Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 113 of 352
Found at i:36243892 original size:20 final size:20
Alignment explanation
Indices: 36243845--36243933 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
36243835 ATATTTCCTC
* *
36243845 AGAAATTTTGGTATTTTCTTT
1 AGAAATTTTGGTA-TTCCCTT
*
36243866 A-ATATTTTGGTATTCCCTT
1 AGAAATTTTGGTATTCCCTT
* *
36243885 AGAAATTTTGGAATCCCCTT
1 AGAAATTTTGGTATTCCCTT
* *
36243905 AGAATATTTT-GTAATCCCTC
1 AGAA-ATTTTGGTATTCCCTT
*
36243925 AAAAATTTT
1 AGAAATTTT
36243934 TGCATGAGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
19 11 0.20
20 38 0.69
21 6 0.11
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.46
Consensus pattern (20 bp):
AGAAATTTTGGTATTCCCTT
Found at i:36243915 original size:21 final size:21
Alignment explanation
Indices: 36243866--36243922 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
36243856 TATTTTCTTT
* *
36243866 AATATTTTGGTATTCCCTTAG
1 AATATTTTGGAATCCCCTTAG
36243887 AA-ATTTTGGAATCCCCTTAG
1 AATATTTTGGAATCCCCTTAG
*
36243907 AATATTTTGTAATCCC
1 AATATTTTGGAATCCC
36243923 TCAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (21 bp):
AATATTTTGGAATCCCCTTAG
Found at i:36244159 original size:20 final size:21
Alignment explanation
Indices: 36244134--36244186 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
36244124 TGGCATTCTC
36244134 TCAGAAATTTTGGA-ATTCCGT
1 TCAGAAATTTTGGATATTCC-T
**
36244155 T-AG-AATTTTTCATATTCCT
1 TCAGAAATTTTGGATATTCCT
36244174 TCAGAAATTTTGG
1 TCAGAAATTTTGG
36244187 TTTTGAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (21 bp):
TCAGAAATTTTGGATATTCCT
Found at i:36264589 original size:27 final size:27
Alignment explanation
Indices: 36264559--36264736 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
36264549 ATATTGAGCC
* * *
36264559 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
36264586 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
36264613 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
36264641 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
36264668 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
36264695 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
36264722 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36264737 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:36264652 original size:55 final size:55
Alignment explanation
Indices: 36264559--36264736 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
36264549 ATATTGAGCC
* * *
36264559 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
36264613 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
36264668 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
36264722 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36264737 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36264698 original size:82 final size:81
Alignment explanation
Indices: 36264580--36264735 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
36264570 TGCTATACAA
* * *
36264580 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
36264645 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
36264662 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
36264726 CACTTAGTGC
65 CACTTAGTGC
36264736 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36272647 original size:27 final size:27
Alignment explanation
Indices: 36272617--36272794 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
36272607 ATATTGAGCC
* * *
36272617 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
36272644 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
36272671 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
36272699 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
36272726 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
36272753 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
36272780 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36272795 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:36272710 original size:55 final size:55
Alignment explanation
Indices: 36272617--36272794 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
36272607 ATATTGAGCC
* * *
36272617 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
36272671 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
36272726 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
36272780 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36272795 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36272756 original size:82 final size:81
Alignment explanation
Indices: 36272638--36272793 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
36272628 TGCTATACAA
* * *
36272638 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
36272703 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
36272720 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
36272784 CACTTAGTGC
65 CACTTAGTGC
36272794 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36280715 original size:27 final size:27
Alignment explanation
Indices: 36280685--36280862 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
36280675 ATATTGAGCC
* * *
36280685 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
36280712 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
36280739 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
36280767 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
36280794 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
36280821 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
36280848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36280863 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:36280778 original size:55 final size:55
Alignment explanation
Indices: 36280685--36280862 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
36280675 ATATTGAGCC
* * *
36280685 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
36280739 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
36280794 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
36280848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36280863 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:36280824 original size:82 final size:81
Alignment explanation
Indices: 36280706--36280861 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
36280696 TGCTATACAA
* * *
36280706 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
36280771 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
36280788 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
36280852 CACTTAGTGC
65 CACTTAGTGC
36280862 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36284799 original size:21 final size:23
Alignment explanation
Indices: 36284758--36284799 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36284748 TTTTCTTTGG
36284758 TTTATAATATCACATTTAGTCTA
1 TTTATAATATCACATTTAGTCTA
*
36284781 TTTATTAT-TCACA-TTAGTC
1 TTTATAATATCACATTTAGTC
36284800 AATGTGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTATAATATCACATTTAGTCTA
Found at i:36294804 original size:20 final size:21
Alignment explanation
Indices: 36294779--36294823 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
36294769 GATAAATATT
36294779 AAATAAATATAAAT-CAGGTA
1 AAATAAATATAAATGCAGGTA
* *
36294799 AAATAATTATAAATGCATGTA
1 AAATAAATATAAATGCAGGTA
36294820 AAAT
1 AAAT
36294824 CATACTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (21 bp):
AAATAAATATAAATGCAGGTA
Found at i:36296330 original size:57 final size:57
Alignment explanation
Indices: 36296264--36296379 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
36296254 TGGTTTTACT
36296264 TACTTAATTCATAAGGGTGATTTAATAGTGAGCATTTCATTGTTCAATGTAAAAAGG
1 TACTTAATTCATAAGGGTGATTTAATAGTGAGCATTTCATTGTTCAATGTAAAAAGG
36296321 TACTTAATTCATAAGGGTGATTTAATAGTGAGCATTTCATTGTTCAATGTAAAAAGG
1 TACTTAATTCATAAGGGTGATTTAATAGTGAGCATTTCATTGTTCAATGTAAAAAGG
36296378 TA
1 TA
36296380 AGAAAATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (57 bp):
TACTTAATTCATAAGGGTGATTTAATAGTGAGCATTTCATTGTTCAATGTAAAAAGG
Found at i:36298076 original size:16 final size:16
Alignment explanation
Indices: 36298055--36298103 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
36298045 TTTATAAACT
36298055 ATTTTATATATTATTC
1 ATTTTATATATTATTC
36298071 ATTTTA-A-ATT-TT-
1 ATTTTATATATTATTC
*
36298083 -TTTTATATAGTATTC
1 ATTTTATATATTATTC
36298098 ATTTTA
1 ATTTTA
36298104 AACTGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
11 5 0.19
12 1 0.04
13 4 0.15
14 5 0.19
15 1 0.04
16 11 0.41
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTATATATTATTC
Found at i:36298085 original size:26 final size:25
Alignment explanation
Indices: 36298056--36298218 Score: 104
Period size: 26 Copynumber: 6.5 Consensus size: 25
36298046 TTATAAACTA
36298056 TTTTATATATTATTCATTTTAAATTTT
1 TTTTATATATTATT-ATTTTAAA-TTT
* * *
36298083 TTTTATATAGTATTCATTTTAAACTG
1 TTTTATATATTATT-ATTTTAAATTT
* * *
36298109 TTTTA-ATACATATTATTTTGAATTA
1 TTTTATATA-TTATTATTTTAAATTT
* * *
36298134 TTTTATATATTAATTACTTTACATTG
1 TTTTATATATT-ATTATTTTAAATTT
* * *
36298160 ATTTATTTA-T-TTATTTTAAACTCT
1 TTTTATATATTATTATTTTAAA-TTT
* *
36298184 TTTTATATATTA-T-TTTTGAATTG
1 TTTTATATATTATTATTTTAAATTT
36298207 TTTTAT-TATTAT
1 TTTTATATATTAT
36298219 AAATTTACAT
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
22 5 0.05
23 15 0.14
24 14 0.13
25 20 0.19
26 30 0.28
27 22 0.21
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATATATTATTATTTTAAATTT
Found at i:36298091 original size:27 final size:26
Alignment explanation
Indices: 36298056--36298197 Score: 98
Period size: 27 Copynumber: 5.5 Consensus size: 26
36298046 TTATAAACTA
36298056 TTTTATATATTATTCATTTTAAATTTT
1 TTTTATATATTATTCATTTTAAA-TTT
* * *
36298083 TTTTATATAGTATTCATTTTAAACTG
1 TTTTATATATTATTCATTTTAAATTT
* * *
36298109 TTTTA-ATACATATT-ATTTTGAATTA
1 TTTTATATA-TTATTCATTTTAAATTT
* *
36298134 TTTTATATATTAATT-ACTTTACA-TT
1 TTTTATATATT-ATTCATTTTAAATTT
** * *
36298159 GATT-TAT-TTATTTATTTTAAACTCT
1 TTTTATATATTATTCATTTTAAA-TTT
36298184 TTTTATATATTATT
1 TTTTATATATTATT
36298198 TTTGAATTGT
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
22 3 0.03
23 8 0.09
24 3 0.03
25 23 0.26
26 24 0.27
27 27 0.31
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTCATTTTAAATTT
Found at i:36298239 original size:74 final size:72
Alignment explanation
Indices: 36298093--36298240 Score: 158
Period size: 74 Copynumber: 2.0 Consensus size: 72
36298083 TTTTATATAG
* * *
36298093 TATTCATTTTAAACTGTTTTAATACATATTATTTTGAATTATTTTATATATTAATTACTTTACAT
1 TATTCATTTTAAACTCTTTT-ATACATATTATTTTGAATTATTTTATATATAAATTACTATACA-
36298158 TGATTTATT
64 TGATTTATT
* * *
36298167 TATTTATTTTAAACTCTTTT-TATATATTATTTTTGAATTGTTTTATTATTATAAATTTACATAT
1 TATTCATTTTAAACTCTTTTATACATATTA-TTTTGAATTATTTTA-TA-TATAAA-TTAC-TAT
36298231 AC-TG-TTTATT
61 ACATGATTTATT
36298241 CTTAAACTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
72 8 0.13
73 14 0.22
74 26 0.41
75 7 0.11
76 4 0.06
77 4 0.06
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (72 bp):
TATTCATTTTAAACTCTTTTATACATATTATTTTGAATTATTTTATATATAAATTACTATACATG
ATTTATT
Found at i:36298342 original size:23 final size:24
Alignment explanation
Indices: 36298306--36298352 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
36298296 TCTTAAACTC
36298306 TTTTATACATTATTAATTT-TATTT
1 TTTTATACATTATT-ATTTATATTT
*
36298330 TTTTATATA-TATTATTTATATTT
1 TTTTATACATTATTATTTATATTT
36298353 AACTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTATACATTATTATTTATATTT
Found at i:36298376 original size:35 final size:35
Alignment explanation
Indices: 36298321--36298388 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
36298311 TACATTATTA
*
36298321 ATTTTATTTTTTTATATATATTATTTATATTTAACT
1 ATTTTATTATTTTATATATATTATTTAT-TTTAACT
*
36298357 ATTTT-TTATTTTATGTATATTATTTATTTTAA
1 ATTTTATTATTTTATATATATTATTTATTTTAA
36298389 ATTTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 20 0.67
36 5 0.17
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (35 bp):
ATTTTATTATTTTATATATATTATTTATTTTAACT
Found at i:36298398 original size:35 final size:35
Alignment explanation
Indices: 36298321--36298399 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
36298311 TACATTATTA
* *
36298321 ATTTTATTTTTTTATATATATTATTTATATTTAACT
1 ATTTT-TTATTTTATATATATTATTTATATTTAAAT
*
36298357 ATTTTTTATTTTATGTATATTATTTAT-TTTAAAT
1 ATTTTTTATTTTATATATATTATTTATATTTAAAT
*
36298391 TTCTTTTTA
1 AT-TTTTTA
36298400 CATATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 7 0.18
35 26 0.68
36 5 0.13
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (35 bp):
ATTTTTTATTTTATATATATTATTTATATTTAAAT
Found at i:36298458 original size:26 final size:26
Alignment explanation
Indices: 36298372--36298568 Score: 121
Period size: 26 Copynumber: 7.8 Consensus size: 26
36298362 TTATTTTATG
*
36298372 TATATTATTTATTTTAAATTTCTTTTTA
1 TATATTATTTATTTTAAA-TT-GTTTTA
* * * *
36298400 CATATTATTTATTTTAGA---CTTTC
1 TATATTATTTATTTTAAATTGTTTTA
* *
36298423 TATA-T-GTTATTTTAAATTGTTATA
1 TATATTATTTATTTTAAATTGTTTTA
* *
36298447 TATATTATTTATTTTAAGTTG--CT-
1 TATATTATTTATTTTAAATTGTTTTA
*
36298470 T-TA-T-TTTATTTTAAATTGTTTTG
1 TATATTATTTATTTTAAATTGTTTTA
*
36298493 TATATTAATTATTTTAAATTGTTTT-
1 TATATTATTTATTTTAAATTGTTTTA
* ** *
36298518 TATAATACCTATTTTAAACTTATTTTTTA
1 TATATTATTTATTTTAAA--T-TGTTTTA
*
36298547 TATATTATTTATTTAAAATTGT
1 TATATTATTTATTTTAAATTGT
36298569 CTCATTATTT
Statistics
Matches: 129, Mismatches: 25, Indels: 32
0.69 0.13 0.17
Matches are distributed among these distances:
20 13 0.10
21 10 0.08
22 4 0.03
23 8 0.06
24 9 0.07
25 17 0.13
26 31 0.24
27 2 0.02
28 21 0.16
29 14 0.11
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (26 bp):
TATATTATTTATTTTAAATTGTTTTA
Found at i:36298489 original size:46 final size:46
Alignment explanation
Indices: 36298401--36298509 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 46
36298391 TTCTTTTTAC
*
36298401 ATATTATTTATTTTAGACTTTCTATATGTTATTTTAAATTGTTATAT
1 ATATTATTTATTTTA-ACTTGCTATATGTTATTTTAAATTGTTATAT
* * * * *
36298448 ATATTATTTATTTTAAGTTGCTTTATTTTATTTTAAATTGTTTTGT
1 ATATTATTTATTTTAACTTGCTATATGTTATTTTAAATTGTTATAT
*
36298494 ATATTAATTATTTTAA
1 ATATTATTTATTTTAA
36298510 ATTGTTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 40 0.73
47 15 0.27
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (46 bp):
ATATTATTTATTTTAACTTGCTATATGTTATTTTAAATTGTTATAT
Found at i:36298555 original size:25 final size:23
Alignment explanation
Indices: 36298380--36298556 Score: 78
Period size: 25 Copynumber: 7.3 Consensus size: 23
36298370 TGTATATTAT
*
36298380 TTATTTTAAATTTCTTTTTACATA
1 TTATTTTAAATTT-TTTTTATATA
*
36298404 TTA-TTT--ATTTTAGACTTTCTATATG
1 TTATTTTAAATTTT----TTT-TATATA
* *
36298429 TTATTTTAAATTGTTATATATATTA
1 TTATTTTAAATT-TTTTTTATA-TA
* **
36298454 TTTATTTT-AAGTTGCTTTAT-T-
1 -TTATTTTAAATTTTTTTTATATA
*
36298475 TTATTTTAAATTGTTTTGTATATTAA
1 TTATTTTAAATT-TTTTTTATA-T-A
*
36298501 TTATTTTAAATTGTTTTTATAATA
1 TTATTTTAAATTTTTTTTAT-ATA
*
36298525 CCTATTTTAAACTTATTTTTTATATA
1 -TTATTTTAAA-TT-TTTTTTATATA
36298551 TTATTT
1 TTATTT
36298557 ATTTAAAATT
Statistics
Matches: 114, Mismatches: 18, Indels: 41
0.66 0.10 0.24
Matches are distributed among these distances:
20 8 0.07
21 7 0.06
22 6 0.05
23 3 0.03
24 17 0.15
25 33 0.29
26 28 0.25
27 7 0.06
28 3 0.03
29 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (23 bp):
TTATTTTAAATTTTTTTTATATA
Found at i:36302255 original size:19 final size:19
Alignment explanation
Indices: 36302203--36302247 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
36302193 CGCCTCTTTT
*
36302203 TGCATT-CATTTTATTCATA
1 TGCATTACATTTCA-TCATA
36302222 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
36302241 TGCATTA
1 TGCATTA
36302248 AGTTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:36308568 original size:27 final size:27
Alignment explanation
Indices: 36308538--36308589 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
36308528 TATGGAGAAG
36308538 GATTGCATCAGTTATGCCAAGAAATAT
1 GATTGCATCAGTTATGCCAAGAAATAT
36308565 GATTGCATCAGTTATGCCAAGAAAT
1 GATTGCATCAGTTATGCCAAGAAAT
36308590 GCCATAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (27 bp):
GATTGCATCAGTTATGCCAAGAAATAT
Found at i:36310490 original size:44 final size:44
Alignment explanation
Indices: 36310382--36310494 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
36310372 CACCATGGCG
* * *
36310382 AATCTTATCTCCTTGAAGTTGCAGTGAAGTAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGTAGATTGAAGCCACA
* * * **
36310426 AATCTTATCTCGCAGAAGTTGTAGTGGAA-TAGATTGGAGTTACA
1 AATCTTATCTCCCTGAAGTTGTAGT-GAAGTAGATTGAAGCCACA
*
36310470 AATCTTATCTCCCTGGAGTTGTAGT
1 AATCTTATCTCCCTGAAGTTGTAGT
36310495 AGAGTGAACG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 54 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGAAGTAGATTGAAGCCACA
Found at i:36310660 original size:83 final size:81
Alignment explanation
Indices: 36310505--36310664 Score: 232
Period size: 83 Copynumber: 2.0 Consensus size: 81
36310495 AGAGTGAACG
* * *
36310505 AAGATAGCAAACCTTATCCCCTAAAGTTGTAGTGGGGCAAGTTGAAGCCACGAGTCTTATCTCCC
1 AAGATAGCAAACCTTATCCCCTAAAGTTGCAGTGGGGCAAGTTAAAGCCACAAGTCTTATCTCCC
36310570 TAGAGTTGCAGTGTCA
66 TAGAGTTGCAGTGTCA
* **
36310586 AAGATAGCAAACCTTATCCCCCTAAAGTTGCAGTGGGGGTAAGTTAAAGTTACAAGTCTTATCTC
1 AAGATAGCAAACCTTAT-CCCCTAAAGTTGCAGT-GGGGCAAGTTAAAGCCACAAGTCTTATCTC
36310651 CCT-GAAGTTGCAGT
64 CCTAG-AGTTGCAGT
36310665 AGAGTAGATT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
81 17 0.24
82 16 0.23
83 37 0.53
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (81 bp):
AAGATAGCAAACCTTATCCCCTAAAGTTGCAGTGGGGCAAGTTAAAGCCACAAGTCTTATCTCCC
TAGAGTTGCAGTGTCA
Found at i:36310986 original size:43 final size:44
Alignment explanation
Indices: 36310923--36311130 Score: 174
Period size: 44 Copynumber: 4.8 Consensus size: 44
36310913 CCACCATGTT
* * *
36310923 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAG-TTACAACCAC
1 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTACAACCAC
* ***
36310966 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGGTT-CAAGTGGC
1 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTACAA-CCAC
* * * *
36311010 CAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTGA-AGCCAC
1 AAACCTTATCT-CCTTAAAGTTGCAGTGGAGCAGATT-ACAACCAC
* * * * * * * *
36311054 TAATCTTATCTCCTTAAAGTTACAGTAGAGTAGATTAAAACTAT
1 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTACAACCAC
36311098 AAACCTTATCTTCC-TAAAGTTGCAGTGGAGCAG
1 AAACCTTATC-TCCTTAAAGTTGCAGTGGAGCAG
36311131 GTTGATGTTA
Statistics
Matches: 130, Mismatches: 27, Indels: 15
0.76 0.16 0.09
Matches are distributed among these distances:
43 40 0.31
44 80 0.62
45 10 0.08
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTACAACCAC
Found at i:36311120 original size:132 final size:131
Alignment explanation
Indices: 36310927--36311210 Score: 354
Period size: 132 Copynumber: 2.2 Consensus size: 131
36310917 CATGTTAAAC
* * * *
36310927 CTTATCTCCCTGAAGTTGCAGTGGAGTAGTTACAACCACAAACCTTATCTCCTTAAAGTTGCAGT
1 CTTATCTCCCTAAAGTTACAGTAGAGTAGTTAAAACCACAAACCTTATCTCCTTAAAGTTGCAGT
* * ** *
36310992 GGAGCAGGTTCAAGTGGCCAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGCCACTAA
66 GGAGCAGGTTCAAGTGACAAATCGCATCTCCCTGAAATTGCAATGGAGCAGATTGAAGCCACTAA
36311057 T
131 T
* * *
36311058 CTTATCTCCTTAAAGTTACAGTAGAGTAGATTAAAACTATAAACCTTATCTTCC-TAAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTAGAGTAG-TTAAAACCACAAACCTTATC-TCCTTAAAGTTGCA
* * * * * * * *
36311122 GTGGAGCAGGTTGATGTTACAAATCGCGTCTCCTTGAAGTTGCAATGGAGCATATTGAAGCCATT
64 GTGGAGCAGGTTCAAGTGACAAATCGCATCTCCCTGAAATTGCAATGGAGCAGATTGAAGCCACT
*
36311187 AGT
129 AAT
36311190 CTTATCTCCCTAAAGTTACAG
1 CTTATCTCCCTAAAGTTACAG
36311211 AGGAACATAT
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
131 25 0.19
132 101 0.78
133 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (131 bp):
CTTATCTCCCTAAAGTTACAGTAGAGTAGTTAAAACCACAAACCTTATCTCCTTAAAGTTGCAGT
GGAGCAGGTTCAAGTGACAAATCGCATCTCCCTGAAATTGCAATGGAGCAGATTGAAGCCACTAA
T
Found at i:36311121 original size:88 final size:88
Alignment explanation
Indices: 36310922--36311135 Score: 220
Period size: 88 Copynumber: 2.4 Consensus size: 88
36310912 TCCACCATGT
* *
36310922 TAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGTT-ACAACCACAAACCTTATCTCCTTAAAGT
1 TAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGTTGACAACCACAAACCTTATCTCCTTAAAGT
* * * * * *
36310986 TGCAGTGGAGCAGGTTCAAGTGG
66 TACAGTAGAGCAGATTAAACTGA
** * * * *
36311009 CCAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTGA-AGCCACTAATCTTATCTCCTTAAA
1 TAAACCTTATCTCCCT-AAAGTTGCAGTGGAGCAG-TTGACAACCACAAACCTTATCTCCTTAAA
*
36311072 GTTACAGTAGAGTAGATTAAAACT-A
64 GTTACAGTAGAGCAGATT-AAACTGA
*
36311097 TAAACCTTATCTTCCTAAAGTTGCAGTGGAGCAGGTTGA
1 TAAACCTTATCTCCCTAAAGTTGCAGTGGAGCA-GTTGA
36311136 TGTTACAAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
87 29 0.28
88 68 0.67
89 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (88 bp):
TAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGTTGACAACCACAAACCTTATCTCCTTAAAGT
TACAGTAGAGCAGATTAAACTGA
Found at i:36312955 original size:25 final size:25
Alignment explanation
Indices: 36312926--36313326 Score: 167
Period size: 25 Copynumber: 15.8 Consensus size: 25
36312916 TATAAACTAA
*
36312926 TTTATATATTATTCATTTTAAATTT
1 TTTATATATTATTTATTTTAAATTT
* * *
36312951 TTTATATAGTATTCATTTTAAACTGT
1 TTTATATATTATTTATTTTAAA-TTT
* *
36312977 TTTA-ATA-CATATTATTTTGAATTAT
1 TTTATATATTAT-TTATTTTAAATT-T
* * * *
36313002 TTTATATATTAATTACTTTACATTG
1 TTTATATATTATTTATTTTAAATTT
*
36313027 CTT-TAT-TTATTTATTTTAAACTCTT
1 TTTATATATTATTTATTTTAAA-T-TT
*
36313052 TTTATATATTA--T-TTTTGAA-TT
1 TTTATATATTATTTATTTTAAATTT
*
36313073 ATT-T-TATTA-TTA---TAAA-TT
1 TTTATATATTATTTATTTTAAATTT
* * *
36313091 TATATATACTGTTTATTTTTAAACTCTTTT
1 TTTATATATTATTTA-TTTTAAA----TTT
36313121 TTTATATAGATTATTTATTTTCAAA-TT
1 TTTATAT--ATTATTTATTTT-AAATTT
* * *
36313148 TTTATATATTGTTTATCTTAAACTCT
1 TTTATATATTATTTATTTTAAA-TTT
* * **
36313174 TTTATACATTATTCATTTTATTTTTT
1 TTTATATATTATTTATTTTA-AATTT
*
36313200 TTATATATATTATTTATATTAAATTATTT
1 TT-TATATATTATTTAT-TTTAA--ATTT
36313229 TTTATGTATATTATTTATTTTAAATTTCTT
1 TTTA--TATATTATTTATTTTAAA--T-TT
* * *
36313259 TTTACATATTATTTATTTTAGA--C
1 TTTATATATTATTTATTTTAAATTT
* *
36313282 TTTCTATA-T-GTTATTTTAAATTGT
1 TTTATATATTATTTATTTTAAATT-T
*
36313306 TATATATATTATTTATTTTAA
1 TTTATATATTATTTATTTTAA
36313327 GTTGCTTTAT
Statistics
Matches: 278, Mismatches: 55, Indels: 85
0.67 0.13 0.20
Matches are distributed among these distances:
18 6 0.02
19 6 0.02
20 5 0.02
21 16 0.06
22 1 0.00
23 17 0.06
24 22 0.08
25 58 0.21
26 51 0.18
27 26 0.09
28 21 0.08
29 10 0.04
30 26 0.09
31 4 0.01
32 9 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTATATATTATTTATTTTAAATTT
Found at i:36313107 original size:74 final size:73
Alignment explanation
Indices: 36312960--36313108 Score: 169
Period size: 74 Copynumber: 2.0 Consensus size: 73
36312950 TTTTATATAG
* * * *
36312960 TATTCATTTTAAACTGTTTTAATACATATTATTTTGAATTATTTTATATATTAATTACTTTACAT
1 TATTCATTTTAAACTCTTTT-ATACATATTATTTTGAATTATTTTATATATAAATTACTATACAC
36313025 TGCTTTATT
65 TGCTTTATT
* *
36313034 TATTTATTTTAAACTCTTTT-TATATATTATTTTTGAATTATTTTATTATTATAAATTTA-TATA
1 TATTCATTTTAAACTCTTTTATACATATTA-TTTTGAATTATTTTA-TA-TATAAA-TTACTATA
*
36313097 TACTG-TTTATT
62 CACTGCTTTATT
36313108 T
1 T
36313109 TTAAACTCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
72 8 0.12
73 15 0.23
74 27 0.42
75 11 0.17
76 3 0.05
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (73 bp):
TATTCATTTTAAACTCTTTTATACATATTATTTTGAATTATTTTATATATAAATTACTATACACT
GCTTTATT
Found at i:36313210 original size:24 final size:25
Alignment explanation
Indices: 36313173--36313219 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
36313163 TCTTAAACTC
36313173 TTTTATACATTATTCATTT-TATTTT
1 TTTTATACATTATT-ATTTATATTTT
*
36313198 TTTTATATA-TATTATTTATATT
1 TTTTATACATTATTATTTATATT
36313220 AAATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTATACATTATTATTTATATTTT
Found at i:36313217 original size:13 final size:14
Alignment explanation
Indices: 36313199--36313254 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
36313189 TTTTATTTTT
*
36313199 TTTATA-TATATTA
1 TTTATATTAAATTA
36313212 TTTATATTAAATTA
1 TTTATATTAAATTA
* *
36313226 TTTTTTATGTATATTA
1 -TTTATAT-TAAATTA
*
36313242 TTTATTTTAAATT
1 TTTATATTAAATT
36313255 TCTTTTTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 6 0.18
14 11 0.32
15 11 0.32
16 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTATATTAAATTA
Found at i:36313232 original size:30 final size:29
Alignment explanation
Indices: 36313193--36313274 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 29
36313183 TATTCATTTT
36313193 ATTTTTTTTATATATATTATTTATATTAA
1 ATTTTTTTTATATATATTATTTATATTAA
* *
36313222 ATTATTTTTTATGTATATTATTTATTTTAA
1 ATT-TTTTTTATATATATTATTTATATTAA
* *
36313252 ATTTCTTTT-TACATATTATTTAT
1 ATTTTTTTTATATATATTATTTAT
36313275 TTTAGACTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
28 12 0.26
29 8 0.17
30 27 0.57
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (29 bp):
ATTTTTTTTATATATATTATTTATATTAA
Found at i:36313238 original size:21 final size:20
Alignment explanation
Indices: 36313209--36313249 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
36313199 TTTATATATA
*
36313209 TTATTTATATTAAATTATTTT
1 TTATGTATATT-AATTATTTT
*
36313230 TTATGTATATTATTTATTTT
1 TTATGTATATTAATTATTTT
36313250 AAATTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATGTATATTAATTATTTT
Found at i:36313322 original size:47 final size:44
Alignment explanation
Indices: 36313264--36313367 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 44
36313254 TTCTTTTTAC
* *
36313264 ATATTATTTATTTTAGACTTTCTATATGTTATTTTAAATTGTTATAT
1 ATATTATTTATTTTA-ACTTGCTATATGTTATGTTAAATTGTT-T-T
* * *
36313311 ATATTATTTATTTTAAGTTGCTTTATTTTATGTTAAATTGTTTT
1 ATATTATTTATTTTAACTTGCTATATGTTATGTTAAATTGTTTT
*
36313355 ATGTTATTTATTT
1 ATATTATTTATTT
36313368 CATTCTTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 13 0.25
45 1 0.02
46 22 0.43
47 15 0.29
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (44 bp):
ATATTATTTATTTTAACTTGCTATATGTTATGTTAAATTGTTTT
Found at i:36313346 original size:20 final size:20
Alignment explanation
Indices: 36313317--36313361 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
36313307 ATATATATTA
* *
36313317 TTTATTTTAAGTTGCTTTAT
1 TTTATGTTAAATTGCTTTAT
*
36313337 TTTATGTTAAATTGTTTTAT
1 TTTATGTTAAATTGCTTTAT
*
36313357 GTTAT
1 TTTAT
36313362 TTATTTCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.64
Consensus pattern (20 bp):
TTTATGTTAAATTGCTTTAT
Found at i:36318539 original size:33 final size:34
Alignment explanation
Indices: 36318492--36318555 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
36318482 GGTGTACATT
36318492 CCTTTCCAAATGGTACACACAAAGTATACCTTTC
1 CCTTTCCAAATGGTACACACAAAGTATACCTTTC
* *
36318526 CCTTT-CATATGGTATACACAAAGTATACCT
1 CCTTTCCAAATGGTACACACAAAGTATACCT
36318556 AACCTTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (34 bp):
CCTTTCCAAATGGTACACACAAAGTATACCTTTC
Found at i:36318577 original size:32 final size:32
Alignment explanation
Indices: 36318503--36318594 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
36318493 CTTTCCAAAT
** *
36318503 GGTACACACAAAGTATACCTTTCCCTTTCATAT
1 GGTACACACAAAGTATACC-TAACCTTTCATAA
*
36318536 GGTATACACAAAGTATACCTAACCTTTC-TAA
1 GGTACACACAAAGTATACCTAACCTTTCATAA
* * *
36318567 GTTTACACACAAAGTGTACATAACCTTT
1 G-GTACACACAAAGTATACCTAACCTTT
36318595 TCAAGTTGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 3 0.06
32 29 0.58
33 18 0.36
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (32 bp):
GGTACACACAAAGTATACCTAACCTTTCATAA
Found at i:36320010 original size:51 final size:50
Alignment explanation
Indices: 36319926--36320193 Score: 239
Period size: 51 Copynumber: 5.4 Consensus size: 50
36319916 GGGCTGTTAC
** * * *
36319926 ACTGATTACATAAAGTTCTCTGTGTGAACTGTCTATACAAAGTATGTGCGT
1 ACTGATTATGTAAAGTTCTATGTGT-AATTGTCTATGCAAAGTATGTGCGT
*
36319977 ACTGATTATGTAAAGTTCTATGTTTGAATTGTCTATGCAAAGTATGTGCGT
1 ACTGATTATGTAAAGTTCTATGTGT-AATTGTCTATGCAAAGTATGTGCGT
* * *
36320028 ACT-AGTTATGTGACGTTCTATATGTGAA-----TA--CAAAGTATGT-CTGT
1 ACTGA-TTATGTAAAGTTCTATGTGT-AATTGTCTATGCAAAGTATGTGC-GT
* * * * *
36320072 ACTGGTTATGTGAAGTTCTATGTGTAATTATTTATGCAACGTATGTGCGT
1 ACTGATTATGTAAAGTTCTATGTGTAATTGTCTATGCAAAGTATGTGCGT
* * * * *
36320122 ACTAATTATGTAAAGTTTTATCTGTAAATTGTTTATGCAAAGTATGTGCAT
1 ACTGATTATGTAAAGTTCTATGTGT-AATTGTCTATGCAAAGTATGTGCGT
*
36320173 ACTAATTATGTAAAGTTCTAT
1 ACTGATTATGTAAAGTTCTAT
36320194 ATGTGCACTA
Statistics
Matches: 182, Mismatches: 23, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
43 3 0.02
44 33 0.18
46 2 0.01
48 2 0.01
50 32 0.18
51 110 0.60
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (50 bp):
ACTGATTATGTAAAGTTCTATGTGTAATTGTCTATGCAAAGTATGTGCGT
Found at i:36327206 original size:20 final size:20
Alignment explanation
Indices: 36327181--36327230 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
36327171 CCTCTCTCAA
*
36327181 AAAGAAACAAGTAAACAAAG
1 AAAGAAACAAATAAACAAAG
*
36327201 AAAGAAACAAATAAGCAAAG
1 AAAGAAACAAATAAACAAAG
36327221 AAAGAAACAA
1 AAAGAAACAA
36327231 TCTTTACAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAGAAACAAATAAACAAAG
Found at i:36327584 original size:20 final size:20
Alignment explanation
Indices: 36327559--36327597 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36327549 TGGAGTAAAA
*
36327559 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
36327579 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
36327598 CGTATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:36327603 original size:20 final size:20
Alignment explanation
Indices: 36327559--36327608 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
36327549 TGGAGTAAAA
* *
36327559 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAC
36327579 ATATCGATACCTTAAGAAAC
1 ATATCGATACCTTAAGAAAC
* *
36327599 GTATCAATAC
1 ATATCGATAC
36327609 TGGATCGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAC
Found at i:36344683 original size:24 final size:24
Alignment explanation
Indices: 36344669--36344719 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
36344659 TTATGCATTC
36344669 ATTATTATTACTATTTTATCATCT
1 ATTATTATTACTATTTTATCATCT
* * *
36344693 ATTATTATTATTTTTTTATTATCT
1 ATTATTATTACTATTTTATCATCT
36344717 ATT
1 ATT
36344720 CATCTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTATTATTACTATTTTATCATCT
Found at i:36344697 original size:21 final size:20
Alignment explanation
Indices: 36344667--36344706 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
36344657 ATTTATGCAT
36344667 TCATTATTATTACTATTTTA
1 TCATTATTATTACTATTTTA
*
36344687 TCATCTATTATTATTATTTT
1 TCAT-TATTATTACTATTTT
36344707 TTTATTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
TCATTATTATTACTATTTTA
Found at i:36345945 original size:24 final size:22
Alignment explanation
Indices: 36345900--36345945 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36345890 CGGGTAATTC
* *
36345900 TTTTATATACAGCAATTAATAA
1 TTTTATATAAAGCAAATAATAA
36345922 TTTTATATAAAGCATAATATATAA
1 TTTTATATAAAGCA-AATA-ATAA
36345946 GGGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTTATATAAAGCAAATAATAA
Found at i:36346410 original size:32 final size:32
Alignment explanation
Indices: 36346369--36346433 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
36346359 AATAAATTAG
36346369 TCCTAAAAAATGAAAAACTACATTATATTTCA
1 TCCTAAAAAATGAAAAACTACATTATATTTCA
36346401 TCCTAAAAAATGAAAAACTACATTATATTTCA
1 TCCTAAAAAATGAAAAACTACATTATATTTCA
36346433 T
1 T
36346434 ACTTTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (32 bp):
TCCTAAAAAATGAAAAACTACATTATATTTCA
Found at i:36346713 original size:24 final size:24
Alignment explanation
Indices: 36346680--36346725 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36346670 TATATTGGAT
* *
36346680 AAATAATATTCTTTTTTATCTTAA
1 AAATAATATTATTTTTCATCTTAA
*
36346704 AAATAGTATTATTTTTCATCTT
1 AAATAATATTATTTTTCATCTT
36346726 CATCCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (24 bp):
AAATAATATTATTTTTCATCTTAA
Found at i:36351803 original size:43 final size:43
Alignment explanation
Indices: 36351737--36351819 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
36351727 GAATCCTAGA
36351737 AACAATCAAAAACATGTCAATAAAACCCC-ATCTGACTATGAGC
1 AACAATCAAAAACATGTCAATAAAACCCCAAT-TGACTATGAGC
* * *
36351780 AACAGTCAAATACGTGTCAATAAAACCCCAATTGACTATG
1 AACAATCAAAAACATGTCAATAAAACCCCAATTGACTATG
36351820 TCATAAGCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.20
Consensus pattern (43 bp):
AACAATCAAAAACATGTCAATAAAACCCCAATTGACTATGAGC
Found at i:36357110 original size:49 final size:50
Alignment explanation
Indices: 36356946--36357122 Score: 211
Period size: 51 Copynumber: 3.5 Consensus size: 50
36356936 TGGATACCTG
* * *
36356946 GTGGCCTGCACATAGTACCAC-CTT-TGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-TA--CCAAGCTATCTTCTTCACAAA
* *
36356997 GTGGCCTTTACATAGTA-CACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTTACC-AAGCTATC-TTCTTCACAAA
36357048 GTGGCCTTCACATAGTACCACACTTGTTACCAAGCTATC-TCTTTC-CAAA
1 GTGGCCTTCACATAGTACCACACTTGTTACCAAGCTATCTTC-TTCACAAA
*
36357097 GTGGCCTTCACATAGTACCATACTTG
1 GTGGCCTTCACATAGTACCACACTTG
36357123 AGTCACTAGT
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
49 32 0.29
50 13 0.12
51 54 0.48
52 13 0.12
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTTACCAAGCTATCTTCTTCACAAA
Found at i:36361862 original size:3 final size:3
Alignment explanation
Indices: 36361854--36361887 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
36361844 TAAAGAAATC
* *
36361854 ATA ATA ATA ATA ATA ATA GTA ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36361888 CTAAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:36367230 original size:27 final size:27
Alignment explanation
Indices: 36367189--36367268 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
36367179 ATATCATATT
* * *
36367189 TGTAGGCTAGTATTACTGTAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
*
36367216 TGTAGGGTAGAATTACT-AAAAAGCCCC
1 TGTAGGGTAGAATTACTGAAATA-CCCC
**
36367243 TACAGGGTAGAATTACTGAAATACCC
1 TGTAGGGTAGAATTACTGAAATACCC
36367269 TTGCTTTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.07
27 37 0.84
28 4 0.09
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCC
Found at i:36367283 original size:27 final size:27
Alignment explanation
Indices: 36367253--36367568 Score: 244
Period size: 27 Copynumber: 11.7 Consensus size: 27
36367243 TACAGGGTAG
* * **
36367253 AATTACTGAAATACCCTTGCTTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
*
36367280 AATTACTG-AATACACC-TGATTTGTAA
1 AATTACCGAAATAC-CCTTGATTTGTAA
* *
36367306 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
**
36367333 AATTACCGAAATACCCTTGACCTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
36367360 AATTACCAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * *
36367387 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
36367414 AATTACCGAAATACACTTTATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * **
36367441 AATTACAGAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
** *
36367468 AATTACAAAAATACCCTTGACTTT-CAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
*** * *
36367495 AATTTATAAAAATACCATTGGTTTGTAA
1 AA-TTACCGAAATACCCTTGATTTGTAA
* *
36367523 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
36367550 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
36367569 TATGGTGAAA
Statistics
Matches: 239, Mismatches: 42, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
26 21 0.09
27 195 0.82
28 23 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:36367863 original size:41 final size:41
Alignment explanation
Indices: 36367812--36367968 Score: 242
Period size: 41 Copynumber: 3.8 Consensus size: 41
36367802 AGAAATTGAA
* * * * *
36367812 GATCGTATGGTTGCTTGATGACCGTGGATCCACCGATTGAG
1 GATCGCATGGTTGCTTGACGACCGTAGATCCACCAATTAAG
*
36367853 GATCGCATGGTTGCTTGACGATCGTAGATCCACCAATTAAG
1 GATCGCATGGTTGCTTGACGACCGTAGATCCACCAATTAAG
36367894 GATCGCATGGTTGCTTGACGACCGTAGATCCACCAATTAAG
1 GATCGCATGGTTGCTTGACGACCGTAGATCCACCAATTAAG
* *
36367935 GATCGCATGGTTGCTTGACGATCGTGGATCCACC
1 GATCGCATGGTTGCTTGACGACCGTAGATCCACC
36367969 GATGGCTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (41 bp):
GATCGCATGGTTGCTTGACGACCGTAGATCCACCAATTAAG
Found at i:36368395 original size:22 final size:22
Alignment explanation
Indices: 36368377--36368428 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
36368367 CGTTGCTTCA
*
36368377 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATATGCTATC
* *
36368399 TTGTTTACTGCTATATGCTATC
1 ATGTTTACGGCTATATGCTATC
*
36368421 CTGTTTAC
1 ATGTTTAC
36368429 AACCTTGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (22 bp):
ATGTTTACGGCTATATGCTATC
Found at i:36368557 original size:25 final size:25
Alignment explanation
Indices: 36368523--36368573 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
36368513 TAGGTAGTGC
36368523 AGGGTTGGATGGGATGGGTTAGCAT
1 AGGGTTGGATGGGATGGGTTAGCAT
36368548 AGGGTTGGATGGGATGGGTTAGCAT
1 AGGGTTGGATGGGATGGGTTAGCAT
36368573 A
1 A
36368574 TATTTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (25 bp):
AGGGTTGGATGGGATGGGTTAGCAT
Found at i:36371157 original size:27 final size:27
Alignment explanation
Indices: 36371127--36371202 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
36371117 CTCATATCTG
* *
36371127 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* * *
36371154 TAGGGTAGAATTACTAAAATGCCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTA
36371181 TAGGGTAGAATTACTGAAATAC
1 TAGGGTAGAATTACTGAAATAC
36371203 TCTTGGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:36371219 original size:27 final size:27
Alignment explanation
Indices: 36371189--36371537 Score: 285
Period size: 27 Copynumber: 13.0 Consensus size: 27
36371179 TGTAGGGTAG
* * **
36371189 AATTACTGAAATACTCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
*
36371216 AATTACTG-AATACCCCT-AGTTTGTAA
1 AATTACTGAAATACCCTTGA-TTTGTAA
*
36371242 AATTACCT-AAATACCCTAG-TTTGTAA
1 AATTA-CTGAAATACCCTTGATTTGTAA
** * * *
36371268 AATTACCAAAATACCCCTGGTTTGTGA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
36371295 AATTATTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
36371322 AATTACTAAAATACCCTTGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
*
36371349 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** * * *
36371376 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
36371403 AATTACTAAAATACTCTTGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * **
36371430 AATTACAGAAATACCCTTAATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
** * *
36371457 AATTACAAAAATACCTTTGACTTT-CAA
1 AATTACTGAAATACCCTTGA-TTTGTAA
* * *
36371484 AATTTACAGAAATACCATTGGTTTGTAA
1 AA-TTACTGAAATACCCTTGATTTGTAA
* *
36371512 AATTACCGAAATACCCTTGGTTTGTA
1 AATTACTGAAATACCCTTGATTTGTA
36371538 GATTTACCAA
Statistics
Matches: 263, Mismatches: 50, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
25 1 0.00
26 38 0.14
27 202 0.77
28 22 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:36371680 original size:25 final size:26
Alignment explanation
Indices: 36371651--36371710 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
36371641 TTGATTGATT
*
36371651 TGACTTTGTTTTGACTGAGA-TTGTA
1 TGACTTTGTTTGGACTGAGATTTGTA
* * *
36371676 TGACTATGATTGGACTGTGATTTGTA
1 TGACTTTGTTTGGACTGAGATTTGTA
*
36371702 TGATTTTGT
1 TGACTTTGT
36371711 ATGCCATGTG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48
Consensus pattern (26 bp):
TGACTTTGTTTGGACTGAGATTTGTA
Found at i:36371848 original size:42 final size:41
Alignment explanation
Indices: 36371801--36371889 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
36371791 GGATCGCATG
* * *
36371801 GTGGATCCATCGAATTGAGGATCGCATGGTTGCTTAACGACC
1 GTGGATCCACCG-ATTAAAGATCGCATGGTTGCTTAACGACC
* * * *
36371843 GTGGATCCGCCGATTAAAGATCGTATGGTTGCTTGACGATC
1 GTGGATCCACCGATTAAAGATCGCATGGTTGCTTAACGACC
36371884 GTGGAT
1 GTGGAT
36371890 TCGCCGGTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 30 0.75
42 10 0.25
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (41 bp):
GTGGATCCACCGATTAAAGATCGCATGGTTGCTTAACGACC
Found at i:36372075 original size:22 final size:22
Alignment explanation
Indices: 36372042--36372101 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
36372032 TTATTCTGAT
36372042 TATGGCTTTGTGCCAACCTATA
1 TATGGCTTTGTGCCAACCTATA
36372064 TATGG-TTCTGTGCCAACCTA-A
1 TATGGCTT-TGTGCCAACCTATA
* *
36372085 TTATAGCTGTGTGCCAA
1 -TATGGCTTTGTGCCAA
36372102 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 29 0.88
23 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
TATGGCTTTGTGCCAACCTATA
Found at i:36372331 original size:22 final size:22
Alignment explanation
Indices: 36372304--36372357 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
36372294 GTTGCTGTAA
*
36372304 TATTTACGGCTATGTGCTGTCT
1 TATTTACGGCTATGTGCTGTCC
* *
36372326 TGTTTAAGGCTATGTGCTGTCC
1 TATTTACGGCTATGTGCTGTCC
36372348 TATTTACGGC
1 TATTTACGGC
36372358 CTTGAGTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.43
Consensus pattern (22 bp):
TATTTACGGCTATGTGCTGTCC
Found at i:36373321 original size:39 final size:39
Alignment explanation
Indices: 36373278--36373357 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
36373268 CGAGAGTAAG
*
36373278 AACAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCT
1 AACAACTAACTCTAGGTTGATTAACTGAAATCTCTTTCT
*
36373317 AACAACTGACTCTAGGTTGATTAACTGAAATCTCTTTCT
1 AACAACTAACTCTAGGTTGATTAACTGAAATCTCTTTCT
36373356 AA
1 AA
36373358 TTAAAACCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
AACAACTAACTCTAGGTTGATTAACTGAAATCTCTTTCT
Found at i:36386257 original size:6 final size:6
Alignment explanation
Indices: 36386246--36386280 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
36386236 CTGCTCAGCT
36386246 TTGCCG TTGCCG TTGCCG TTGCCG TTGCCG TTGCC
1 TTGCCG TTGCCG TTGCCG TTGCCG TTGCCG TTGCC
36386281 ATTGTTGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (6 bp):
TTGCCG
Found at i:36390577 original size:69 final size:69
Alignment explanation
Indices: 36390466--36390595 Score: 242
Period size: 69 Copynumber: 1.9 Consensus size: 69
36390456 GGAGATAGGA
*
36390466 AAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGGGCTGACAGG
1 AAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGCTGACAGG
36390531 TTCC
66 TTCC
*
36390535 AAAACAGGAATAATAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGCTGA
1 AAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGCTGA
36390596 TAGAGTCTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (69 bp):
AAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGCTGACAGG
TTCC
Found at i:36398465 original size:21 final size:19
Alignment explanation
Indices: 36398425--36398472 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
36398415 TTACGTTTAT
*
36398425 TTTTTTTAATTAAGAGTTA
1 TTTTTTTAATTAAGAATTA
*
36398444 TTTTTTTAACTTCATGAATTA
1 TTTTTTTAA-TT-AAGAATTA
*
36398465 TTTATTTA
1 TTTTTTTA
36398473 TTTTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 13 0.54
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTTTAATTAAGAATTA
Found at i:36400872 original size:29 final size:30
Alignment explanation
Indices: 36400830--36400889 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
36400820 CATGGTTTGG
* *
36400830 CACATGGCCATGTG-CCAGCCTGTGTGGCT
1 CACATGGCCATGTGTCCAACCTGTGTAGCT
36400859 CACATGG-CAGTGTGTCCAACCTGTGTAGCT
1 CACATGGCCA-TGTGTCCAACCTGTGTAGCT
36400889 C
1 C
36400890 CTGAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 11 0.41
30 14 0.52
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (30 bp):
CACATGGCCATGTGTCCAACCTGTGTAGCT
Found at i:36405233 original size:8 final size:8
Alignment explanation
Indices: 36405220--36405276 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 8
36405210 AGGAGGGCTT
36405220 GATTGAAA
1 GATTGAAA
36405228 GATTG-AA
1 GATTGAAA
36405235 GATTGAAA
1 GATTGAAA
36405243 GA-TGAATA
1 GATTGAA-A
36405251 GA-T-AAA
1 GATTGAAA
*
36405257 GATTGAAG
1 GATTGAAA
36405265 GATTG-AA
1 GATTGAAA
36405272 GATTG
1 GATTG
36405277 TTTTTAAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
6 3 0.07
7 20 0.47
8 20 0.47
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (8 bp):
GATTGAAA
Found at i:36405240 original size:15 final size:15
Alignment explanation
Indices: 36405220--36405276 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
36405210 AGGAGGGCTT
36405220 GATTGAAAGATTGAA
1 GATTGAAAGATTGAA
36405235 GATTGAAAGA-TGAATA
1 GATTGAAAGATTG-A-A
36405251 GA-T-AAAGATTGAA
1 GATTGAAAGATTGAA
36405264 GGATTG-AAGATTG
1 -GATTGAAAGATTG
36405277 TTTTTAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 10 0.28
15 22 0.61
16 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (15 bp):
GATTGAAAGATTGAA
Found at i:36411019 original size:21 final size:21
Alignment explanation
Indices: 36410985--36411112 Score: 125
Period size: 21 Copynumber: 6.2 Consensus size: 21
36410975 ATACGCTAAT
36410985 AGAAGCTC--AAGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
36411004 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* * *
36411025 AGAAACTCTTAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* *
36411046 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCATAAGAGCTGAAC
* * * ** * *
36411067 AGAAACTCGTAGGAATTAAAT
1 AGAAGCTCATAAGAGCTGAAC
*
36411088 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTGAAC
36411109 AGAA
1 AGAA
36411113 AGTAAAACAA
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
19 8 0.09
21 81 0.91
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:36411045 original size:42 final size:42
Alignment explanation
Indices: 36410993--36411113 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
36410983 ATAGAAGCTC
* *
36410993 AAGAGCTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCTT
1 AAGAGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCGT
* *
36411035 AAGAGTTGAACAGAAGCTCGTAAGAGCTGAATAGAAACTCGT
1 AAGAGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCGT
* * * * *
36411077 AGGAATTAAATAGAAGCTCATAAGAGCTAAACAGAAA
1 AAGAGTTGAACAGAAGCTCATAAGAGCTGAACAGAAA
36411114 GTAAAACAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (42 bp):
AAGAGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCGT
Found at i:36412851 original size:93 final size:93
Alignment explanation
Indices: 36412739--36412910 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
36412729 CGCCCATAAG
*
36412739 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
36412803 AACAAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
*
36412832 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
36412897 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
36412911 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:36412905 original size:46 final size:46
Alignment explanation
Indices: 36412732--36412907 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
36412722 TGTAACCCGC
* *
36412732 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
36412778 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
36412828 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
36412871 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
36412908 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36414383 original size:20 final size:20
Alignment explanation
Indices: 36414334--36414383 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
36414324 TTGGAATTAA
*
36414334 ATCAATTAACTAGTTATTTG
1 ATCAATTAACTAATTATTTG
* *
36414354 ATCAAATTAACTAATTTTTTT
1 ATC-AATTAACTAATTATTTG
*
36414375 CTCAATTAA
1 ATCAATTAA
36414384 TAGTTTGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (20 bp):
ATCAATTAACTAATTATTTG
Found at i:36428892 original size:11 final size:11
Alignment explanation
Indices: 36428876--36428900 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36428866 TTAAAAAGAG
36428876 TCCGGGCTAAA
1 TCCGGGCTAAA
36428887 TCCGGGCTAAA
1 TCCGGGCTAAA
36428898 TCC
1 TCC
36428901 TTTCTATATT
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:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (11 bp):
TCCGGGCTAAA
Found at i:36430539 original size:42 final size:42
Alignment explanation
Indices: 36430486--36430593 Score: 153
Period size: 42 Copynumber: 2.6 Consensus size: 42
36430476 AGCTAAACAA
* * * *
36430486 AAGCTCGTAAGAGCTGAACAGAAACTCTTAAGAGTTGAATAG
1 AAGCTCATAAGAGCTGAACAGAAACTCGTAAGAATTAAATAG
* *
36430528 AAGCTCATAAGAGCTGAATAGAAACTCGTAGGAATTAAATAG
1 AAGCTCATAAGAGCTGAACAGAAACTCGTAAGAATTAAATAG
*
36430570 AAGCTCATAAGAGCTAAACAGAAA
1 AAGCTCATAAGAGCTGAACAGAAA
36430594 GTAAAACACG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACAGAAACTCGTAAGAATTAAATAG
Found at i:36430546 original size:21 final size:21
Alignment explanation
Indices: 36430486--36430584 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
36430476 AGCTAAACAA
* *
36430486 AAGCTCGTAAGAGCTGAACAG
1 AAGCTCATAAGAGCTGAATAG
* * *
36430507 AAACTCTTAAGAGTTGAATAG
1 AAGCTCATAAGAGCTGAATAG
36430528 AAGCTCATAAGAGCTGAATAG
1 AAGCTCATAAGAGCTGAATAG
* * * ** *
36430549 AAACTCGTAGGAATTAAATAG
1 AAGCTCATAAGAGCTGAATAG
36430570 AAGCTCATAAGAGCT
1 AAGCTCATAAGAGCT
36430585 AAACAGAAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (21 bp):
AAGCTCATAAGAGCTGAATAG
Found at i:36430587 original size:21 final size:21
Alignment explanation
Indices: 36430476--36430592 Score: 90
Period size: 21 Copynumber: 5.6 Consensus size: 21
36430466 GAAGCTTGAA
* *
36430476 AGCTAAACAAAAGCTCGTAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
36430497 AGCTGAACAGAAACTCTTAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
36430518 AGTTGAATAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * * * *
36430539 AGCTGAATAGAAACTCGTAGG
1 AGCTAAACAGAAGCTCATAAG
** *
36430560 AATTAAATAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
36430581 AGCTAAACAGAA
1 AGCTAAACAGAA
36430593 AGTAAAACAC
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Found at i:36431066 original size:21 final size:20
Alignment explanation
Indices: 36431040--36431091 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
36431030 AATTTAATCT
36431040 ATTAACTAGTTTTTCTATCAA
1 ATTAACTAGTTTTTCTATC-A
* * *
36431061 ATTAACTAATTTTTTTCTCA
1 ATTAACTAGTTTTTCTATCA
36431081 ATTAA-TAGTTT
1 ATTAACTAGTTT
36431092 GAATAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 6 0.22
21 16 0.59
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTAACTAGTTTTTCTATCA
Found at i:36433251 original size:32 final size:32
Alignment explanation
Indices: 36433184--36433254 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
36433174 TACATGATAA
* * *
36433184 GTGTGTGTGAATTGTACATTTAATTGTTCTTT
1 GTGTGCGTGAATTGTACATTTAATTATTCTGT
*
36433216 GTGTGCGTGAATTGTGCATTTAATTATTGCGTGT
1 GTGTGCGTGAATTGTACATTTAATTATT-C-TGT
36433250 GTGTG
1 GTGTG
36433255 AGAGCATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 25 0.76
33 1 0.03
34 7 0.21
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (32 bp):
GTGTGCGTGAATTGTACATTTAATTATTCTGT
Found at i:36434630 original size:30 final size:31
Alignment explanation
Indices: 36434591--36434656 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
36434581 ATTAACTAGA
*
36434591 TTTAGTGGGAGTTAGTGGGGATATGAGTGG-
1 TTTAATGGGAGTTAGTGGGGATATGAGTGGC
36434621 TTTAATGGGAGTTAGTGGGGATATGAGTGGC
1 TTTAATGGGAGTTAGTGGGGATATGAGTGGC
36434652 TTTAA
1 TTTAA
36434657 AAAATATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.35
Consensus pattern (31 bp):
TTTAATGGGAGTTAGTGGGGATATGAGTGGC
Found at i:36441137 original size:20 final size:20
Alignment explanation
Indices: 36441114--36441185 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
36441104 CACTACGCTT
*
36441114 CCCCTGTTTGCACATTTGTG
1 CCCCTGTCTGCACATTTGTG
* **
36441134 CCCCTGCCTGCAC-TTCAATG
1 CCCCTGTCTGCACATT-TGTG
* * *
36441154 CCCTTGTTTGCTCATTTGTG
1 CCCCTGTCTGCACATTTGTG
36441174 CCCCTGTCTGCA
1 CCCCTGTCTGCA
36441186 ATTCGGTGCT
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 2 0.05
20 33 0.89
21 2 0.05
ACGTcount: A:0.10, C:0.36, G:0.18, T:0.36
Consensus pattern (20 bp):
CCCCTGTCTGCACATTTGTG
Found at i:36448097 original size:8 final size:8
Alignment explanation
Indices: 36448084--36448112 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
36448074 TATCCAAATC
36448084 TCATACAT
1 TCATACAT
36448092 TCATACAT
1 TCATACAT
36448100 TCATACAT
1 TCATACAT
36448108 TCATA
1 TCATA
36448113 TACAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
TCATACAT
Found at i:36450516 original size:27 final size:27
Alignment explanation
Indices: 36450486--36450679 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 27
36450476 ATTACTGAAA
36450486 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTT
* *
36450513 TACCTTTGATTTACAGAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTT
* * * *
36450540 TACCCTCGATTTAAAAAATTACTATTT
1 TACCCTTGATTTATAGAATTACCATTT
36450567 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTT
* * **
36450594 TACCCTTGATTTACAAAATTATTATTT
1 TACCCTTGATTTATAGAATTACCATTT
* * *
36450621 TGCCCTCGATTTATAGAATTACCGTTT
1 TACCCTTGATTTATAGAATTACCATTT
* *
36450648 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTTGATTTATAGAATTACCATTT
36450675 TACCC
1 TACCC
36450680 CTAGGGTGTT
Statistics
Matches: 142, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTTGATTTATAGAATTACCATTT
Found at i:36450614 original size:81 final size:81
Alignment explanation
Indices: 36450486--36450679 Score: 289
Period size: 81 Copynumber: 2.4 Consensus size: 81
36450476 ATTACTGAAA
* *
36450486 TACCCTTGATTTATAGAATTACCATTTTACCTTTGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTTGATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATT
*
36450551 TAAAAAATTACTATTT
66 TAAAAAATTACCATTT
** *
36450567 TACCCTTGATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTATTATTTTGCCCTCGATT
1 TACCCTTGATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATT
* * *
36450632 TATAGAATTACCGTTT
66 TAAAAAATTACCATTT
* *
36450648 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTTGATTTATAGAATTACCATTTTACCC
36450680 CTAGGGTGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (81 bp):
TACCCTTGATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATT
TAAAAAATTACCATTT
Found at i:36450703 original size:81 final size:79
Alignment explanation
Indices: 36450486--36450707 Score: 212
Period size: 81 Copynumber: 2.7 Consensus size: 79
36450476 ATTACTGAAA
* * * * * ** *
36450486 TACCCTTGATTTATAGAATTACCATTTTACCTTTGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTGGATTTA-A-AATGATTATTTTGCCCTCGATT
*
36450551 TAAAAAATTACTATTT
64 TAAAAAATTACCATTT
* * * *
36450567 TACCCTTGATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTATTATTTTGCCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTGGATTT--AAAATGATTATTTTGCCCTCGATT
* * *
36450632 TATAGAATTACCGTTT
64 TAAAAAATTACCATTT
* *
36450648 TACCCTCGATTTATAAAATTACCATTTTACCCCTAGGGTGTT-AAATGATTGTTTTGCCCT
1 TACCCTCGATTTATAAAATTACCATTTTA-CCCT-GGAT-TTAAAATGATTATTTTGCCCT
36450708 TGTGGGCAAG
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
81 112 0.92
82 5 0.04
83 3 0.02
84 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (79 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTGGATTTAAAATGATTATTTTGCCCTCGATTTA
AAAAATTACCATTT
Found at i:36451061 original size:27 final size:26
Alignment explanation
Indices: 36451009--36451068 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
36450999 ATATATATAT
*
36451009 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
36451035 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
36451062 ATATCTG
1 ATATCTG
36451069 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:36451226 original size:6 final size:6
Alignment explanation
Indices: 36451187--36451305 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
36451177 TTGCATTCAC
* * *
36451187 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
36451236 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTA ATTCTG ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
36451286 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
36451306 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:36451246 original size:25 final size:25
Alignment explanation
Indices: 36451218--36451284 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
36451208 CTTGATACTG
*
36451218 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
36451243 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
36451268 ATTCTAATTCTGATTCT
1 ATTCTGATTCTGATTCT
36451285 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:36451275 original size:31 final size:30
Alignment explanation
Indices: 36451187--36451284 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
36451177 TTGCATTCAC
* * * *
36451187 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGAT-CTA
*
36451218 ATTCTGATTCTAATTCTGTCA-C----CTA
1 ATTCTGATTCTGATTCTGTCACCTGATCTA
36451243 ATTCTGATTCTGATTCTGTCACCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGA-TCTA
36451274 ATTCTGATTCT
1 ATTCTGATTCT
36451285 CATTTTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 22 0.40
26 1 0.02
31 32 0.58
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATCTA
Found at i:36455476 original size:40 final size:40
Alignment explanation
Indices: 36455396--36455610 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
36455386 CAACCAAGTA
* *
36455396 CCTTCGGG-TTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
36455433 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
*
36455473 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
36455513 CCTTCGGGACTTAGCCCAGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
36455553 CCTTCGGG-GTTAGCCCGGA-ATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
36455592 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36455611 TTATCATCCA
Statistics
Matches: 156, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
37 8 0.05
38 8 0.05
39 41 0.26
40 97 0.62
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36463628 original size:40 final size:40
Alignment explanation
Indices: 36463545--36463760 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
36463535 CAACCAAGTA
** *
36463545 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
36463583 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
36463623 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
36463663 CCTTCGGGACTTAGCCCGGATATAATAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
36463703 CCTTCGGG-GTTAGCCCGGA-ATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
36463742 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36463761 TTATCATCCG
Statistics
Matches: 158, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 16 0.10
39 41 0.26
40 99 0.63
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:36479267 original size:47 final size:47
Alignment explanation
Indices: 36479189--36479544 Score: 572
Period size: 47 Copynumber: 7.6 Consensus size: 47
36479179 CCCTTCGGGA
* * * * * *
36479189 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36479235 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36479283 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36479330 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36479377 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36479424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36479471 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36479519 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
36479545 CACAATTATC
Statistics
Matches: 292, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
46 11 0.04
47 233 0.80
48 38 0.13
49 10 0.03
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36483171 original size:40 final size:40
Alignment explanation
Indices: 36483139--36483320 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
36483129 CCAGCATGAT
* * * *
36483139 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
36483179 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
36483219 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
36483259 TGCTCTTTGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*
36483299 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGCCCGG
36483321 TCAGAACTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:36483349 original size:96 final size:96
Alignment explanation
Indices: 36483228--36483513 Score: 518
Period size: 96 Copynumber: 3.0 Consensus size: 96
36483218 ATGCTCTTTG
* *
36483228 GAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
*
36483293 CACGAATGCTCTTCGGAACTTAGTCCGGTCA
66 CACGAATGCTCTTCGGAACTTAGTCCGGACA
36483324 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
*
36483389 CACGAATGCTCTTCGGAACTTAGTCCGGACG
66 CACGAATGCTCTTCGGAACTTAGTCCGGACA
*
36483420 GAACTTAGTCTGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
1 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
*
36483485 CACGAATGCTCTTCGAAACTTAGTCCGGA
66 CACGAATGCTCTTCGGAACTTAGTCCGGA
36483514 TCATCGTCGA
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 184 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (96 bp):
GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
CACGAATGCTCTTCGGAACTTAGTCCGGACA
Found at i:36483417 original size:40 final size:40
Alignment explanation
Indices: 36483324--36483417 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
36483314 AGTCCGGTCA
36483324 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCG
1 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCG
* * * * *
36483364 GGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG
1 GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCG
36483404 GAACTTAGTCCGGA
1 GAACTTAGTCCGGA
36483418 CGGAACTTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
GAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCG
Found at i:36483513 original size:40 final size:40
Alignment explanation
Indices: 36483421--36483514 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
36483411 GTCCGGACGG
* *
36483421 AACTTAGTCTGGATACAACACTAGCACGAATGCTCTTCGG
1 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGA
* * * * *
36483461 GATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGA
1 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGA
36483501 AACTTAGTCCGGAT
1 AACTTAGTCCGGAT
36483515 CATCGTCGAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (40 bp):
AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGA
Found at i:36483641 original size:38 final size:38
Alignment explanation
Indices: 36483572--36483646 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
36483562 GAATTTTAAT
*
36483572 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
36483610 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
36483647 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:36485857 original size:47 final size:47
Alignment explanation
Indices: 36485779--36486135 Score: 581
Period size: 47 Copynumber: 7.6 Consensus size: 47
36485769 CCCTTCGGGA
* * * * * *
36485779 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36485825 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36485873 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36485920 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36485967 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36486014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36486061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36486110 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
36486136 CACAATTATC
Statistics
Matches: 293, Mismatches: 14, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
46 2 0.01
47 242 0.83
48 2 0.01
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36491768 original size:40 final size:40
Alignment explanation
Indices: 36491711--36491797 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
36491701 GGCGTTTGGA
*
36491711 TAAAAAATGCCACTATAGATCGAGCATTAGCGGCGCTTTT
1 TAAAAAATGCCACTATAGATCGACCATTAGCGGCGCTTTT
** * * *
36491751 TAAAAAATGCCGTTATAGGTCGACCATTAGTGGTGCTTTT
1 TAAAAAATGCCACTATAGATCGACCATTAGCGGCGCTTTT
*
36491791 TGAAAAA
1 TAAAAAA
36491798 CACCACAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
TAAAAAATGCCACTATAGATCGACCATTAGCGGCGCTTTT
Found at i:36492241 original size:14 final size:14
Alignment explanation
Indices: 36492219--36492445 Score: 111
Period size: 14 Copynumber: 15.9 Consensus size: 14
36492209 TTAATTATCA
*
36492219 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
36492233 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * ***
36492247 ATATAGTAATTA-TCA
1 TTATGGT--TTAGGGT
*
36492262 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
36492276 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
36492290 ATATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
36492304 TTAAGGTTTAGGAGT
1 TTATGGTTTAGG-GT
*
36492319 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
* ** *
36492333 TTATGGATTATAGA
1 TTATGGTTTAGGGT
* * *
36492347 TCATGGGTATAGGGA
1 TTAT-GGTTTAGGGT
* *
36492362 TTATGGTTTATGGC
1 TTATGGTTTAGGGT
36492376 TTATGGTTTAAGGG-
1 TTATGGTTT-AGGGT
* *
36492390 TTAAGGTTTAAGGT
1 TTATGGTTTAGGGT
*
36492404 TTAGGGGTTTAGGGT
1 TTA-TGGTTTAGGGT
* * *
36492419 TTATGTTTTATGAT
1 TTATGGTTTAGGGT
*
36492433 TTAAGGTTTAGGG
1 TTATGGTTTAGGG
36492446 GATAGGAGTT
Statistics
Matches: 157, Mismatches: 44, Indels: 24
0.70 0.20 0.11
Matches are distributed among these distances:
12 3 0.02
13 6 0.04
14 105 0.67
15 38 0.24
16 3 0.02
17 2 0.01
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:36492271 original size:43 final size:43
Alignment explanation
Indices: 36492210--36492296 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
36492200 AATATTGAAT
36492210 TAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATAG
1 TAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATAG
36492253 TAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATAG
1 TAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATAG
36492296 T
1 T
36492297 TTAGGGTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (43 bp):
TAATTATCATTATAGTTTAGGGTTTATGGTTTAGGGTATATAG
Found at i:36492283 original size:7 final size:7
Alignment explanation
Indices: 36492262--36492442 Score: 69
Period size: 7 Copynumber: 25.4 Consensus size: 7
36492252 GTAATTATCA
*
36492262 TTATAGT
1 TTATGGT
*
36492269 TTAGGGT
1 TTATGGT
36492276 TTATGGT
1 TTATGGT
*
36492283 TTAGGGT
1 TTATGGT
* *
36492290 ATATAGT
1 TTATGGT
*
36492297 TTAGGGT
1 TTATGGT
*
36492304 TTAAGGT
1 TTATGGT
*
36492311 TTAGGAGT
1 TTATG-GT
36492319 TACTAT--T
1 T--TATGGT
*
36492326 TTAAGGT
1 TTATGGT
*
36492333 TTATGGA
1 TTATGGT
* *
36492340 TTATAGA
1 TTATGGT
*
36492347 TCATGGGT
1 TTAT-GGT
* * *
36492355 ATAGGGA
1 TTATGGT
36492362 TTATGGT
1 TTATGGT
*
36492369 TTATGGC
1 TTATGGT
36492376 TTATGGT
1 TTATGGT
* *
36492383 TTAAGGG
1 TTATGGT
*
36492390 TTAAGGT
1 TTATGGT
*
36492397 TTAAGGT
1 TTATGGT
*
36492404 TTAGGGGT
1 TTA-TGGT
*
36492412 TTAGGGT
1 TTATGGT
*
36492419 TTATGTT
1 TTATGGT
*
36492426 TTATGAT
1 TTATGGT
*
36492433 TTAAGGT
1 TTATGGT
36492440 TTA
1 TTA
36492443 GGGGATAGGA
Statistics
Matches: 129, Mismatches: 38, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
5 2 0.02
7 114 0.88
8 11 0.09
10 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (7 bp):
TTATGGT
Found at i:36492421 original size:36 final size:35
Alignment explanation
Indices: 36492380--36492471 Score: 87
Period size: 36 Copynumber: 2.6 Consensus size: 35
36492370 TATGGCTTAT
*
36492380 GGTTTAAGGGTTAAGGTTTAAGGTTTAGGGGTTTAG
1 GGTTTAAGGGTTAAGGTTTAAGGTTTAGGGG-ATAG
* ** * *
36492416 GGTTTATGTTTTATGATTTAAGGTTTAGGGGATAG
1 GGTTTAAGGGTTAAGGTTTAAGGTTTAGGGGATAG
*
36492451 GAG-TTAAGGGTTTAGGGTTTA
1 G-GTTTAAGGG-TTAAGGTTTA
36492472 GATTAATTAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
35 8 0.19
36 35 0.81
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (35 bp):
GGTTTAAGGGTTAAGGTTTAAGGTTTAGGGGATAG
Found at i:36492467 original size:7 final size:7
Alignment explanation
Indices: 36492267--36492472 Score: 67
Period size: 7 Copynumber: 28.9 Consensus size: 7
36492257 TATCATTATA
36492267 GTTTAGG
1 GTTTAGG
*
36492274 GTTTATG
1 GTTTAGG
36492281 GTTTAGG
1 GTTTAGG
* **
36492288 GTATATA
1 GTTTAGG
36492295 GTTTAGG
1 GTTTAGG
*
36492302 GTTTAAG
1 GTTTAGG
36492309 GTTTAGG
1 GTTTAGG
36492316 AGTTACTA--
1 -GTT--TAGG
* *
36492324 TTTTAAG
1 GTTTAGG
*
36492331 GTTTATG
1 GTTTAGG
* **
36492338 GATTATA
1 GTTTAGG
* *
36492345 GATCATGG
1 GTTTA-GG
*
36492353 GTATAGG
1 GTTTAGG
* *
36492360 GATTATG
1 GTTTAGG
*
36492367 GTTTATG
1 GTTTAGG
* *
36492374 GCTTATG
1 GTTTAGG
36492381 GTTTAAGG
1 GTTT-AGG
*
36492389 G-TTAAG
1 GTTTAGG
*
36492395 GTTTAAG
1 GTTTAGG
36492402 GTTTAGGG
1 GTTTA-GG
36492410 GTTTAGG
1 GTTTAGG
*
36492417 GTTTATG
1 GTTTAGG
* *
36492424 TTTTATG
1 GTTTAGG
* *
36492431 ATTTAAG
1 GTTTAGG
36492438 GTTTAGG
1 GTTTAGG
**
36492445 GGATAGG
1 GTTTAGG
*
36492452 AGTTAAGG
1 -GTTTAGG
36492460 GTTTAGG
1 GTTTAGG
36492467 GTTTAG
1 GTTTAG
36492473 ATTAATTAGT
Statistics
Matches: 147, Mismatches: 42, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
5 2 0.01
6 3 0.02
7 122 0.83
8 18 0.12
10 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:36493148 original size:18 final size:18
Alignment explanation
Indices: 36493097--36493150 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
36493087 CTCTCTGCCC
*
36493097 ATTCCCTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCTCA
*
36493115 ATTTCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
36493133 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
36493151 GCCTTTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCA
Found at i:36497545 original size:27 final size:26
Alignment explanation
Indices: 36497505--36497615 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
36497495 AGGAAGTGTC
* *
36497505 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
36497532 CTGGTGGCGCTGCCACATATATCCGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
36497559 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
** * *
36497586 CTGGTAACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
36497612 CTGG
1 CTGG
36497616 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:36498111 original size:15 final size:15
Alignment explanation
Indices: 36498091--36498121 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36498081 TGTTTTATTA
36498091 AGATAGGTATTACTT
1 AGATAGGTATTACTT
36498106 AGATAGGTATTACTT
1 AGATAGGTATTACTT
36498121 A
1 A
36498122 TATTTCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (15 bp):
AGATAGGTATTACTT
Found at i:36498971 original size:15 final size:16
Alignment explanation
Indices: 36498953--36498983 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36498943 TTTTTTTTCT
36498953 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
36498968 TATATATGATCTAAAA
1 TATATATGATCTAAAA
36498984 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:36499267 original size:16 final size:16
Alignment explanation
Indices: 36499246--36499277 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36499236 AATGGGTTTA
*
36499246 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
36499262 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
36499278 ATAAAGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:36506665 original size:46 final size:46
Alignment explanation
Indices: 36506598--36506769 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
36506588 TGTAACCCGC
* *
36506598 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
* * *
36506644 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCACAT
* * *
36506694 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
* *
36506737 CCATAAGTGAACTCGGACTCAACTCAACAAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
36506770 TGGATGCTCA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 55 0.53
47 25 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
Found at i:36506717 original size:93 final size:93
Alignment explanation
Indices: 36506605--36506776 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36506595 CGCCCATAAG
* *
36506605 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
36506670 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* * *
36506698 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
36506763 ACAAGTTTGGATGC
66 ACAAGTTCGGATGC
36506777 TCAATCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:36508897 original size:27 final size:27
Alignment explanation
Indices: 36508824--36508927 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
36508814 AAGCGTCCTA
* *
36508824 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGTTCTG
* ***
36508851 GTGGCGCTG-CTGTATATATCTGTTCTG
1 GTGGCTCTGCCACAAT-TATCTGTTCTG
36508878 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGTTCTG
* * *
36508905 GTGACTCTGTCAC-ATTATTTGTT
1 GTGGCTCTGCCACAATTATCTGTT
36508928 TTGGCACCCA
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
26 12 0.19
27 47 0.76
28 3 0.05
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGTTCTG
Found at i:36510278 original size:15 final size:16
Alignment explanation
Indices: 36510258--36510288 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36510248 TTTTTTTTCT
36510258 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
36510273 TATATATGATCTAAAA
1 TATATATGATCTAAAA
36510289 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:36512330 original size:43 final size:42
Alignment explanation
Indices: 36512215--36512412 Score: 238
Period size: 43 Copynumber: 4.6 Consensus size: 42
36512205 ATAATTTTTT
*
36512215 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* * *
36512258 TAAAGGTCTAT-TT-TATAGTGGCGTTTGTGGCAAAAGCGCCAC
1 TAAAGGTC-ATGTTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGC
* * * *
36512300 TAAAAGTCATGTTCTTTAGTGGTGTTTGTGGGAAAACCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
* *
36512343 TAAAGGTCATGTTCTTTAGCGGCGTTTTTTGGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCG-TTTGTGGAAAAGCGCCGC
*
36512386 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
36512413 TTTTCATAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.02
42 36 0.27
43 86 0.65
44 8 0.06
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:36519341 original size:21 final size:20
Alignment explanation
Indices: 36519312--36519351 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
36519302 CAAAACTTGT
36519312 ATAATTATCATCAAACATTC
1 ATAATTATCATCAAACATTC
36519332 ATAATCTATCATCAAACATT
1 ATAAT-TATCATCAAACATT
36519352 AAAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTATCATCAAACATTC
Found at i:36525163 original size:19 final size:19
Alignment explanation
Indices: 36525139--36525229 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
36525129 AATCATATCT
*
36525139 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
36525158 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
36525176 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
36525193 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
36525212 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
36525230 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.