9638297--9638326 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9638287 AGCTTTTATT
9638297 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9638327 TACATCAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9644400 original size:18 final size:19
Alignment explanation
Indices: 9644359--9644400 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
9644349 AATGTAAAAA
9644359 ATAAA-TTTATAAGTGTTT
1 ATAAATTTTATAAGTGTTT
9644377 ATAAATTTTATGAAGT-TTT
1 ATAAATTTTAT-AAGTGTTT
9644396 A-AAAT
1 ATAAAT
9644401 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (19 bp):
ATAAATTTTATAAGTGTTT
Found at i:9648470 original size:23 final size:23
Alignment explanation
Indices: 9648440--9648523 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
9648430 CTCTTATAAA
9648440 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
9648463 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
9648486 TGCACCAAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
9648509 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
9648524 TATAAGATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:9649207 original size:44 final size:45
Alignment explanation
Indices: 9649159--9649261 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
9649149 GCACTATCTA
* * * *
9649159 TGCATCGGTGCA-TAAATCCCATTCGATGTTTGTA-TTTAATGGGG
1 TGCATCGATGCACT-AATCACATTCGATGTTTGTATTTTAAAGGAG
* * *
9649203 TGCATCGATACACTAATGACATTCGATGTTTTTATTTTAAAGGAG
1 TGCATCGATGCACTAATCACATTCGATGTTTGTATTTTAAAGGAG
9649248 TGCATCGATGCACT
1 TGCATCGATGCACT
9649262 TCATGTGCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 27 0.55
45 22 0.45
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (45 bp):
TGCATCGATGCACTAATCACATTCGATGTTTGTATTTTAAAGGAG
Found at i:9655335 original size:23 final size:23
Alignment explanation
Indices: 9655309--9655377 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
9655299 CACCACAGCT
*
9655309 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
9655332 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
9655355 CATAGAATTGTACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
9655378 TATAAGATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:9656141 original size:23 final size:23
Alignment explanation
Indices: 9656084--9656142 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
9656074 CGTATAAATA
* **
9656084 CACCGAAGTGGCACATAGAATTG
1 CACCGAAGTGCCAGGTAGAATTG
*
9656107 CACCGAATTGCCAGGTAGAATTG
1 CACCGAAGTGCCAGGTAGAATTG
9656130 CACC-ATAGTGCCA
1 CACCGA-AGTGCCA
9656143 TATAAGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.03
23 29 0.97
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (23 bp):
CACCGAAGTGCCAGGTAGAATTG
Found at i:9656194 original size:765 final size:765
Alignment explanation
Indices: 9654720--9656248 Score: 2592
Period size: 765 Copynumber: 2.0 Consensus size: 765
9654710 ACCATAGCTC
* * * *
9654720 TGATACCATTAAATATAACACTCTCAACCTATACCCGACCCGGATATGAGTCCAGGATGTCACAT
1 TGATACCATTAAATATAACACCCTCAACCCATACCCGACCCGAATATGAGTCCAGGATATCACAT
*
9654785 TGACTAAACAAAACAATACTCTTAAAAAACCGATAAAACATTTGAACTTATATTATTAAAATACA
66 TAACTAAACAAAACAATACTCTTAAAAAACCGATAAAACATTTGAACTTATATTATTAAAATACA
*
9654850 ATAATATACATATGTTAATACAAGTTTATCAAAATACTCAGAGCATACACAACTCGACCCTTTGA
131 ATAATATACATATATTAATACAAGTTTATCAAAATACTCAGAGCATACACAACTCGACCCTTTGA
9654915 TTACATGCCAACATTTATATACATAACAAAAGGACCTACTGATTAAGTTGCCTCTGATCTGATAG
196 TTACATGCCAACATTTATATACATAACAAAAGGACCTACTGATTAAGTTGCCTCTGATCTGATAG
* * * *
9654980 TCGCATGAGTAGTGTTACCCAGTTGCTTAACCTGTCTCATCTACTTTCTCGGATCCTACGTGTGA
261 TCGCAGGAGTAGTGTTACCCAGCTGCTTAACCTGTCTCATCTACTTTCTCGGATCCTACATGTAA
* * * *
9655045 AACACTCATACGCTAAGTCATCGACTTAGTGAGGCAATATAATAATAATAATAAGGAAATATCAC
326 AACACTCACACGCGAAGTCATCGACTTAGTGAGGCAATATAATAACAACAATAAGGAAATATCAC
* *
9655110 GAGAACACCAAAATGAAATGAAATGCAATAACATATGCATTTAATCTATATAATGTCCATAACCA
391 GAGAACACCAAAATGAAATGAAATGCAATAACATATGCATTTAATATATATAATGTCCACAACCA
* *
9655175 TGTTTCCTACATATCGACTCATCATATTAACACTCATAAGTTCATATTAATCAGTTCACTAGCCC
456 TGTTTCCTACACATCGACTCATCACATTAACACTCATAAGTTCATATTAATCAGTTCACTAGCCC
*
9655240 ATGATACCATACTGAGAACCTAAGGTATGCGAGTACTGTGAGGTTGTGCATTATGCTGTCACCAC
521 ATGATACCATACTGAGAACCTAAGGTATGCGAGTACTGTGAGGTTGTGCACTATGCTGTCACCAC
* * * *
9655305 AGCTCGTATAAATGCACCGAAGTGCCACGTAGAATTGCACCGAAGTGCCGCATAGAATTGTACCG
586 AGCTCGTATAAATACACCGAAGTGCCACATAGAATTGCACCGAAGTGCCGCATAGAATTGCACCA
9655370 TAGTGCCATATAAGATTGTCCATAAGGACCACGTAGATAATTCCTTAAGAATCATATACATATGC
651 TAGTGCCATATAAGATTGTCCATAAGGACCACGTAGATAATTCCTTAAGAATCATATACATATGC
9655435 CAAGGATCAAGTATGTGTCTTAAAGACCTCACACATGTTCCAAAGAATAG
716 CAAGGATCAAGTATGTGTCTTAAAGACCTCACACATGTTCCAAAGAATAG
* *
9655485 TGATACCATTAAATGTAACACCCTCAACCCATACCCGACCTGAATATGAGTCCAGGATATCACAT
1 TGATACCATTAAATATAACACCCTCAACCCATACCCGACCCGAATATGAGTCCAGGATATCACAT
*
9655550 TAACTAAACAAAACAATACTCTTAAAAAACTGATAAAACATTTGAACTTATATTATTAAAATACA
66 TAACTAAACAAAACAATACTCTTAAAAAACCGATAAAACATTTGAACTTATATTATTAAAATACA
*
9655615 ATAATATACATATATTAATAGAAGTTTATCAAAATACTCAGAGCATACACAACTCGACCCTTTGA
131 ATAATATACATATATTAATACAAGTTTATCAAAATACTCAGAGCATACACAACTCGACCCTTTGA
*
9655680 TTACATGCCAACATTTATTTACATAACAAAAGGACCTACTGATTAAGTTGCCTCTGATCTGATAG
196 TTACATGCCAACATTTATATACATAACAAAAGGACCTACTGATTAAGTTGCCTCTGATCTGATAG
* * *
9655745 TTGCAGGAGTAGTGTTGCCCAGCTGCTTAACCTGTCTCGTCTACTTTCTCGGATCCTACATGTAA
261 TCGCAGGAGTAGTGTTACCCAGCTGCTTAACCTGTCTCATCTACTTTCTCGGATCCTACATGTAA
* * *
9655810 AACACTCACATGCGAAGTTATCGACTTAGTGAGGCAATATAATAACAACAATAAGGAAATATCAT
326 AACACTCACACGCGAAGTCATCGACTTAGTGAGGCAATATAATAACAACAATAAGGAAATATCAC
** *
9655875 GAGAATGCCAAAATGAAATGAAATGCAATAACATATGCATTTAATATGTATAATGTCCACAACCA
391 GAGAACACCAAAATGAAATGAAATGCAATAACATATGCATTTAATATATATAATGTCCACAACCA
* *
9655940 TGTTTCCTACACATCGACTCATCACATTAACACTCATAAGTTCATATTAATCAGTTCAGTAGCCT
456 TGTTTCCTACACATCGACTCATCACATTAACACTCATAAGTTCATATTAATCAGTTCACTAGCCC
* * * *
9656005 ATGATACCATACTGAGAACCTAAGGTATGTGATTATTGTGAGGTTGTGCACTATGCTGTCATCAC
521 ATGATACCATACTGAGAACCTAAGGTATGCGAGTACTGTGAGGTTGTGCACTATGCTGTCACCAC
* * *
9656070 AGCTCGTATAAATACACCGAAGTGGCACATAGAATTGCACCGAATTGCCAG-GTAGAATTGCACC
586 AGCTCGTATAAATACACCGAAGTGCCACATAGAATTGCACCGAAGTGCC-GCATAGAATTGCACC
* * *
9656134 ATAGTGCCATATAAGATTGTCCCTAAGGACCATGTAGATAATTCCTTAAGAATTATATACATATG
650 ATAGTGCCATATAAGATTGTCCATAAGGACCACGTAGATAATTCCTTAAGAATCATATACATATG
*
9656199 CCAATGATCAAGTATGTGTCTTAAAGACCTCACACATGTTCCAAAGAATA
715 CCAAGGATCAAGTATGTGTCTTAAAGACCTCACACATGTTCCAAAGAATA
9656249 CATATATATC
Statistics
Matches: 713, Mismatches: 50, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
765 712 1.00
766 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (765 bp):
TGATACCATTAAATATAACACCCTCAACCCATACCCGACCCGAATATGAGTCCAGGATATCACAT
TAACTAAACAAAACAATACTCTTAAAAAACCGATAAAACATTTGAACTTATATTATTAAAATACA
ATAATATACATATATTAATACAAGTTTATCAAAATACTCAGAGCATACACAACTCGACCCTTTGA
TTACATGCCAACATTTATATACATAACAAAAGGACCTACTGATTAAGTTGCCTCTGATCTGATAG
TCGCAGGAGTAGTGTTACCCAGCTGCTTAACCTGTCTCATCTACTTTCTCGGATCCTACATGTAA
AACACTCACACGCGAAGTCATCGACTTAGTGAGGCAATATAATAACAACAATAAGGAAATATCAC
GAGAACACCAAAATGAAATGAAATGCAATAACATATGCATTTAATATATATAATGTCCACAACCA
TGTTTCCTACACATCGACTCATCACATTAACACTCATAAGTTCATATTAATCAGTTCACTAGCCC
ATGATACCATACTGAGAACCTAAGGTATGCGAGTACTGTGAGGTTGTGCACTATGCTGTCACCAC
AGCTCGTATAAATACACCGAAGTGCCACATAGAATTGCACCGAAGTGCCGCATAGAATTGCACCA
TAGTGCCATATAAGATTGTCCATAAGGACCACGTAGATAATTCCTTAAGAATCATATACATATGC
CAAGGATCAAGTATGTGTCTTAAAGACCTCACACATGTTCCAAAGAATAG
Found at i:9656855 original size:63 final size:65
Alignment explanation
Indices: 9656784--9656940 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 65
9656774 ATACCTTGAC
* *
9656784 GGTGCATCGATGCACTATC-TATGCATCGGTGCA-TAAATCCCATTCGATGTTTGTA-TTT-AAT
1 GGTGCATCGATGCACTATCATATGCATCGATGCACT-AATCACATTCGATGTTTGTATTTTAAAT
9656845 GG
65 -G
* * * * *
9656847 GGTGCATCGATGCACTA-CTTGTGCATCGATTCACTAATGACATTCGATGTTTTTATTTTAAATG
1 GGTGCATCGATGCACTATCATATGCATCGATGCACTAATCACATTCGATGTTTGTATTTTAAATG
*
9656911 AGTGCATCGATGCACT-TCATATGCATCGAT
1 GGTGCATCGATGCACTATCATATGCATCGAT
9656941 ACACCTTGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 45 0.56
64 31 0.39
65 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (65 bp):
GGTGCATCGATGCACTATCATATGCATCGATGCACTAATCACATTCGATGTTTGTATTTTAAATG
Found at i:9658139 original size:18 final size:18
Alignment explanation
Indices: 9658116--9658153 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9658106 AAGCCATTAG
9658116 ATTATTACTTGTTTTTGC
1 ATTATTACTTGTTTTTGC
9658134 ATTATTACTTGTTTTTGC
1 ATTATTACTTGTTTTTGC
9658152 AT
1 AT
9658154 GTTTTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTATTACTTGTTTTTGC
Found at i:9660700 original size:13 final size:13
Alignment explanation
Indices: 9660682--9660707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9660672 GTCTTCATGC
9660682 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9660695 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9660708 ATCATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTCAGGCTCGT
Found at i:9661332 original size:18 final size:19
Alignment explanation
Indices: 9661291--9661332 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
9661281 AATGTCAAAA
9661291 ATAAA-TTTATAAGTGTTT
1 ATAAATTTTATAAGTGTTT
9661309 ATAAATTTTATGAAGT-TTT
1 ATAAATTTTAT-AAGTGTTT
9661328 A-AAAT
1 ATAAAT
9661333 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (19 bp):
ATAAATTTTATAAGTGTTT
Found at i:9668857 original size:13 final size:13
Alignment explanation
Indices: 9668839--9668890 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
9668829 CTTCGTTGCA
*
9668839 TTTACATTTTCAT
1 TTTACATTTACAT
9668852 TTTACATTTACAT
1 TTTACATTTACAT
* *
9668865 ATTTGCATTTGCA-
1 -TTTACATTTACAT
*
9668878 TTTGCATTTACAT
1 TTTACATTTACAT
9668891 CTTTGCATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.33
13 12 0.36
14 10 0.30
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (13 bp):
TTTACATTTACAT
Found at i:9672254 original size:10 final size:9
Alignment explanation
Indices: 9672241--9672279 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
9672231 TGCTCGAAAT
9672241 AAGAAGAAAA
1 AAGAA-AAAA
9672251 AAGAAAAAA
1 AAGAAAAAA
*
9672260 AAAAGAAAAA
1 AAGA-AAAAA
9672270 AAGAAAAAA
1 AAGAAAAAA
9672279 A
1 A
9672280 TTGATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 13 0.50
10 13 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:9672279 original size:11 final size:11
Alignment explanation
Indices: 9672247--9672271 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9672237 AAATAAGAAG
9672247 AAAAAAGAAAA
1 AAAAAAGAAAA
9672258 AAAAAAGAAAA
1 AAAAAAGAAAA
9672269 AAA
1 AAA
9672272 GAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:9672720 original size:6 final size:5
Alignment explanation
Indices: 9672702--9672774 Score: 61
Period size: 4 Copynumber: 15.6 Consensus size: 5
9672692 TTCATCAGAA
* *
9672702 AAAAT AAAAG AAAACG AAAA- AAAAG AAAAA AAAAG AAAAGG AAAA- AAAA-
1 AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG
9672751 AAAA- AAAA- AAAA- AAAA- AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
9672775 TTGAATCAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
4 28 0.46
5 23 0.38
6 10 0.16
ACGTcount: A:0.88, C:0.01, G:0.10, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:9672722 original size:1 final size:1
Alignment explanation
Indices: 9672718--9672770 Score: 70
Period size: 1 Copynumber: 53.0 Consensus size: 1
9672708 AAAGAAAACG
* * **
9672718 AAAAAAAAGAAAAAAAAAGAAAAGGAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9672771 GAAATTGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:9672725 original size:10 final size:9
Alignment explanation
Indices: 9672700--9672774 Score: 75
Period size: 10 Copynumber: 8.1 Consensus size: 9
9672690 CATTCATCAG
*
9672700 AAAAAATAA
1 AAAAAAGAA
9672709 AAGAAAACGAA
1 AA-AAAA-GAA
9672720 AAAAAAGAAA
1 AAAAAAG-AA
9672730 AAAAAAGAA
1 AAAAAAGAA
9672739 AAGGAAAA-AA
1 AA--AAAAGAA
9672749 AAAAAA-AA
1 AAAAAAGAA
9672757 AAAAAA-AA
1 AAAAAAGAA
9672765 AAAAAAGAA
1 AAAAAAGAA
9672774 A
1 A
9672775 TTGAATCAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
8 20 0.34
9 10 0.17
10 21 0.36
11 8 0.14
ACGTcount: A:0.88, C:0.01, G:0.09, T:0.01
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:9672727 original size:15 final size:14
Alignment explanation
Indices: 9672700--9672774 Score: 87
Period size: 14 Copynumber: 5.1 Consensus size: 14
9672690 CATTCATCAG
*
9672700 AAAAAATAAAAGAA
1 AAAAAAAAAAAGAA
*
9672714 AACGAAAAAAAAGAA
1 AA-AAAAAAAAAGAA
9672729 AAAAAAAGAAAAGGAAA
1 AAAAAAA-AAAA-G-AA
*
9672746 AAAAAAAAAAAAAA
1 AAAAAAAAAAAGAA
9672760 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
9672774 A
1 A
9672775 TTGAATCAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
14 22 0.42
15 16 0.31
16 5 0.10
17 9 0.17
ACGTcount: A:0.88, C:0.01, G:0.09, T:0.01
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:9672735 original size:25 final size:24
Alignment explanation
Indices: 9672701--9672774 Score: 100
Period size: 23 Copynumber: 3.1 Consensus size: 24
9672691 ATTCATCAGA
9672701 AAAAATAAAAGAAAACGAAAAAAAAG
1 AAAAA-AAAAGAAAA-GAAAAAAAAG
*
9672727 AAAAAAAAAGAAAAGGAAAAAAA-
1 AAAAAAAAAGAAAAGAAAAAAAAG
9672750 AAAAAAAAA-AAAA-AAAAAAAAG
1 AAAAAAAAAGAAAAGAAAAAAAAG
9672772 AAA
1 AAA
9672775 TTGAATCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.16
22 7 0.16
23 9 0.20
24 8 0.18
25 9 0.20
26 5 0.11
ACGTcount: A:0.88, C:0.01, G:0.09, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAGAAAAGAAAAAAAAG
Found at i:9676372 original size:74 final size:72
Alignment explanation
Indices: 9676287--9676682 Score: 436
Period size: 74 Copynumber: 5.3 Consensus size: 72
9676277 AATCAGCAAC
* *
9676287 GTCTCGCTTGAGAGCA-TTTCACTCGAAACATA-AATTTTATCTCACTTGAGATTGTTTTTCGTA
1 GTCTCTCTTGAGA-CAGTTTCACTCGAAACA-ACAA-TTTATCTCACTTGAGATTGTTTTTCTTA
9676350 AAACAAACTTT
63 AAACAAA-TTT
* * * *
9676361 GTCTCTCTTGAGACAGTTTCACTAGAAATAACAAATTTATCTAAATTGAGATTGTTTTTCTTAAA
1 GTCTCTCTTGAGACAGTTTCACTCGAAACAAC-AATTTATCTCACTTGAGATTGTTTTTCTTAAA
9676426 ACAAATTT
65 ACAAATTT
* * * * *
9676434 TTTTCTCGAATGAGACAATTTCACTCGAAACAACAATTTATTTCACTTGAGATTGTTTTTCTTAA
1 GTCTCTC--TTGAGACAGTTTCACTCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAA
9676499 AACAAACTTT
64 AACAAA-TTT
* * * *
9676509 GTCTCACTTGAGATAGTTTCACTCAAAACAACAATTTATCTCACTTGAGATTATTTTTCTTAAAA
1 GTCTCTCTTGAGACAGTTTCACTCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
9676574 CAATATTT
66 CAA-ATTT
* * * * *
9676582 GTCTCTCTTGATACAATTGTTTCACTTGAAACAAGAAATTTTATCTCACTCGAGATAGTTTTTCT
1 GTCTCTCTTGAGAC-A--GTTTCACTCGAAACAA-CAA-TTTATCTCACTTGAGATTGTTTTTCT
9676647 TAAAACAAGATTT
61 TAAAACAA-ATTT
* * *
9676660 GTCTCGCTTGATACAATTTCACT
1 GTCTCTCTTGAGACAGTTTCACT
9676683 AGCAACATCA
Statistics
Matches: 274, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
73 80 0.29
74 92 0.34
75 37 0.14
76 14 0.05
77 3 0.01
78 48 0.18
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (72 bp):
GTCTCTCTTGAGACAGTTTCACTCGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
CAAATTT
Found at i:9676485 original size:37 final size:37
Alignment explanation
Indices: 9676303--9676559 Score: 150
Period size: 37 Copynumber: 6.9 Consensus size: 37
9676293 CTTGAGAGCA
* *
9676303 TTTCACTCGAAACATA-AATTTTATCTCACTTGAGATTG
1 TTTCACTCAAAACA-ACAA-TTTATCTCACTTGAGATAG
** * * * *
9676341 TTTTTCGT-AAAACAA-ACTTTGTCTCTCTTGAGACAG
1 TTTCAC-TCAAAACAACAATTTATCTCACTTGAGATAG
* * * *
9676377 TTTCACT-AGAAATAACAAATTTATCTAAATTGAGATTG
1 TTTCACTCA-AAACAAC-AATTTATCTCACTTGAGATAG
** * * * * * *
9676415 TTTTTCTTAAAACAA-ATTTTTTTCTCGA-ATGAGACAA
1 TTTCACTCAAAACAACA-ATTTATCTC-ACTTGAGATAG
* * *
9676452 TTTCACTCGAAACAACAATTTATTTCACTTGAGATTG
1 TTTCACTCAAAACAACAATTTATCTCACTTGAGATAG
** * * *
9676489 TTTTTCTTAAAACAA-ACTTTGTCTCACTTGAGATAG
1 TTTCACTCAAAACAACAATTTATCTCACTTGAGATAG
9676525 TTTCACTCAAAACAACAATTTATCTCACTTGAGAT
1 TTTCACTCAAAACAACAATTTATCTCACTTGAGAT
9676560 TATTTTTCTT
Statistics
Matches: 157, Mismatches: 52, Indels: 21
0.68 0.23 0.09
Matches are distributed among these distances:
35 2 0.01
36 55 0.35
37 63 0.40
38 35 0.22
39 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (37 bp):
TTTCACTCAAAACAACAATTTATCTCACTTGAGATAG
Found at i:9676522 original size:36 final size:35
Alignment explanation
Indices: 9676322--9676670 Score: 178
Period size: 36 Copynumber: 9.4 Consensus size: 35
9676312 AAACATAAAT
*
9676322 TTTATCTCACTTGAGATTGTTTTTCGTAAAACAAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA
* * ** ** *
9676357 CTTTGTCTCTCTTGAGACAGTTTCACTAGAAATAACAAA
1 -TTTATCTCACTTGAGATTGTTTTTCT--TAA-AACAAA
* *
9676396 TTTATCTAAATTGAGATTGTTTTTCTTAAAACAAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA
* * *** ** **
9676431 TTTTTTTCTCGA-ATGAGACAATTTCACTCGAAACAACAA
1 --TTTATCTC-ACTTGAGATTGTTTTTCTTAAAAC-A-AA
*
9676470 TTTATTTCACTTGAGATTGTTTTTCTTAAAACAAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA
* * ** *
9676505 CTTTGTCTCACTTGAGATAGTTTCACTCAAAACAACAA
1 -TTTATCTCACTTGAGATTGTTTTTCTTAAAAC-A-AA
*
9676543 TTTATCTCACTTGAGATTATTTTTCTTAAAACAATA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-A
* * * ** *
9676579 TTTGTCTCTCTTGATACAATTGTTTCACTTGAAACAAGAAA
1 TTTATCTCACTTG--A-GATTGTTTTTCTT--AA-AACAAA
* *
9676620 TTTTATCTCACTCGAGATAGTTTTTCTTAAAACAAGA
1 -TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-A
* *
9676657 TTTGTCTCGCTTGA
1 TTTATCTCACTTGA
9676671 TACAATTTCA
Statistics
Matches: 225, Mismatches: 67, Indels: 42
0.67 0.20 0.13
Matches are distributed among these distances:
35 9 0.04
36 77 0.34
37 70 0.31
38 25 0.11
39 26 0.12
40 1 0.00
41 3 0.01
42 14 0.06
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (35 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA
Found at i:9676911 original size:123 final size:123
Alignment explanation
Indices: 9676688--9677264 Score: 816
Period size: 123 Copynumber: 4.7 Consensus size: 123
9676678 TCACTAGCAA
* *
9676688 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAGGAGGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* *
9676753 AATGAGAAGAAATTGTTCAACCTTTTGCTTGAATCTATCGCAGAAGGAGATAGATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* *
9676811 CATCAACATTTCCAGAAGGAGTTCATAGTGAGAAGAATTCATCTAAAGAGGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* * *
9676876 AATGAGAAGAACTTGTTCAACATTTTGCTCAAATCTATCGCAGAAGGACATAGATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* * * * * *
9676934 GATCAACATTTCTAGAAGGAGTTCATAATGAGAAGAACTCGTTTTAAGAGGAAAAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* * *
9676999 AATGAGAAGAACTTGTTCAACCTTTTGTTCGACTCTATTC-CAGAAGGAGATATATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTA-TCGCAGAAGGAGATAGATCAG
* * * *
9677057 CATCAACATTTCCAAAATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* * * * * * *
9677122 AATGAGAAGAACTTGTTCAACCTTTTACTTGATTC-ATCGTATATGGAGATAGATCAA
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* * * *
9677179 CATCAACATTTTCGGAAGGAGTTCATAATGAGAAGAACTCATCGAAAGATGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* *
9677244 AATAAGAATAACTTGTTCAAC
66 AATGAGAAGAACTTGTTCAAC
9677265 GTTAGATTGA
Statistics
Matches: 402, Mismatches: 50, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
121 2 0.00
122 90 0.22
123 308 0.77
124 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (123 bp):
CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
Found at i:9677582 original size:118 final size:119
Alignment explanation
Indices: 9677321--9677600 Score: 356
Period size: 118 Copynumber: 2.4 Consensus size: 119
9677311 TTGAGGCATT
* * * * *
9677321 AACATTTTCAACGGAAGAGTTCATAATGAGAAGAACTCAAT--G-A-AGGAATAAGAAGTTCATA
1 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTC-GTCCGAAGAGGAAGAAGAAGTTCATA
* * * * *
9677382 ATTAGAAGAACTTGTTCAACATTTTGCTAGATTTCATCACAGAAGGAGATGGATC
65 ATGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
* * **
9677437 ACCATTTCCAGT-GAAAGAGTTTGTAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATA
1 AACATTTCCAATGGAAA-AGTTCATAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATA
* *
9677501 ATGAGAAAAACTTGTTCAAC-CTTAGTTCGATTCCATCACAGAAGGAGATGGATC
65 ATGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
9677555 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAG
1 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAG
9677601 TGAGTAAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
115 4 0.03
116 27 0.20
117 1 0.01
118 67 0.49
119 39 0.28
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (119 bp):
AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATAA
TGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
Found at i:9678647 original size:17 final size:17
Alignment explanation
Indices: 9678613--9678655 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9678603 TTACTTTATT
* *
9678613 ATATTTTAGTCATTTTA
1 ATATTTTAATCATCTTA
*
9678630 ATATTTTAATCCTCTTA
1 ATATTTTAATCATCTTA
9678647 ACTATTTTA
1 A-TATTTTA
9678656 TTTTGGGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (17 bp):
ATATTTTAATCATCTTA
Found at i:9680102 original size:11 final size:11
Alignment explanation
Indices: 9680086--9680110 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9680076 CATGAAATTC
9680086 TAATTAAAACA
1 TAATTAAAACA
9680097 TAATTAAAACA
1 TAATTAAAACA
9680108 TAA
1 TAA
9680111 CAACAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATTAAAACA
Found at i:9680852 original size:77 final size:73
Alignment explanation
Indices: 9680765--9680986 Score: 234
Period size: 71 Copynumber: 2.9 Consensus size: 73
9680755 ACGAATGCGT
* * *
9680765 CCAAGAATGTCATGG-TTCAGTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTTATTAATA
1 CCAAGAATGTCATGGTTTGAAT-AGAAATAGGTTGTGAT-T---ATGTTAATATTTTTATTAATA
*
9680829 AAATAGGTTGCGC
61 AAATAGGTTGCAC
* * * **
9680842 TCAAGAATGTCATAGTTTGAATAGAAATAGGTTGTGA-TATGTT-ATGTTAATATTAATAAAATA
1 CCAAGAATGTCATGGTTTGAATAGAAATAGGTTGTGATTATGTTAATATTTTTATTAATAAAATA
*
9680905 GGTAGCAC
66 GGTTGCAC
*
9680913 CCAAGAATGTCATGATTTTGAATAGAAATAGGTTGTGATATTTTATGTTAATATTTTTATTAATA
1 CCAAGAATGTCATG-GTTTGAATAGAAATAGGTTGTG--A--TTATGTTAATATTTTTATTAATA
9680978 AAATAGGTT
61 AAATAGGTT
9680987 ATGCCAAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
71 35 0.29
72 26 0.22
74 1 0.01
75 1 0.01
77 33 0.28
78 24 0.20
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (73 bp):
CCAAGAATGTCATGGTTTGAATAGAAATAGGTTGTGATTATGTTAATATTTTTATTAATAAAATA
GGTTGCAC
Found at i:9680918 original size:71 final size:72
Alignment explanation
Indices: 9680821--9680967 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 72
9680811 TTAATATTTT
* * *
9680821 TATTAATAAAATAGGTTGCGCTCAAGAATGTCAT-AGTTTGAATAGAAATAGGTTGTGATATGTT
1 TATTAATAAAATAGGTAGCACCCAAGAATGTCATGAGTTTGAATAGAAATAGGTTGTGATATGTT
9680885 ATGTTAA
66 ATGTTAA
* *
9680892 TATTAATAAAATAGGTAGCACCCAAGAATGTCATGATTTTGAATAGAAATAGGTTGTGATATTTT
1 TATTAATAAAATAGGTAGCACCCAAGAATGTCATGAGTTTGAATAGAAATAGGTTGTGATATGTT
9680957 ATGTTAA
66 ATGTTAA
9680964 TATT
1 TATT
9680968 TTTATTAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 31 0.44
72 39 0.56
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (72 bp):
TATTAATAAAATAGGTAGCACCCAAGAATGTCATGAGTTTGAATAGAAATAGGTTGTGATATGTT
ATGTTAA
Found at i:9682284 original size:102 final size:100
Alignment explanation
Indices: 9681990--9682347 Score: 389
Period size: 101 Copynumber: 3.5 Consensus size: 100
9681980 CCTACATTTG
* *
9681990 CATAATATAAAA-GGTTTCAAACATATAATGTAAACAATTGACAATT-AAAAAGGCGCTATATAT
1 CATAATA-AAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAAAAGGCGC-AAATAT
* * *
9682053 AATGTTATACTTTTAAATTTGTTTTGTCTTACTTTTG
64 AATGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
** * ** * * * * * *
9682090 CATAATAAAAACAATTTCAAAGATATAACCTAAATGGTTGATAATTAAAAGTAGACGCAATTATA
1 CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAA-AAGGCGCAAATATA
* *
9682155 ATGTTAAAGTTATAAATTTGTTTTGTCTTTCTTTTT
65 ATGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
* * * *
9682191 CATAATAAAAATGGTTTTAAACATATAATGTAAACGATTGACAATTTAAAAAAGGCGCAACCTAG
1 CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAA-TTAAAAAAGGCGCAA-ATAT
*
9682256 AATGTTAAACTTATAAACTTGTTTTGTCTTACTTTTTT
64 AATGTTAAACTTATAAATTTGTTTTGTCTTAC-TTTTT
* * *
9682294 CATAACATAAACGCTTTCAAACATATAATGTAAACAGA-TGACAATTTAAAAAAG
1 CATAATAAAAACGGTTTCAAACATATAATGTAAAC-GATTGACAA-TTAAAAAAG
9682348 TATGGATACT
Statistics
Matches: 211, Mismatches: 40, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
99 4 0.02
100 32 0.15
101 80 0.38
102 42 0.20
103 51 0.24
104 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (100 bp):
CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAAAAGGCGCAAATATAA
TGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
Found at i:9682607 original size:76 final size:77
Alignment explanation
Indices: 9682475--9682692 Score: 278
Period size: 77 Copynumber: 2.8 Consensus size: 77
9682465 ATTTTTCCTT
* * *
9682475 TTTTAATTAATAAAAATATTAACATTCCAGATCGTATCTTATTTCTTAGTGAACCATGACATTCT
1 TTTT-ATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCT
9682540 TGGGCGCAACCCA
65 TGGGCGCAACCCA
* * * * *
9682553 TTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCTTAGCGAACCATAACATTTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACA-TTCT
*
9682617 TTGGCGCAACCCA
65 TGGGCGCAACCCA
* * * * *
9682630 TTTTTTTACTAAAAATATTAACATTGCATATCGCAATATATTTCTTAGTGAA-CATGACATTCT
1 TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCT
9682693 CGGGGGAAAC
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
76 31 0.26
77 65 0.54
78 25 0.21
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (77 bp):
TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCTT
GGGCGCAACCCA
Found at i:9683239 original size:14 final size:15
Alignment explanation
Indices: 9683215--9683276 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
9683205 GACACTCGTT
9683215 TTTTCTTCTATTTTA
1 TTTTCTTCTATTTTA
9683230 TTTT-TTCTATTTTA
1 TTTTCTTCTATTTTA
*
9683244 TTTCTATTCTAGTTTT-
1 TTT-TCTTCTA-TTTTA
* *
9683260 TTATCTT-TATTTCA
1 TTTTCTTCTATTTTA
9683274 TTT
1 TTT
9683277 ATATTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.08
14 17 0.44
15 8 0.21
16 7 0.18
17 4 0.10
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTCTTCTATTTTA
Found at i:9683248 original size:25 final size:25
Alignment explanation
Indices: 9683220--9683284 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
9683210 TCGTTTTTTC
9683220 TTCTATTTTATTTTTTCTAT-TTTAT
1 TTCTATTTTATTTTTT-TATCTTTAT
* *
9683245 TTCTATTCTAGTTTTTTATCTTTAT
1 TTCTATTTTATTTTTTTATCTTTAT
9683270 TTC-ATTTATATTTTT
1 TTCTATTT-TATTTTT
9683285 ATTGCAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (25 bp):
TTCTATTTTATTTTTTTATCTTTAT
Found at i:9685846 original size:13 final size:13
Alignment explanation
Indices: 9685828--9685853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9685818 GTCTTCATGC
9685828 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9685841 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9685854 ATCATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTCAGGCTCGT
Found at i:9686660 original size:21 final size:21
Alignment explanation
Indices: 9686636--9686684 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
9686626 TTTCAAAGGT
9686636 AGGTTTCAAAATCTCTCTATA
1 AGGTTTCAAAATCTCTCTATA
9686657 AGGTTTCAAAATCTCTCTATA
1 AGGTTTCAAAATCTCTCTATA
9686678 AGGTTTC
1 AGGTTTC
9686685 GAAACCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
AGGTTTCAAAATCTCTCTATA
Found at i:9694128 original size:20 final size:19
Alignment explanation
Indices: 9694081--9694139 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
9694071 AATGCCTTCG
9694081 TTGCATTTACATTTT-CATT
1 TTGCATTTACATTTTGCA-T
*
9694100 TTACATTTACATATTTGCAT
1 TTGCATTTACAT-TTTGCAT
9694120 TTGCATTTACATCTTTGCAT
1 TTGCATTTACAT-TTTGCAT
9694140 AGTTACATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.31
20 22 0.63
21 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.53
Consensus pattern (19 bp):
TTGCATTTACATTTTGCAT
Found at i:9697521 original size:10 final size:9
Alignment explanation
Indices: 9697508--9697545 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
9697498 TGCTCGAAAT
9697508 AAGAAGAAAA
1 AAGAA-AAAA
9697518 AAGAAAAAA
1 AAGAAAAAA
*
9697527 AAAAAAAAA
1 AAGAAAAAA
9697536 AAGAAAAAA
1 AAGAAAAAA
9697545 A
1 A
9697546 TTGATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:9697981 original size:12 final size:11
Alignment explanation
Indices: 9697966--9698034 Score: 79
Period size: 11 Copynumber: 6.3 Consensus size: 11
9697956 CATTCATCAG
*
9697966 AAAAAATAAAA
1 AAAAAAGAAAA
* *
9697977 GAAAACGAAAA
1 AAAAAAGAAAA
9697988 AAAAGAA-AAAA
1 AAAA-AAGAAAA
9697999 AAAAAA-AAAA
1 AAAAAAGAAAA
9698009 AAAAAAGAAAA
1 AAAAAAGAAAA
9698020 AGAAAAAGAAAA
1 A-AAAAAGAAAA
9698032 AAA
1 AAA
9698035 GAAATTGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
10 12 0.24
11 26 0.52
12 12 0.24
ACGTcount: A:0.88, C:0.01, G:0.09, T:0.01
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:9697986 original size:6 final size:5
Alignment explanation
Indices: 9697968--9698031 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
9697958 TTCATCAGAA
* * *
9697968 AAAAT AAAAG AAAACG AAAA- AAAAG AAAA- AAAA- AAAAA AAAAA AAAAG
1 AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
9698016 AAAAAG AAAAAG AAAA
1 -AAAAG -AAAAG AAAA
9698032 AAAGAAATTG
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 12 0.23
5 25 0.47
6 16 0.30
ACGTcount: A:0.88, C:0.02, G:0.09, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:9697988 original size:1 final size:1
Alignment explanation
Indices: 9697984--9698034 Score: 66
Period size: 1 Copynumber: 51.0 Consensus size: 1
9697974 AAAGAAAACG
* * * *
9697984 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9698035 GAAATTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:9697991 original size:20 final size:18
Alignment explanation
Indices: 9697966--9698038 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 18
9697956 CATTCATCAG
*
9697966 AAAAAATAAAAGAAAACGA
1 AAAAAAAAAAAGAAAA-GA
* *
9697985 AAAAAAAGAAAAAAAAAAA
1 AAAAAAA-AAAAGAAAAGA
9698004 AAAAAAAAAAAGAAAAAGA
1 AAAAAAAAAAAG-AAAAGA
9698023 AAAAGAAAAAAAGAAA
1 AAAA-AAAAAAAGAAA
9698039 TTGAATCAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
18 4 0.09
19 26 0.57
20 16 0.35
ACGTcount: A:0.88, C:0.01, G:0.10, T:0.01
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAGA
Found at i:9701684 original size:73 final size:72
Alignment explanation
Indices: 9701544--9701944 Score: 475
Period size: 73 Copynumber: 5.4 Consensus size: 72
9701534 AATCAGCAAC
* *
9701544 GTCTCGCTTGAGAGCA-TTTCACTCGAAACATA-AATTTTATCTCACTTGAGATTGTTTTTCGTA
1 GTCTCGCTTGAGA-CAGTTTCACTAGAAACA-ACAA-TTTATCTCACTTGAGATTGTTTTTCTTA
9701607 AAACAAACTTT
63 AAACAAA-TTT
*
9701618 GTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTAACTTGAGATTGTTTTTCTTAAAA
1 GTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
9701683 CAAATTTT
66 CAAA-TTT
* * * *
9701691 TTCTCGCTTGAGACAATTTCACTCGAAACAACAATTTATTTCACTTGAGATTGTTTTTCTTAAAA
1 GTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
9701756 CAAACTTT
66 CAAA-TTT
* * *
9701764 GTCTCACTTGAGATAGTTTCACTCA-AAACAACAATTTATCTCACTTGAGATTATTTTTCTTAAA
1 GTCTCGCTTGAGACAGTTTCACT-AGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAA
9701828 ACAATATTT
65 ACAA-ATTT
* * * * * *
9701837 GTCTCTCTTGATACAATTGTTTCACTTGAAACAAGAAATTTTATCTCACTCGAGATAGTTTTTCT
1 GTCTCGCTTGAGAC-A--GTTTCACTAGAAACAA-CAA-TTTATCTCACTTGAGATTGTTTTTCT
*
9701902 GAAAACAAGATTT
61 TAAAACAA-ATTT
* * *
9701915 GTCTCGCTTGATACAATTTCACTAGCAACA
1 GTCTCGCTTGAGACAGTTTCACTAGAAACA
9701945 TCAACATTTC
Statistics
Matches: 286, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
73 180 0.63
74 30 0.10
75 12 0.04
76 14 0.05
77 3 0.01
78 47 0.16
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (72 bp):
GTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
CAAATTT
Found at i:9701782 original size:146 final size:146
Alignment explanation
Indices: 9701544--9701944 Score: 524
Period size: 146 Copynumber: 2.7 Consensus size: 146
9701534 AATCAGCAAC
*
9701544 GTCTCGCTTGAGAGC-ATTTCACTCGAAACATAAATTTTATCTCACTTGAGATTGTTTTTCGTAA
1 GTCTCGCTTGAGA-CAATTTCACTCGAAACA-AAATTTTATCTCACTTGAGATTGTTTTTCTTAA
*
9701608 AACAAACTTTGTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTAACTTGAGATTGTT
64 AACAAACTTTGTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTAACTTGAGATTATT
9701673 TTTCTTAAAACAA-ATTTT
129 TTTCTTAAAACAATA-TTT
* *
9701691 TTCTCGCTTGAGACAATTTCACTCGAAACAACAA-TTTATTTCACTTGAGATTGTTTTTCTTAAA
1 GTCTCGCTTGAGACAATTTCACTCGAAACAA-AATTTTATCTCACTTGAGATTGTTTTTCTTAAA
* * *
9701755 ACAAACTTTGTCTCACTTGAGATAGTTTCACTCA-AAACAACAATTTATCTCACTTGAGATTATT
65 ACAAACTTTGTCTCGCTTGAGACAGTTTCACT-AGAAACAACAATTTATCTAACTTGAGATTATT
9701819 TTTCTTAAAACAATATTT
129 TTTCTTAAAACAATATTT
* * * * *
9701837 GTCTCTCTTGATACAATTGTTTCACTTGAAACAAGAAATTTTATCTCACTCGAGATAGTTTTTCT
1 GTCTCGCTTGAGACAA---TTTCACTCGAAAC-A-AAATTTTATCTCACTTGAGATTGTTTTTCT
* * * *
9701902 GAAAACAAGA-TTTGTCTCGCTTGATACAATTTCACTAGCAACA
61 TAAAACAA-ACTTTGTCTCGCTTGAGACAGTTTCACTAGAAACA
9701945 TCAACATTTC
Statistics
Matches: 222, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
146 117 0.53
147 31 0.14
149 12 0.05
150 4 0.02
151 57 0.26
152 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (146 bp):
GTCTCGCTTGAGACAATTTCACTCGAAACAAAATTTTATCTCACTTGAGATTGTTTTTCTTAAAA
CAAACTTTGTCTCGCTTGAGACAGTTTCACTAGAAACAACAATTTATCTAACTTGAGATTATTTT
TCTTAAAACAATATTT
Found at i:9701829 original size:37 final size:36
Alignment explanation
Indices: 9701569--9701925 Score: 209
Period size: 36 Copynumber: 9.6 Consensus size: 36
9701559 ATTTCACTCG
* *
9701569 AAACATAAATTTTATCTCACTTGAGATTGTTTTTCGTA
1 AAACA-AAA-TTTATCTCACTTGAGATTATTTTTCTTA
* * * * * *
9701607 AAACAAACTTTGTCTCGCTTGAGA-CA-GTTTCACTA
1 AAACAAAATTTATCTCACTTGAGATTATTTTTC-TTA
* *
9701642 GAAACAACAATTTATCTAACTTGAGATTGTTTTTCTTA
1 -AAACAA-AATTTATCTCACTTGAGATTATTTTTCTTA
* * * ** ** **
9701680 AAACAAATTTTTTCTCGCTTGAGACAATTTCACTCG
1 AAACAAAATTTATCTCACTTGAGATTATTTTTCTTA
* *
9701716 AAACAACAATTTATTTCACTTGAGATTGTTTTTCTTA
1 AAACAA-AATTTATCTCACTTGAGATTATTTTTCTTA
* * ** *
9701753 AAACAAACTTTGTCTCACTTGAGA-TAGTTTCACTCA
1 AAACAAAATTTATCTCACTTGAGATTA-TTTTTCTTA
9701789 AAACAACAATTTATCTCACTTGAGATTATTTTTCTTA
1 AAACAA-AATTTATCTCACTTGAGATTATTTTTCTTA
* * * * ** *
9701826 AAACAATATTTGTCTCTCTTGATACAATTGTTTCACTTG
1 AAACAAAATTTATCTCACTTGAGATTATT-TTT--CTTA
* *
9701865 AAACAAGAAATTTTATCTCACTCGAGA-TAGTTTTTCTGA
1 AAAC-A-AAA-TTTATCTCACTTGAGATTA-TTTTTCTTA
* * *
9701904 AAACAAGATTTGTCTCGCTTGA
1 AAACAAAATTTATCTCACTTGA
9701926 TACAATTTCA
Statistics
Matches: 235, Mismatches: 68, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
34 4 0.02
35 3 0.01
36 100 0.43
37 80 0.34
38 10 0.04
39 17 0.07
40 1 0.00
41 6 0.03
42 14 0.06
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (36 bp):
AAACAAAATTTATCTCACTTGAGATTATTTTTCTTA
Found at i:9702166 original size:123 final size:123
Alignment explanation
Indices: 9701943--9702519 Score: 816
Period size: 123 Copynumber: 4.7 Consensus size: 123
9701933 TCACTAGCAA
* *
9701943 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAGGAGGAAGAAGAAGTTGAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
9702008 AATGACAAGAAATTGTTCAACCTTTTGCTTGAATCTATCGCAGAAGGAGATAGATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* * *
9702066 CATCAACATTTCCAGAAGGAGTTCATAGTGAGAAGAATTCATCTAAAGAGGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
9702131 AATGAGAAGAACTTGTTCAACATTTTGCTCAAATCTATCGCAGAAGGACATAGATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* * * * *
9702189 GATCAACATTTCTAGAAGGAGTTCATAATGAGAAGAACTCGTTTGAAGAGGAAAAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
9702254 AATGAGAAGAACTTGTTCAACCTTTTGTTCGACTCTATTC-CAGAAGGAGATATATCAG
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTA-TCGCAGAAGGAGATAGATCAG
* * *
9702312 CATCAACATTTCCAAAATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * * * * *
9702377 AATAAGAAGAACTTGTTCAACCTTTTACTTGATTC-ATCGTATATGGAGATAGATCAA
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
* * * *
9702434 CATCAACATTTTCGGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGATGAAGAAGAAGTTCAT
1 CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
*
9702499 AATGAGAATAACTTGTTCAAC
66 AATGAGAAGAACTTGTTCAAC
9702520 GTTAGATTGA
Statistics
Matches: 401, Mismatches: 51, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
121 2 0.00
122 91 0.23
123 306 0.76
124 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (123 bp):
CATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCTATCGCAGAAGGAGATAGATCAG
Found at i:9702378 original size:246 final size:244
Alignment explanation
Indices: 9701944--9702804 Score: 836
Period size: 246 Copynumber: 3.5 Consensus size: 244
9701934 CACTAGCAAC
* *
9701944 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAGGAGGAAGAAGAAGTTGATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * * *
9702009 ATGACAAGAAATTGTTCAACCTTTTGCTT-GAATCTATCGCAGAAGGAGATAGATCAGCATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGATTCGACTCTATCACAGAAGGAGATATATCAGCATCAAC
* * * * * *
9702073 ATTTCCAGAAGGAGTTCATAGTGAGAAGAATTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGA
131 ATTTCCA-AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATAAGA
9702138 AGAACTTGTTCAACATTTTGCTCAAATCTATCGCAGAAGGACATAGATCAGG
195 AGAACTTGTTCAACATTTTGCT-AAATCTATCGCAGAAGGA-ATAGATCAGG
* * * *
9702190 ATCAACATTTCTAGAAGGAGTTCATAATGAGAAGAACTCGTTTGAAGAGGAAAAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
9702255 ATGAGAAGAACTTGTTCAACCTTTTG-TTCGACTCTATTC-CAGAAGGAGATATATCAGCATCAA
66 ATGAGAAGAACTTGTTCAACCTTTTGATTCGACTCTA-TCACAGAAGGAGATATATCAGCATCAA
9702318 CATTTCCAAAATGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATAAG
130 CATTTCCAAAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATAAG
* * ** * * * **
9702383 AAGAACTTGTTCAACCTTTTACTTGAT-TCATCGTATATGGAGATAGATCAAC
194 AAGAACTTGTTCAACATTTTGCTAAATCT-ATCGCAGAAGGA-ATAGATCAGG
* * * *
9702435 ATCAACATTTTCGGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGATGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * ** * *
9702500 ATGAGAATAACTTGTTCAACGTTAGATTGATTC-ATCGCATATGGA-ATTGAATTAACAACACCT
66 ATGAGAAGAACTTGTTCAACCTT---TTGATTCGA-CTC-TAT-CACA--GAA-GGA-GATA--T
* * * *
9702563 CACTTGAGGCATTAACATTTTCAACGGAAGAGTTCATAATGAGAAGAACTCA-ATG-A-AGGAAT
119 -A--TCA-GCATCAACATTTCCAA---AAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAT
* * * *
9702625 AAGAAGTTCATAATTAGAAGAACTTGTTCAACATTTTGCTAGATTTCATCACAGAAGG---AGAT
177 AAGAAGTTCATAATAAGAAGAACTTGTTCAACATTTTGCTAAATCT-ATCGCAGAAGGAATAGAT
9702687 --GG
241 CAGG
* * ** * *
9702689 ATCACCATTTCCAGTGAAAGAGTTTGTAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCA
1 ATCAACATTTCCA--GAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
* * * *
9702754 TAATGAGAAAAACTTGTTCAACC-TTAG-TTCGATTCCATCACAGAAGGAGAT
64 TAATGAGAAGAACTTGTTCAACCTTTTGATTCGACTCTATCACAGAAGGAGAT
9702805 GGATCAACAT
Statistics
Matches: 508, Mismatches: 77, Indels: 60
0.79 0.12 0.09
Matches are distributed among these distances:
244 1 0.00
245 101 0.20
246 190 0.37
247 3 0.01
248 7 0.01
249 7 0.01
250 6 0.01
251 4 0.01
252 6 0.01
253 1 0.00
254 12 0.02
255 1 0.00
256 69 0.14
257 1 0.00
259 48 0.09
260 24 0.05
261 2 0.00
262 23 0.05
263 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (244 bp):
ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGATTCGACTCTATCACAGAAGGAGATATATCAGCATCAAC
ATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATAAGAA
GAACTTGTTCAACATTTTGCTAAATCTATCGCAGAAGGAATAGATCAGG
Found at i:9702837 original size:118 final size:119
Alignment explanation
Indices: 9702576--9702855 Score: 356
Period size: 118 Copynumber: 2.4 Consensus size: 119
9702566 TTGAGGCATT
* * * * *
9702576 AACATTTTCAACGGAAGAGTTCATAATGAGAAGAACTCAAT--G-A-AGGAATAAGAAGTTCATA
1 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTC-GTCCGAAGAGGAAGAAGAAGTTCATA
* * * * *
9702637 ATTAGAAGAACTTGTTCAACATTTTGCTAGATTTCATCACAGAAGGAGATGGATC
65 ATGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
* * **
9702692 ACCATTTCCAGT-GAAAGAGTTTGTAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATA
1 AACATTTCCAATGGAAA-AGTTCATAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATA
* *
9702756 ATGAGAAAAACTTGTTCAAC-CTTAGTTCGATTCCATCACAGAAGGAGATGGATC
65 ATGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
9702810 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAG
1 AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAG
9702856 TGAGTAAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
115 4 0.03
116 27 0.20
117 1 0.01
118 67 0.49
119 39 0.28
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (119 bp):
AACATTTCCAATGGAAAAGTTCATAATGAGAAGAACTCGTCCGAAGAGGAAGAAGAAGTTCATAA
TGAGAAAAACTTGTTCAACACTTAGCTAGATTCCATCACAGAAGGAGATGGATC
Found at i:9703062 original size:22 final size:22
Alignment explanation
Indices: 9703036--9703085 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
9703026 CATCCACGTT
9703036 GCAGCTCCACCCGACAGTTCCA
1 GCAGCTCCACCCGACAGTTCCA
9703058 GCAGCTCCACCCGACAGTTCCA
1 GCAGCTCCACCCGACAGTTCCA
9703080 GCAGCT
1 GCAGCT
9703086 TCCAGAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.44, G:0.20, T:0.14
Consensus pattern (22 bp):
GCAGCTCCACCCGACAGTTCCA
Found at i:9705382 original size:11 final size:11
Alignment explanation
Indices: 9705366--9705390 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9705356 CATGAAATTC
9705366 TAATTAAAACA
1 TAATTAAAACA
9705377 TAATTAAAACA
1 TAATTAAAACA
9705388 TAA
1 TAA
9705391 CAACAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATTAAAACA
Found at i:9706156 original size:38 final size:37
Alignment explanation
Indices: 9706107--9706230 Score: 96
Period size: 38 Copynumber: 3.4 Consensus size: 37
9706097 TATTTTTATT
9706107 AATAAAATAGGTTGCGCCCAAGAATGTCATAGTTTTG
1 AATAAAATAGGTTGCGCCCAAGAATGTCATAGTTTTG
* ** * * * *
9706144 AATAGAAATAGGTTGTG-ATATGTTATGT--TAATATT-
1 AATA-AAATAGGTTGCGCCCAAG-AATGTCATAGTTTTG
* *
9706179 AATAAAATAGGTAGCACCCAAGAATGTCAT-GATTTTG
1 AATAAAATAGGTTGCGCCCAAGAATGTCATAG-TTTTG
9706216 AATAGAAATAGGTTG
1 AATA-AAATAGGTTG
9706231 TGATATTTTA
Statistics
Matches: 62, Mismatches: 17, Indels: 15
0.66 0.18 0.16
Matches are distributed among these distances:
34 13 0.21
35 6 0.10
36 9 0.15
37 10 0.16
38 24 0.39
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (37 bp):
AATAAAATAGGTTGCGCCCAAGAATGTCATAGTTTTG
Found at i:9706175 original size:78 final size:77
Alignment explanation
Indices: 9706042--9706269 Score: 281
Period size: 72 Copynumber: 3.0 Consensus size: 77
9706032 GAAGTACGAA
* * * * * * **
9706042 TGCGTCCAAGAATGTCATG-GTTCAGTAAGAAATAGATTGTGATCTGGAATGTTAATATTTTTAT
1 TGCGCCCAAGAATGTCATGTTTTGAAT-AGAAATAGGTTGTGATATGTTATGTTAATATTTTTAT
9706106 TAATAAAATAGGT
65 TAATAAAATAGGT
9706119 TGCGCCCAAGAATGTCATAGTTTTGAATAGAAATAGGTTGTGATATGTTATGTT-A-A----TAT
1 TGCGCCCAAGAATGTCAT-GTTTTGAATAGAAATAGGTTGTGATATGTTATGTTAATATTTTTAT
9706178 TAATAAAATAGGT
65 TAATAAAATAGGT
* * *
9706191 AGCACCCAAGAATGTCATGATTTTGAATAGAAATAGGTTGTGATATTTTATGTTAATATTTTTAT
1 TGCGCCCAAGAATGTCATG-TTTTGAATAGAAATAGGTTGTGATATGTTATGTTAATATTTTTAT
9706256 TAATAAAATAGGT
65 TAATAAAATAGGT
9706269 T
1 T
9706270 ATGCCAAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
71 1 0.01
72 65 0.50
73 1 0.01
74 1 0.01
76 1 0.01
77 18 0.14
78 39 0.30
79 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (77 bp):
TGCGCCCAAGAATGTCATGTTTTGAATAGAAATAGGTTGTGATATGTTATGTTAATATTTTTATT
AATAAAATAGGT
Found at i:9707572 original size:102 final size:100
Alignment explanation
Indices: 9707277--9707635 Score: 407
Period size: 101 Copynumber: 3.5 Consensus size: 100
9707267 CCTACATTTG
* *
9707277 CATAATATAAAA-GGTTTCAAACATATAATGTAAACAATTGACAATTAAAAAAGGCGCTATATAT
1 CATAATA-AAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAAAAGGCGC-AAATAT
* * *
9707341 AATGTTATACTTTTAAATTTGTTTTGTCTTACTTTTG
64 AATGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
** * ** * * * * *
9707378 CATAATAAAAACAATTTCAAAGATATAACCTAAATGGTTGATAATTAAAAGTAGGCGCAATTATA
1 CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAA-AAGGCGCAAATATA
* *
9707443 ATGTTAAAGTTATAAATTTGTTTTGTCTTTCTTTTT
65 ATGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
* * * *
9707479 CATAATAAAAATGGTTTTAAACATATAATGTAAACGATTGACAATTTAAAAAAGGCGCAACCTAG
1 CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAA-TTAAAAAAGGCGCAA-ATAT
*
9707544 AATGTTAAACTTATAAACTTGTTTTGTCTTACTTTTTT
64 AATGTTAAACTTATAAATTTGTTTTGTCTTAC-TTTTT
* * *
9707582 CATAACATAAACGCTTTCAAACATATAATGTAAACAGA-TGACAATTTAAAAAAG
1 CATAATAAAAACGGTTTCAAACATATAATGTAAAC-GATTGACAA-TTAAAAAAG
9707636 TATGGATACT
Statistics
Matches: 214, Mismatches: 38, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
100 4 0.02
101 114 0.53
102 43 0.20
103 51 0.24
104 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (100 bp):
CATAATAAAAACGGTTTCAAACATATAATGTAAACGATTGACAATTAAAAAAGGCGCAAATATAA
TGTTAAACTTATAAATTTGTTTTGTCTTACTTTTT
Found at i:9707895 original size:76 final size:77
Alignment explanation
Indices: 9707763--9707980 Score: 278
Period size: 77 Copynumber: 2.8 Consensus size: 77
9707753 TTTTTCCTTT
* * *
9707763 TTTTAATTAATAAAAATATTAACATTCCAGATCGTATCTTATTTCTTAGTGAACCATGACATTCT
1 TTTT-ATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCT
9707828 TGGGCGCAACCCA
65 TGGGCGCAACCCA
* * * * *
9707841 TTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCTTAGCGAACCATAACATTTTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACA-TTCT
*
9707905 TTGGCGCAACCCA
65 TGGGCGCAACCCA
* * * * *
9707918 TTTTTTTACTAAAAATATTAACATTGCATATCGCAATATATTTCTTAGTGAA-CATGACATTCT
1 TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCT
9707981 CGGGGGAAAC
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
76 31 0.26
77 65 0.54
78 25 0.21
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (77 bp):
TTTTATTAATAAAAATATTAACATTCCAGATCGCAACATATTTCTTAGTGAACCATGACATTCTT
GGGCGCAACCCA
Found at i:9708528 original size:14 final size:15
Alignment explanation
Indices: 9708504--9708565 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
9708494 GACACTCGTT
9708504 TTTTCTTCTATTTTA
1 TTTTCTTCTATTTTA
9708519 TTTT-TTCTATTTTA
1 TTTTCTTCTATTTTA
*
9708533 TTTCTATTCTAGTTTT-
1 TTT-TCTTCTA-TTTTA
* *
9708549 TTATCTT-TATTTCA
1 TTTTCTTCTATTTTA
9708563 TTT
1 TTT
9708566 ATATTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.08
14 17 0.44
15 8 0.21
16 7 0.18
17 4 0.10
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTCTTCTATTTTA
Found at i:9708537 original size:25 final size:25
Alignment explanation
Indices: 9708509--9708573 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
9708499 TCGTTTTTTC
9708509 TTCTATTTTATTTTTTCTAT-TTTAT
1 TTCTATTTTATTTTTT-TATCTTTAT
* *
9708534 TTCTATTCTAGTTTTTTATCTTTAT
1 TTCTATTTTATTTTTTTATCTTTAT
9708559 TTC-ATTTATATTTTT
1 TTCTATTT-TATTTTT
9708574 ATTGCAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (25 bp):
TTCTATTTTATTTTTTTATCTTTAT
Found at i:9710123 original size:14 final size:15
Alignment explanation
Indices: 9710099--9710143 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
9710089 GACACTCGTT
9710099 TTTTATTCTATTTTA
1 TTTTATTCTATTTTA
9710114 TTTT-TTCTATTTTA
1 TTTTATTCTATTTTA
*
9710128 TATCTATTCTAGTTTT
1 T-TTTATTCTA-TTTT
9710144 TTATCTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 11 0.42
15 6 0.23
16 5 0.19
17 4 0.15
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTATTCTATTTTA
Found at i:9710133 original size:25 final size:23
Alignment explanation
Indices: 9710099--9710168 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
9710089 GACACTCGTT
9710099 TTTTATTCTATTTTATTTTTTCTA
1 TTTTATTCTATTTTATTTTTT-TA
* *
9710123 TTTTATATCTATTCTAGTTTTTTA
1 TTTTAT-TCTATTTTATTTTTTTA
9710147 TCTTTATT-TCATTTATATTTTT
1 T-TTTATTCT-ATTT-TATTTTT
9710169 ATTGCAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 13 0.34
25 24 0.63
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (23 bp):
TTTTATTCTATTTTATTTTTTTA
Found at i:9710148 original size:17 final size:16
Alignment explanation
Indices: 9710102--9710149 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
9710092 ACTCGTTTTT
9710102 TATTCTATTTTAT-T-
1 TATTCTATTTTATATC
*
9710116 TTTTCTATTTTATATC
1 TATTCTATTTTATATC
*
9710132 TATTCTAGTTTTTTATC
1 TATTCTA-TTTTATATC
9710149 T
1 T
9710150 TTATTTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.43
15 1 0.04
16 6 0.21
17 9 0.32
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTCTATTTTATATC
Found at i:9711131 original size:13 final size:13
Alignment explanation
Indices: 9711113--9711138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9711103 GTCTTCATGC
9711113 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9711126 TTTTCAGGCTCGT
1 TTTTCAGGCTCGT
9711139 ATCATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTCAGGCTCGT
Found at i:9711763 original size:18 final size:19
Alignment explanation
Indices: 9711722--9711763 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
9711712 AATGTCAAAA
9711722 ATAAA-TTTATAAGTGTTT
1 ATAAATTTTATAAGTGTTT
9711740 ATAAATTTTATGAAGT-TTT
1 ATAAATTTTAT-AAGTGTTT
9711759 A-AAAT
1 ATAAAT
9711764 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (19 bp):
ATAAATTTTATAAGTGTTT
Found at i:9711945 original size:21 final size:21
Alignment explanation
Indices: 9711921--9711969 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
9711911 TTTCAAAGGT
9711921 AGGTTTCAAAATCTCTCTATA
1 AGGTTTCAAAATCTCTCTATA
9711942 AGGTTTCAAAATCTCTCTATA
1 AGGTTTCAAAATCTCTCTATA
9711963 AGGTTTC
1 AGGTTTC
9711970 GAAACCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
AGGTTTCAAAATCTCTCTATA
Found at i:9719753 original size:2 final size:2
Alignment explanation
Indices: 9719746--9719782 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9719736 TAAATCATTA
9719746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9719783 CAATGATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9721697 original size:16 final size:17
Alignment explanation
Indices: 9721676--9721707 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9721666 CTCGAAATAA
9721676 GAAG-AAAAAAGAAAAG
1 GAAGAAAAAAAGAAAAG
9721692 GAAGAAAAAAAGAAAA
1 GAAGAAAAAAAGAAAA
9721708 AATTGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
GAAGAAAAAAAGAAAAG
Found at i:9722192 original size:5 final size:5
Alignment explanation
Indices: 9722179--9722275 Score: 63
Period size: 5 Copynumber: 17.8 Consensus size: 5
9722169 TTCATCAGAA
*
9722179 AAAAT AAAAG AAAAAG AAAAG AAAAG AAAAG AAAAG ATGAAAG ATGAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG A--AAAG A--AAAG
* *
9722229 ATAAA- ATATG AAAAAG AAAAGG AAAAGG AAAA- AAAAG AAAAAG AAAA
1 A-AAAG AAAAG -AAAAG AAAA-G AAAA-G AAAAG AAAAG -AAAAG AAAA
9722276 AAAGAAATTG
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
4 5 0.06
5 34 0.44
6 27 0.35
7 12 0.15
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:9722193 original size:6 final size:6
Alignment explanation
Indices: 9722175--9722276 Score: 56
Period size: 6 Copynumber: 17.2 Consensus size: 6
9722165 CTCATTCATC
9722175 AGAAAA A-ATAAA AGAAAA AG-AAA AG-AAA AG-AAA AGAAAA GATGAAAGA
1 AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -A-GAAA-A
* * * * *
9722223 TGAAAG ATAAAA TATGAAAA AG-AAA AGGAAA AG-GAA A-AAAA AGAAAA
1 AGAAAA AGAAAA -A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
9722270 AGAAAA A
1 AGAAAA A
9722277 AAGAAATTGA
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
5 27 0.35
6 33 0.43
7 8 0.10
8 8 0.10
9 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (6 bp):
AGAAAA
Done.