Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 50 of 332
Found at i:14854795 original size:12 final size:12
Alignment explanation
Indices: 14854756--14854796 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
14854746 AATAATTAAT
14854756 TTTTATATAAAC
1 TTTTATATAAAC
* * *
14854768 TTTTAAATTAAT
1 TTTTATATAAAC
14854780 TTTTATATAAAC
1 TTTTATATAAAC
14854792 TTTTA
1 TTTTA
14854797 ACAAATATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:14855547 original size:40 final size:41
Alignment explanation
Indices: 14855411--14855577 Score: 246
Period size: 41 Copynumber: 4.1 Consensus size: 41
14855401 GTTATATGAC
14855411 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
14855452 TTTTAGCGGTGTTTTACCAAAAGTGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
14855493 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC-GGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
14855533 TTTTAGCGGCGTTTTATCAAAAACGCCTCTATTGCTTTGTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-GT
14855575 TTT
1 TTT
14855578 ACAATTTTTG
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 34 0.30
41 74 0.65
42 5 0.04
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:14855736 original size:45 final size:45
Alignment explanation
Indices: 14855672--14855769 Score: 180
Period size: 45 Copynumber: 2.2 Consensus size: 45
14855662 CTGGCATGGG
*
14855672 ACTTAGGTCTTGGGTTTGTTCGATGTGCATGACATTTTACTTTGC
1 ACTTAGGTTTTGGGTTTGTTCGATGTGCATGACATTTTACTTTGC
14855717 ACTTAGGTTTTGGGTTTGTTCGATGTGCATGACATTTTACTTTGC
1 ACTTAGGTTTTGGGTTTGTTCGATGTGCATGACATTTTACTTTGC
14855762 -CTTAGGTT
1 ACTTAGGTT
14855770 ATTGAAATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 8 0.15
45 44 0.85
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.46
Consensus pattern (45 bp):
ACTTAGGTTTTGGGTTTGTTCGATGTGCATGACATTTTACTTTGC
Found at i:14860265 original size:58 final size:58
Alignment explanation
Indices: 14860145--14860266 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 58
14860135 TATGTAGCAT
* * *
14860145 AAGACTATGGATGAAAGATGTCATGGAAACATGGTACAAGGTATAAGATATACGATGT
1 AAGACTATAGATGAAAGATGTCATGGAAACATGGTACAAGGTATAAGACATACGATGA
* * * *
14860203 AAGACTATAGATGAAAGATGTTATGGCAAC-TAGGTATAATG-AGTAAGACCATA-GATGA
1 AAGACTATAGATGAAAGATGTCATGGAAACAT-GGTACAAGGTA-TAAGA-CATACGATGA
14860261 AAGACT
1 AAGACT
14860267 CCATAGCGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.04
58 49 0.91
59 3 0.06
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.24
Consensus pattern (58 bp):
AAGACTATAGATGAAAGATGTCATGGAAACATGGTACAAGGTATAAGACATACGATGA
Found at i:14860392 original size:33 final size:33
Alignment explanation
Indices: 14860349--14860419 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
14860339 CCAAAACGAC
* *
14860349 AGTCTCTTGGGATAGTAAACGCAGAACA-AAGAT
1 AGTCTCTTGGGATAGTAAACACAAAACAGAA-AT
*
14860382 AGTCTGTTGGGATAGTAAACACAAAACAGAAAT
1 AGTCTCTTGGGATAGTAAACACAAAACAGAAAT
14860415 AGTCT
1 AGTCT
14860420 AGTGGAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (33 bp):
AGTCTCTTGGGATAGTAAACACAAAACAGAAAT
Found at i:14877192 original size:40 final size:40
Alignment explanation
Indices: 14877141--14877240 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
14877131 AAATATGCAG
*
14877141 TATTATATATAAAATTTTTATTTCATCCAATTATTATAAAT
1 TATTA-ATATAAAATTTTTATTTAATCCAATTATTATAAAT
* ** *
14877182 TATTAATATAAAATTTGTATTTAATTTAATTTTTATAAAT
1 TATTAATATAAAATTTTTATTTAATCCAATTATTATAAAT
*
14877222 TATTAATAT-AATTTTTTAT
1 TATTAATATAAAATTTTTAT
14877241 GTAACATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
39 8 0.15
40 39 0.75
41 5 0.10
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (40 bp):
TATTAATATAAAATTTTTATTTAATCCAATTATTATAAAT
Found at i:14880563 original size:20 final size:21
Alignment explanation
Indices: 14880540--14880580 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14880530 TTAAATAATT
*
14880540 TATATCACATAAAA-ATTAAA
1 TATATAACATAAAATATTAAA
*
14880560 TATATAATATAAAATATTAAA
1 TATATAACATAAAATATTAAA
14880581 AAATAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
TATATAACATAAAATATTAAA
Found at i:14880586 original size:20 final size:20
Alignment explanation
Indices: 14880548--14880590 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14880538 TTTATATCAC
*
14880548 ATAAAAATTAAATATATAAT
1 ATAAAAATTAAATAAATAAT
14880568 ATAAAATATTAAA-AAATAAT
1 ATAAAA-ATTAAATAAATAAT
14880588 ATA
1 ATA
14880591 GTGTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAATTAAATAAATAAT
Found at i:14883582 original size:20 final size:19
Alignment explanation
Indices: 14883543--14883582 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14883533 AATACAACAA
* *
14883543 ATATTTTTAAAATTTTATT
1 ATATTTTTAAAATATCATT
14883562 ATATTTTTAACAATATCATT
1 ATATTTTTAA-AATATCATT
14883582 A
1 A
14883583 ATCATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTTTAAAATATCATT
Found at i:14883877 original size:15 final size:15
Alignment explanation
Indices: 14883859--14883905 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
14883849 CTATTTAAAG
14883859 GTTTATGGATTATGT
1 GTTTATGGATTATGT
*
14883874 GTTTAGGGATTA--T
1 GTTTATGGATTATGT
*
14883887 GTTTATGGCTTATG-
1 GTTTATGGATTATGT
14883901 GTTTA
1 GTTTA
14883906 AGGGTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 11 0.41
14 5 0.19
15 11 0.41
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (15 bp):
GTTTATGGATTATGT
Found at i:14883945 original size:29 final size:28
Alignment explanation
Indices: 14883887--14883968 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
14883877 TAGGGATTAT
* *
14883887 GTTTAT-GGCTTATGGTTTAAGGGTTGGG
1 GTTTATAGG-TTATGGGTTAATGGTTGGG
*
14883915 GTTTA-AGGGTTATGGGTTAGTGGTTAGGG
1 GTTTATA-GGTTATGGGTTAATGGTT-GGG
14883944 GTTTATAGGTTATGGGTTAATGGTT
1 GTTTATAGGTTATGGGTTAATGGTT
14883969 TAAGGGTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 18 0.39
29 27 0.59
30 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (28 bp):
GTTTATAGGTTATGGGTTAATGGTTGGG
Found at i:14883960 original size:15 final size:15
Alignment explanation
Indices: 14883913--14883961 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
14883903 TTAAGGGTTG
14883913 GGGTTTA-AGGGTTAT
1 GGGTTTATA-GGTTAT
*
14883928 GGG-TTAGT-GGTTAG
1 GGGTTTA-TAGGTTAT
14883942 GGGTTTATAGGTTAT
1 GGGTTTATAGGTTAT
14883957 GGGTT
1 GGGTT
14883962 AATGGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (15 bp):
GGGTTTATAGGTTAT
Found at i:14883985 original size:22 final size:22
Alignment explanation
Indices: 14883943--14883990 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14883933 AGTGGTTAGG
* *
14883943 GGTTTATAGGTTATGGGTTAAT
1 GGTTTATAGGTTAAGGCTTAAT
14883965 GGTTTA-AGGGTTAAGGCTTAAT
1 GGTTTATA-GGTTAAGGCTTAAT
14883987 GGTT
1 GGTT
14883991 ATTATTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (22 bp):
GGTTTATAGGTTAAGGCTTAAT
Found at i:14884028 original size:14 final size:14
Alignment explanation
Indices: 14884009--14884054 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14883999 GTGGTTTAGG
14884009 GTTTAGGGGATATA
1 GTTTAGGGGATATA
* *
14884023 GTTTAGGGTACTTTA
1 GTTTAGGGGA-TATA
14884038 G--TAGGGGATATA
1 GTTTAGGGGATATA
14884050 GTTTA
1 GTTTA
14884055 ATGGTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 11 0.44
15 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGATATA
Found at i:14884195 original size:28 final size:29
Alignment explanation
Indices: 14884149--14884215 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
14884139 AATTCATACA
* *
14884149 TTTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
14884177 TTTTGTGGTTTATGG-TTAGGGGATATAG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
14884205 TTTAG-GGTTTA
1 TTTTGTGGTTTA
14884216 GGGGATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 23 0.68
29 5 0.15
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.48
Consensus pattern (29 bp):
TTTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:14884218 original size:21 final size:21
Alignment explanation
Indices: 14884184--14884236 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14884174 TTGTTTTGTG
*
14884184 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
14884204 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
*
14884225 GTTTAGAGTTTA
1 GTTTAGGGTTTA
14884237 AAGTTATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Found at i:14886113 original size:25 final size:25
Alignment explanation
Indices: 14886085--14886133 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14886075 CATCGCTGTT
* *
14886085 GGCAGCCCTCTGCTGC-ATCTCCATC
1 GGCAACCCACTGCTGCTA-CTCCATC
14886110 GGCAACCCACTGCTGCTACTCCAT
1 GGCAACCCACTGCTGCTACTCCAT
14886134 TTTCTGCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.16, C:0.43, G:0.18, T:0.22
Consensus pattern (25 bp):
GGCAACCCACTGCTGCTACTCCATC
Found at i:14887418 original size:36 final size:36
Alignment explanation
Indices: 14887378--14887492 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
14887368 TTAAACATTT
14887378 TATTTAATTTTTAAATTACCTAATTAAATTAAATTG
1 TATTTAATTTTTAAATTACCTAATTAAATTAAATTG
* ** * * ** *
14887414 TATTTAAAGTTTTATTTTGA-AT-ATGT-TATTTTATTT
1 TATTT-AATTTTTAAATT-ACCTAAT-TAAATTAAATTG
*
14887450 TATTTTATTTTTAAATTACCTAATTAAATTAAATTG
1 TATTTAATTTTTAAATTACCTAATTAAATTAAATTG
14887486 TATTTAA
1 TATTTAA
14887493 AGTTTTATTT
Statistics
Matches: 55, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
34 1 0.02
35 10 0.18
36 32 0.58
37 11 0.20
38 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (36 bp):
TATTTAATTTTTAAATTACCTAATTAAATTAAATTG
Found at i:14887454 original size:72 final size:72
Alignment explanation
Indices: 14887374--14887530 Score: 269
Period size: 72 Copynumber: 2.2 Consensus size: 72
14887364 TATTTTAAAC
14887374 ATTTTATTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
1 ATTTTATTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
*
14887439 TTATTTT
66 TTATTTG
* * *
14887446 ATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATATT
1 ATTTTATTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
14887511 TTATTTG
66 TTATTTG
14887518 ATTTTAATTTAAT
1 ATTTT-ATTTAAT
14887531 CACGGAAAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 73 0.92
73 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (72 bp):
ATTTTATTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
TTATTTG
Found at i:14887692 original size:111 final size:106
Alignment explanation
Indices: 14887447--14887783 Score: 541
Period size: 106 Copynumber: 3.1 Consensus size: 106
14887437 TGTTATTTTA
*
14887447 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* * *
14887511 TTATTTGATTTTAATTTAATCACGGAAAATATTTTGTCTTC
66 TTATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
14887552 TTTTATTTTGTTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
*
14887617 TTATTTTATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
14887658 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTCGAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT-TAA-A--
*
14887723 TTATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
62 -TATTTTATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
14887769 TTTTATTTTACTTTT
1 TTTTATTTTATTTTT
14887784 AATCTAATAG
Statistics
Matches: 215, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
105 9 0.04
106 146 0.68
107 2 0.01
108 1 0.00
111 57 0.27
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (106 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
TTATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:14891852 original size:28 final size:27
Alignment explanation
Indices: 14891768--14891852 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
14891758 GATTTTTTAA
* *
14891768 TTATATGTAATATTATAATTTTAATCTTG
1 TTATATGT-ATATTATTA-TTTAATATTG
*
14891797 GTA-ATGT-TA-TATTATTTAACTATT-
1 TTATATGTATATTATTATTTAA-TATTG
14891821 TTATATGTACTATTATTATTGTAAT-TTG
1 TTATATGTA-TATTATTATT-TAATATTG
14891849 TTAT
1 TTAT
14891853 TAAATTTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
24 7 0.16
25 11 0.24
26 2 0.04
27 4 0.09
28 16 0.36
29 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (27 bp):
TTATATGTATATTATTATTTAATATTG
Found at i:14893767 original size:31 final size:31
Alignment explanation
Indices: 14893729--14893794 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
14893719 TATATTTTTT
* *
14893729 ATGCTATATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
14893760 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
14893791 ATGC
1 ATGC
14893795 AGGAAGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.55
Consensus pattern (31 bp):
ATGCTATATTTGCTGTTTTTGGTTGGATTTA
Found at i:14893957 original size:43 final size:44
Alignment explanation
Indices: 14893866--14894006 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 44
14893856 GTGAAAAAAG
* *** *
14893866 CGCCACTAAAAGCCATGACTTTTAGCGGCGC-TTCCCCAACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
*
14893909 TGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATC-ATAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
* * * * *
14893952 CGCCGCTAAAAGTCTTGATCTTTT-GTGGCGTTTTTTTCAGATAAA
1 CGCCGCTAAAAGCCATGA-CTTTTAGCGGCGCTTTTATCA-ATAAA
14893997 CGCCGC-AAAA
1 CGCCGCTAAAA
14894007 TTTGGCGGCG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
43 59 0.72
44 12 0.15
45 11 0.13
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
Found at i:14897506 original size:37 final size:35
Alignment explanation
Indices: 14897465--14897574 Score: 95
Period size: 37 Copynumber: 3.1 Consensus size: 35
14897455 GTTATCAAAT
14897465 TATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGTTA
1 TATTGAGTTATGTTTTAGGTAGTTAATT-AAAAG-TA
* * *
14897502 TATTGAGTAATGATTTCCAGG-AATT-ATT-AAA-T-
1 TATTGAGTTATG-TTT-TAGGTAGTTAATTAAAAGTA
*
14897534 TATTGAGTTATGTTTTTGGTAGTTAATTATAAAGCTA
1 TATTGAGTTATGTTTTAGGTAGTTAATTA-AAAG-TA
14897571 TATT
1 TATT
14897575 AAGTAATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
30 2 0.04
31 6 0.11
32 14 0.25
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 18 0.32
38 6 0.11
39 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (35 bp):
TATTGAGTTATGTTTTAGGTAGTTAATTAAAAGTA
Found at i:14897573 original size:69 final size:69
Alignment explanation
Indices: 14897456--14897609 Score: 236
Period size: 69 Copynumber: 2.2 Consensus size: 69
14897446 ACAATTTTAG
* *
14897456 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGTTATATTGAGTAATGATTTCCA
1 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
*
14897521 GGAA
66 GAAA
* * * **
14897525 TTATTAAATTATTGAGTTATGTTTTTGGTAGTTAATTATAAAGCTATATTAAGTAATGATTTTTA
1 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
14897590 GAAA
66 GAAA
14897594 TTATCAAATTATTGAG
1 TTATCAAATTATTGAG
14897610 CTAATGGTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (69 bp):
TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
GAAA
Found at i:14897984 original size:30 final size:30
Alignment explanation
Indices: 14897945--14898002 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14897935 TAGGCACTTC
14897945 CACACGGGTA-ATCCACACACCCGTGTGTGA
1 CACACGGGTAGA-CCACACACCCGTGTGTGA
* * *
14897975 CACATGGGTAGACCACACGCCTGTGTGT
1 CACACGGGTAGACCACACACCCGTGTGT
14898003 CATGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTGA
Found at i:14901704 original size:18 final size:17
Alignment explanation
Indices: 14901671--14901709 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14901661 TTGTATAAAT
14901671 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14901689 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14901706 TGTG
1 TGTG
14901710 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14901962 original size:23 final size:23
Alignment explanation
Indices: 14901935--14902032 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
14901925 AGTGTTATTG
14901935 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
14901958 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
14901981 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14902003 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14902026 ATCAGTG
1 ATCAGTG
14902033 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14902001 original size:45 final size:45
Alignment explanation
Indices: 14901937--14902025 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
14901927 TGTTATTGAT
* *
14901937 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
14901982 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
14902026 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:14908590 original size:18 final size:17
Alignment explanation
Indices: 14908557--14908595 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14908547 TTGTATAAAT
14908557 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14908575 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14908592 TGTG
1 TGTG
14908596 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14908848 original size:23 final size:23
Alignment explanation
Indices: 14908821--14908918 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
14908811 AGTGTTATTG
14908821 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
14908844 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
14908867 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14908889 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14908912 ATCAGTG
1 ATCAGTG
14908919 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14908887 original size:45 final size:45
Alignment explanation
Indices: 14908823--14908911 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
14908813 TGTTATTGAT
* *
14908823 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
14908868 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
14908912 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:14920301 original size:28 final size:27
Alignment explanation
Indices: 14920217--14920301 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
14920207 GATTTTTTAA
* *
14920217 TTATATGTAATATTATAATTTTAATCTTG
1 TTATATGT-ATATTATTA-TTTAATATTG
*
14920246 GTA-ATGT-TA-TATTATTTAACTATT-
1 TTATATGTATATTATTATTTAA-TATTG
14920270 TTATATGTACTATTATTATTGTAAT-TTG
1 TTATATGTA-TATTATTATT-TAATATTG
14920298 TTAT
1 TTAT
14920302 TAAATTTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
24 7 0.16
25 11 0.24
26 2 0.04
27 4 0.09
28 16 0.36
29 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (27 bp):
TTATATGTATATTATTATTTAATATTG
Found at i:14922206 original size:31 final size:31
Alignment explanation
Indices: 14922168--14922233 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
14922158 TATATTTTTT
* *
14922168 ATGCTATATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
14922199 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
14922230 ATGC
1 ATGC
14922234 AGGAAGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.55
Consensus pattern (31 bp):
ATGCTATATTTGCTGTTTTTGGTTGGATTTA
Found at i:14922396 original size:43 final size:44
Alignment explanation
Indices: 14922305--14922445 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 44
14922295 GTGAAAAAAG
* *** *
14922305 CGCCACTAAAAGCCATGACTTTTAGCGGCGC-TTCCCCAACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
*
14922348 TGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATC-ATAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
* * * * *
14922391 CGCCGCTAAAAGTCTTGATCTTTT-GTGGCGTTTTTTTCAGATAAA
1 CGCCGCTAAAAGCCATGA-CTTTTAGCGGCGCTTTTATCA-ATAAA
14922436 CGCCGC-AAAA
1 CGCCGCTAAAA
14922446 TTTGGCGGCG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
43 59 0.72
44 12 0.15
45 11 0.13
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTATCAATAAA
Found at i:14925940 original size:37 final size:35
Alignment explanation
Indices: 14925899--14926008 Score: 95
Period size: 37 Copynumber: 3.1 Consensus size: 35
14925889 GTTATCAAAT
14925899 TATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGTTA
1 TATTGAGTTATGTTTTAGGTAGTTAATT-AAAAG-TA
* * *
14925936 TATTGAGTAATGATTTCCAGG-AATT-ATT-AAA-T-
1 TATTGAGTTATG-TTT-TAGGTAGTTAATTAAAAGTA
*
14925968 TATTGAGTTATGTTTTTGGTAGTTAATTATAAAGCTA
1 TATTGAGTTATGTTTTAGGTAGTTAATTA-AAAG-TA
14926005 TATT
1 TATT
14926009 AAGTAATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
30 2 0.04
31 6 0.11
32 14 0.25
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 18 0.32
38 6 0.11
39 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (35 bp):
TATTGAGTTATGTTTTAGGTAGTTAATTAAAAGTA
Found at i:14926007 original size:69 final size:69
Alignment explanation
Indices: 14925890--14926043 Score: 236
Period size: 69 Copynumber: 2.2 Consensus size: 69
14925880 ACAATTTTAG
* *
14925890 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGTTATATTGAGTAATGATTTCCA
1 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
*
14925955 GGAA
66 GAAA
* * * **
14925959 TTATTAAATTATTGAGTTATGTTTTTGGTAGTTAATTATAAAGCTATATTAAGTAATGATTTTTA
1 TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
14926024 GAAA
66 GAAA
14926028 TTATCAAATTATTGAG
1 TTATCAAATTATTGAG
14926044 CTAATGGTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (69 bp):
TTATCAAATTATTGAGTTATGTTTTAGGTAGTTAATTAAAAAGCTATATTAAGTAATGATTTCCA
GAAA
Found at i:14926418 original size:30 final size:30
Alignment explanation
Indices: 14926379--14926436 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14926369 TAGGCACTTC
14926379 CACACGGGTA-ATCCACACACCCGTGTGTGA
1 CACACGGGTAGA-CCACACACCCGTGTGTGA
* * *
14926409 CACATGGGTAGACCACACGCCTGTGTGT
1 CACACGGGTAGACCACACACCCGTGTGT
14926437 CATGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACACCCGTGTGTGA
Found at i:14931011 original size:151 final size:151
Alignment explanation
Indices: 14930744--14931035 Score: 575
Period size: 151 Copynumber: 1.9 Consensus size: 151
14930734 ACGAATGCCT
14930744 TTTGGATTATGTAATGCTCCTGCTACTTTTCAGCGATGCATGTTAGCCATTTTTTATGAACTCGT
1 TTTGGATTATGTAATGCTCCTGCTACTTTTCAGCGATGCATGTTAGCCATTTTTTATGAACTCGT
14930809 GGAAGACATTATAGAGATATTTATGGACGACTTCTCGGTATTCGGTAACTCTTTTCATCTTTGCC
66 GGAAGACATTATAGAGATATTTATGGACGACTTCTCGGTATTCGGTAACTCTTTTCATCTTTGCC
14930874 TCAAAAATTTATGTAATGCTC
131 TCAAAAATTTATGTAATGCTC
14930895 TTTGGATTATGTAATGCTCCTGCTACTTTTCAGCGATGCATGTTAGCCATTTTTTATGAACTCGT
1 TTTGGATTATGTAATGCTCCTGCTACTTTTCAGCGATGCATGTTAGCCATTTTTTATGAACTCGT
14930960 GGAAGACATTATAGAGATATTTATGGACGACTTCTCGGTATTCGGTAACTCTTTTCATCTTTGCC
66 GGAAGACATTATAGAGATATTTATGGACGACTTCTCGGTATTCGGTAACTCTTTTCATCTTTGCC
*
14931025 TCAAAATTTTA
131 TCAAAAATTTA
14931036 AAATGAGTTC
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 140 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (151 bp):
TTTGGATTATGTAATGCTCCTGCTACTTTTCAGCGATGCATGTTAGCCATTTTTTATGAACTCGT
GGAAGACATTATAGAGATATTTATGGACGACTTCTCGGTATTCGGTAACTCTTTTCATCTTTGCC
TCAAAAATTTATGTAATGCTC
Found at i:14932956 original size:17 final size:17
Alignment explanation
Indices: 14932933--14932971 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14932923 AGTCCATTTA
14932933 ATTTTCAATTTATTTTT
1 ATTTTCAATTTATTTTT
* *
14932950 CTTTTCATTTTATTTTT
1 ATTTTCAATTTATTTTT
14932967 ATTTT
1 ATTTT
14932972 AGCATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTCAATTTATTTTT
Found at i:14932982 original size:22 final size:21
Alignment explanation
Indices: 14932957--14933000 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14932947 TTTCTTTTCA
*
14932957 TTTTATTTTTATTTTAGCATTT
1 TTTTATCTTTA-TTTAGCATTT
* *
14932979 TTTTGTCTTTATTTATCATTT
1 TTTTATCTTTATTTAGCATTT
14933000 T
1 T
14933001 CTTAAAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTATCTTTATTTAGCATTT
Found at i:14942654 original size:17 final size:16
Alignment explanation
Indices: 14942620--14942650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14942610 CTTATTTACT
*
14942620 TTCCCTTAAACTTTTA
1 TTCCCTAAAACTTTTA
14942636 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
14942651 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:14950731 original size:28 final size:27
Alignment explanation
Indices: 14950675--14950729 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
14950665 GACTTTTGAA
**
14950675 TAATATTTTTGTTAAATAATAATTATT
1 TAATATTTTACTTAAATAATAATTATT
14950702 TAATATTTTACTTAAAATAATAA-TATT
1 TAATATTTTACTT-AAATAATAATTATT
14950729 T
1 T
14950730 TATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TAATATTTTACTTAAATAATAATTATT
Found at i:14952128 original size:16 final size:15
Alignment explanation
Indices: 14952107--14952148 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 15
14952097 GTTGATTTTT
14952107 TTATTTATTTAAAAAG
1 TTATTT-TTTAAAAAG
14952123 TTATTTTTTAAAAA-
1 TTATTTTTTAAAAAG
14952137 -TA-TTTTTAAAAA
1 TTATTTTTTAAAAA
14952149 TAATTTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTATTTTTTAAAAAG
Found at i:14963623 original size:79 final size:79
Alignment explanation
Indices: 14963531--14963689 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
14963521 TTAACAACAG
* * * * *
14963531 AAATCGAATAAATTTTGTTAAAC-AGCAAGAATAGAATCTTGAAATAGAATTGTTCAATTGATTT
1 AAATCGAACAAATTCTGTTAAACGA-CAAGAATAGAATCCTAAAACAGAATTGTTCAATTGATTT
*
14963595 CTATTTAGAAATAGA
65 CTATTTACAAATAGA
* *
14963610 AAATCGAACAAATTCTGTTGAACGACAGGAATAGAATCCTAAAACAGAATTGTTCAATTGATTTC
1 AAATCGAACAAATTCTGTTAAACGACAAGAATAGAATCCTAAAACAGAATTGTTCAATTGATTTC
14963675 TATTTACAAATAGA
66 TATTTACAAATAGA
14963689 A
1 A
14963690 TACAATTTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 70 0.99
80 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (79 bp):
AAATCGAACAAATTCTGTTAAACGACAAGAATAGAATCCTAAAACAGAATTGTTCAATTGATTTC
TATTTACAAATAGA
Found at i:14980107 original size:27 final size:26
Alignment explanation
Indices: 14980044--14980109 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
14980034 CTTATCTATC
**
14980044 CATATAAACATTT-CATATAACACTT
1 CATATAAGTATTTCCATATAACACTT
* *
14980069 CATATAATTATTTCCATATAACCGCTT
1 CATATAAGTATTTCCATATAA-CACTT
*
14980096 CATATAGGTATTTC
1 CATATAAGTATTTC
14980110 GTTTACATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 11 0.32
26 7 0.21
27 16 0.47
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (26 bp):
CATATAAGTATTTCCATATAACACTT
Found at i:14980901 original size:9 final size:9
Alignment explanation
Indices: 14980887--14980919 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14980877 AATTAATCCA
14980887 TTCAAACAT
1 TTCAAACAT
14980896 TTCAAACAT
1 TTCAAACAT
14980905 TTCAAACAT
1 TTCAAACAT
14980914 TT-AAAC
1 TTCAAAC
14980920 TTAAACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 20 0.83
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
TTCAAACAT
Found at i:14986795 original size:13 final size:13
Alignment explanation
Indices: 14986777--14986801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14986767 CAATATATCT
14986777 ATTAATTAAAAAC
1 ATTAATTAAAAAC
14986790 ATTAATTAAAAA
1 ATTAATTAAAAA
14986802 AACTTGATAC
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:14987496 original size:2 final size:2
Alignment explanation
Indices: 14987489--14987517 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14987479 TCATTTGGTT
14987489 TA TA 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 T
14987518 TTCGGTGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14989885 original size:3 final size:3
Alignment explanation
Indices: 14989879--14989911 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
14989869 CAGCAGCAAC
14989879 AGA AGA AGA AGA AGA AGA AGA AGA AGA ATGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AG
14989912 CCACTTCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:14989956 original size:21 final size:21
Alignment explanation
Indices: 14989932--14989971 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14989922 AACGTGGCAA
*
14989932 GTTAACTTGCCACATCAGCTG
1 GTTAACTTACCACATCAGCTG
*
14989953 GTTAACTTACCACGTCAGC
1 GTTAACTTACCACATCAGC
14989972 AATCCCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (21 bp):
GTTAACTTACCACATCAGCTG
Found at i:14990509 original size:31 final size:31
Alignment explanation
Indices: 14990469--14990527 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
14990459 AACCCTTCCT
*
14990469 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
14990500 GCATGAAATCCAACCAAAAATAGCAAAT
1 GCATGAAATCCAACCAAAAACAGCAAAT
14990528 GTAGTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:14990829 original size:27 final size:27
Alignment explanation
Indices: 14990791--14990842 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
14990781 TGCCATCGCT
14990791 GCTGCCGCTGCCTCCCTCACTGCTGTC
1 GCTGCCGCTGCCTCCCTCACTGCTGTC
* *
14990818 GCTGCCTCTGCCTCCCTCTCTGCTG
1 GCTGCCGCTGCCTCCCTCACTGCTG
14990843 CCTCTGTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.02, C:0.48, G:0.21, T:0.29
Consensus pattern (27 bp):
GCTGCCGCTGCCTCCCTCACTGCTGTC
Found at i:14991282 original size:13 final size:14
Alignment explanation
Indices: 14991256--14991284 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14991246 ACTAAAGACA
14991256 AATTAAACCATTAT
1 AATTAAACCATTAT
14991270 AATTAAA-CATTAT
1 AATTAAACCATTAT
14991283 AA
1 AA
14991285 ATATTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:14996398 original size:9 final size:9
Alignment explanation
Indices: 14996347--14996481 Score: 152
Period size: 9 Copynumber: 15.2 Consensus size: 9
14996337 TATAATTAAA
14996347 TTATGTAAG
1 TTATGTAAG
*
14996356 TTATGATATG
1 TTATG-TAAG
* * *
14996366 ATATCT-AC
1 TTATGTAAG
14996374 TTATGT-A-
1 TTATGTAAG
14996381 TTATGTAAG
1 TTATGTAAG
*
14996390 TTATATAAG
1 TTATGTAAG
14996399 TTATGTAAG
1 TTATGTAAG
14996408 TTATGTAAG
1 TTATGTAAG
14996417 TTATGTAAG
1 TTATGTAAG
*
14996426 TTATATAAG
1 TTATGTAAG
14996435 TTATGTAAG
1 TTATGTAAG
14996444 TTATGTAAG
1 TTATGTAAG
14996453 TTATGTAAG
1 TTATGTAAG
*
14996462 TT-TCGTGAG
1 TTAT-GTAAG
*
14996471 TTGTGTAAG
1 TTATGTAAG
14996480 TT
1 TT
14996482 CAAGTATATA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.06
8 7 0.06
9 88 0.81
10 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:14996617 original size:19 final size:19
Alignment explanation
Indices: 14996593--14996656 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
14996583 TATTTAAATA
14996593 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* *
14996612 AATTAAAT--AATATTTAAATA
1 AATT-AATCCAA-A-TTATATT
14996632 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
14996651 AATTAA
1 AATTAA
14996657 AATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 13 0.36
21 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:14996626 original size:39 final size:39
Alignment explanation
Indices: 14996582--14996657 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
14996572 AAATTCTTAT
14996582 ATATTTAAATAAATTAATCCAAATTATATTAATTAAATA
1 ATATTTAAATAAATTAATCCAAATTATATTAATTAAATA
14996621 ATATTTAAATAAATTAATCCAAATTATATTAATTAAA
1 ATATTTAAATAAATTAATCCAAATTATATTAATTAAA
14996658 ATAACATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (39 bp):
ATATTTAAATAAATTAATCCAAATTATATTAATTAAATA
Found at i:14996678 original size:22 final size:23
Alignment explanation
Indices: 14996653--14996699 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
14996643 ATTATATTAA
14996653 TTAAAATA-ACATGTCTTTTCCT
1 TTAAAATAGACATGTCTTTTCCT
* *
14996675 TTAATATAGACATGTCTTTTGCT
1 TTAAAATAGACATGTCTTTTCCT
14996698 TT
1 TT
14996700 TATTAATCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (23 bp):
TTAAAATAGACATGTCTTTTCCT
Found at i:14996864 original size:24 final size:24
Alignment explanation
Indices: 14996821--14996867 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14996811 TTAACTTAAA
*
14996821 TGATAAAACGAACGATAATATTTG
1 TGATAAAACGAACGAGAATATTTG
* *
14996845 TGATAAAACGTATGAGAATATTT
1 TGATAAAACGAACGAGAATATTT
14996868 AATATATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (24 bp):
TGATAAAACGAACGAGAATATTTG
Found at i:14999294 original size:27 final size:28
Alignment explanation
Indices: 14999259--14999314 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
14999249 TGCAGCAGAG
*
14999259 GAGTGCGACAGTGACGCAACAGATGGTC
1 GAGTGCGACAGCGACGCAACAGATGGTC
* * *
14999287 GAGT-CGACGGCGATGCAATAGATGGTC
1 GAGTGCGACAGCGACGCAACAGATGGTC
14999314 G
1 G
14999315 GGTCCGGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.27, C:0.20, G:0.38, T:0.16
Consensus pattern (28 bp):
GAGTGCGACAGCGACGCAACAGATGGTC
Found at i:14999706 original size:17 final size:17
Alignment explanation
Indices: 14999684--14999716 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14999674 CGACGCCGTT
14999684 TTCTTTAAGCACTAATG
1 TTCTTTAAGCACTAATG
*
14999701 TTCTTTAAGCGCTAAT
1 TTCTTTAAGCACTAAT
14999717 TCCCTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
TTCTTTAAGCACTAATG
Found at i:15000765 original size:7 final size:7
Alignment explanation
Indices: 15000755--15000804 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
15000745 ACTATAAACT
15000755 CTTAACC
1 CTTAACC
15000762 CTTAACC
1 CTTAACC
*
15000769 ATTAACC
1 CTTAACC
15000776 CTTAACC
1 CTTAACC
* *
15000783 CCTAATC
1 CTTAACC
*
15000790 CTTATCC
1 CTTAACC
15000797 CTTAACC
1 CTTAACC
15000804 C
1 C
15000805 ATAATTCTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.28, C:0.42, G:0.00, T:0.30
Consensus pattern (7 bp):
CTTAACC
Found at i:15000781 original size:21 final size:21
Alignment explanation
Indices: 15000735--15000804 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
15000725 CCTTAAACTC
* * *
15000735 TAACCCTTAAACTATAAACTCT
1 TAACCCTT-AACCATTAACCCT
15000757 TAACCCTTAACCATTAACCCT
1 TAACCCTTAACCATTAACCCT
* *
15000778 TAACCCCTAATCC-TTATCCCT
1 TAACCCTTAA-CCATTAACCCT
15000799 TAACCC
1 TAACCC
15000805 ATAATTCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 32 0.76
22 10 0.24
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACCCTTAACCATTAACCCT
Found at i:15000809 original size:21 final size:21
Alignment explanation
Indices: 15000755--15000825 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
15000745 ACTATAAACT
* * *
15000755 CTTAACCCTTAACCATTAACC
1 CTTAACCCATAATCCTTAACC
* *
15000776 CTTAACCCCTAATCCTTATCC
1 CTTAACCCATAATCCTTAACC
*
15000797 CTTAACCCATAATTCTTAACTC
1 CTTAACCCATAATCCTTAAC-C
15000819 C-TAACCC
1 CTTAACCC
15000826 CTAAATTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 40 0.95
22 2 0.05
ACGTcount: A:0.30, C:0.39, G:0.00, T:0.31
Consensus pattern (21 bp):
CTTAACCCATAATCCTTAACC
Found at i:15000836 original size:21 final size:22
Alignment explanation
Indices: 15000799--15000841 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
15000789 CCTTATCCCT
15000799 TAACCCATAATTCTT-AACTCC
1 TAACCCATAATTCTTAAACTCC
*
15000820 TAACCCCTAAATT-TTAAACTCC
1 TAACCCAT-AATTCTTAAACTCC
15000842 ATCTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
TAACCCATAATTCTTAAACTCC
Found at i:15001350 original size:71 final size:73
Alignment explanation
Indices: 15001269--15001412 Score: 197
Period size: 71 Copynumber: 2.0 Consensus size: 73
15001259 GGCATTTTGC
* * *
15001269 AAGAAGGCGCCGCTAAAGCAACTAAAGCT-A-AAAAAACGACG-CTGTTGTGTTTAGTTTTTTTG
1 AAGAAGGCGCCGCTAAAGCAACTAAACCTAACAAAAAACGACGAC-GTTGTGTTCA-TTGTTTTG
15001331 CGGCGTTTTT
64 CGGCGTTTTT
*
15001341 AAGAA-GCGCCGCTAAAGCCACTAAACCTCAACAAAAAACGACGACGTTGTGTTCATTGTTTTGC
1 AAGAAGGCGCCGCTAAAGCAACTAAACCT-AACAAAAAACGACGACGTTGTGTTCATTGTTTTGC
15001405 GGCGTTTT
65 GGCGTTTT
15001413 CTTTAAAGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
71 21 0.33
72 5 0.08
73 17 0.27
74 20 0.31
75 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (73 bp):
AAGAAGGCGCCGCTAAAGCAACTAAACCTAACAAAAAACGACGACGTTGTGTTCATTGTTTTGCG
GCGTTTTT
Found at i:15001427 original size:74 final size:71
Alignment explanation
Indices: 15001269--15001429 Score: 175
Period size: 74 Copynumber: 2.2 Consensus size: 71
15001259 GGCATTTTGC
* * * *
15001269 AAGAAGGCGCCGCTAAAGCAACTAAAGCTAAAAAAACGACGCTGTTGTGTTTAGTTTTTTTGCGG
1 AAGAA-GCACCGCTAAAGCAACTAAACCTAAAAAAACGACGCTGTTGTGTTCAGTTGTTTTGCGG
15001334 CGTTTTT
65 CGTTTTT
* *
15001341 AAGAAGCGCCGCTAAAGCCACTAAACCTCAACAAAAAACGACGAC-GTTGTGTTCA-TTGTTTTG
1 AAGAAGCACCGCTAAAGCAACTAAACCT--A-AAAAAACGACG-CTGTTGTGTTCAGTTGTTTTG
15001404 CGGCGTTTTCTT
62 CGGCG-TTT-TT
*
15001416 TA-AAGCACCGCTAA
1 AAGAAGCACCGCTAA
15001430 CGGTCAACCT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
71 21 0.27
72 5 0.06
73 13 0.17
74 34 0.44
75 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (71 bp):
AAGAAGCACCGCTAAAGCAACTAAACCTAAAAAAACGACGCTGTTGTGTTCAGTTGTTTTGCGGC
GTTTTT
Found at i:15008992 original size:3 final size:3
Alignment explanation
Indices: 15008986--15009029 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
15008976 ACACTGCACT
15008986 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
15009030 GATATTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15009109 original size:13 final size:13
Alignment explanation
Indices: 15009093--15009136 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
15009083 TAGTTGAAAC
15009093 ATTATTTAACCTA
1 ATTATTTAACCTA
*
15009106 ATTATTT-A--TT
1 ATTATTTAACCTA
15009116 ATTATTTAACCTA
1 ATTATTTAACCTA
15009129 ATTATTTA
1 ATTATTTA
15009137 TTTTATCCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 8 0.31
11 1 0.04
12 1 0.04
13 16 0.62
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATTTAACCTA
Found at i:15009121 original size:23 final size:23
Alignment explanation
Indices: 15009093--15009142 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
15009083 TAGTTGAAAC
15009093 ATTATTTAACCTAATTATTTATT
1 ATTATTTAACCTAATTATTTATT
15009116 ATTATTTAACCTAATTATTTATT
1 ATTATTTAACCTAATTATTTATT
15009139 -TTAT
1 ATTAT
15009143 CCTGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATTTAACCTAATTATTTATT
Found at i:15009719 original size:2 final size:2
Alignment explanation
Indices: 15009712--15009738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15009702 TACACTATTA
15009712 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 A
15009739 CAATTAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15010209 original size:6 final size:6
Alignment explanation
Indices: 15010198--15010228 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
15010188 CCCATAAAAT
15010198 TTTTAA TTTTAA TTTTAA TTTTACA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTA-A TTTTAA
15010229 AATGATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:15014760 original size:37 final size:37
Alignment explanation
Indices: 15014691--15014766 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
15014681 CCGAGGCGAA
* *
15014691 TTATTAGTTGGATTAGCTCTCATAATCGTTTGGAGTG
1 TTATTAGTTGGATTAGCTCTCATAAGCATTTGGAGTG
* * * *
15014728 TTATTGGTTGGATTAGCTCTTATGAGCATTTGGTGTG
1 TTATTAGTTGGATTAGCTCTCATAAGCATTTGGAGTG
15014765 TT
1 TT
15014767 TCGTTTGGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.09, G:0.26, T:0.46
Consensus pattern (37 bp):
TTATTAGTTGGATTAGCTCTCATAAGCATTTGGAGTG
Found at i:15019595 original size:8 final size:7
Alignment explanation
Indices: 15019567--15019591 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15019557 ATTAATAGAA
15019567 TTTTAAT
1 TTTTAAT
15019574 TTTTAAT
1 TTTTAAT
15019581 TTTTAAT
1 TTTTAAT
15019588 TTTT
1 TTTT
15019592 TAATATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:15019660 original size:2 final size:2
Alignment explanation
Indices: 15019655--15019682 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15019645 TTTTAACCTA
15019655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15019683 TTATCTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15020858 original size:9 final size:9
Alignment explanation
Indices: 15020829--15020888 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
15020819 AATAAGTATA
15020829 AAATTAACC
1 AAATTAACC
* *
15020838 AAATTCATC
1 AAATTAACC
*
15020847 GAATTAACC
1 AAATTAACC
* *
15020856 GAATTATCC
1 AAATTAACC
15020865 AAATT-ACC
1 AAATTAACC
15020873 TAAATTAACC
1 -AAATTAACC
*
15020883 GAATTA
1 AAATTA
15020889 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 2 0.05
9 35 0.88
10 3 0.08
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (9 bp):
AAATTAACC
Found at i:15021550 original size:10 final size:10
Alignment explanation
Indices: 15021535--15021617 Score: 57
Period size: 10 Copynumber: 8.6 Consensus size: 10
15021525 CATGTGGCAA
*
15021535 AAAAATGATT
1 AAAAATTATT
* *
15021545 AAAAATAAAT
1 AAAAATTATT
15021555 AAAAATTA-T
1 AAAAATTATT
15021564 AAAAATTATT
1 AAAAATTATT
** *
15021574 AAATTTTAAT
1 AAAAATTATT
*
15021584 AAAAA-AATT
1 AAAAATTATT
15021593 AAAAAATTA-T
1 -AAAAATTATT
*
15021603 AAAAA-TAGT
1 AAAAATTATT
15021612 AAAAAT
1 AAAAAT
15021618 ACTTATAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
8 2 0.04
9 22 0.39
10 32 0.56
11 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATTATT
Found at i:15021566 original size:19 final size:19
Alignment explanation
Indices: 15021544--15021665 Score: 63
Period size: 19 Copynumber: 6.3 Consensus size: 19
15021534 AAAAAATGAT
15021544 TAAAAATAAATAAAAATTA
1 TAAAAATAAATAAAAATTA
* * **
15021563 TAAAAATTATTAAATTTTAA
1 TAAAAATAAATAAAAATT-A
*
15021583 TAAAAA-AATTAAAAAATTA
1 TAAAAATAAAT-AAAAATTA
*
15021602 TAAAAAT-AGTAAAAA-TA
1 TAAAAATAAATAAAAATTA
** *
15021619 CTTATAAAATATGTAAAATTTTA
1 --TA-AAAATAAATAAAA-ATTA
*
15021642 TAAAAAT-CATAAAAAGTTA
1 TAAAAATAAATAAAAA-TTA
15021661 TAAAA
1 TAAAA
15021666 TATATAGAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
17 2 0.03
18 5 0.06
19 41 0.51
20 22 0.28
21 8 0.10
23 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAAATAAATAAAAATTA
Found at i:15021584 original size:29 final size:30
Alignment explanation
Indices: 15021552--15021665 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 30
15021542 ATTAAAAATA
*
15021552 AATAAAAATTATAAAAATTAT-TAAATTTT
1 AATAAAAATTATAAAAATTATAAAAATTTT
**
15021581 AATAAAAAAATTA-AAAAATTATAAAAATAGT
1 AAT--AAAAATTATAAAAATTATAAAAATTTT
* *
15021612 AA-AAATACTTAT-AAAA-TATGTAAAATTTT
1 AATAAA-AATTATAAAAATTAT-AAAAATTTT
*
15021641 -ATAAAAATCATAAAAAGTTATAAAA
1 AATAAAAATTATAAAAA-TTATAAAA
15021666 TATATAGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
28 11 0.17
29 24 0.37
30 12 0.18
31 18 0.28
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AATAAAAATTATAAAAATTATAAAAATTTT
Found at i:15021663 original size:10 final size:9
Alignment explanation
Indices: 15021553--15021696 Score: 64
Period size: 9 Copynumber: 15.0 Consensus size: 9
15021543 TTAAAAATAA
15021553 ATAAAAATT
1 ATAAAAATT
15021562 ATAAAAATT
1 ATAAAAATT
**
15021571 ATTAAATTTT
1 A-TAAAAATT
15021581 AATAAAAAAATT
1 -AT--AAAAATT
15021593 A-AAAAATT
1 ATAAAAATT
15021601 ATAAAAA-T
1 ATAAAAATT
15021609 AGTAAAAATACTT
1 A-T-AAAA-A-TT
15021622 ATAAAATATGT
1 ATAAAA-AT-T
**
15021633 A-AAATTTT
1 ATAAAAATT
*
15021641 ATAAAAATC
1 ATAAAAATT
15021650 ATAAAAAGTT
1 ATAAAAA-TT
15021660 AT-AAAATAT
1 ATAAAAAT-T
*
15021669 ATAGAAATAT
1 ATAAAAAT-T
*
15021679 AGAAAAAATT
1 A-TAAAAATT
15021689 A-AAAAATT
1 ATAAAAATT
15021697 TTATAACATA
Statistics
Matches: 106, Mismatches: 13, Indels: 33
0.70 0.09 0.22
Matches are distributed among these distances:
8 20 0.19
9 35 0.33
10 27 0.25
11 16 0.15
12 6 0.06
13 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15021937 original size:9 final size:9
Alignment explanation
Indices: 15021925--15022033 Score: 60
Period size: 9 Copynumber: 11.4 Consensus size: 9
15021915 TTTTTATGCA
15021925 TTTTATAAT
1 TTTTATAAT
*
15021934 TTTTATAAAG
1 TTTTAT-AAT
* *
15021944 TTTCACAAGT
1 TTTTATAA-T
*
15021954 TTTTATATTT
1 TTTTATA-AT
*
15021964 TTTTCTAAT
1 TTTTATAAT
15021973 TTTTAATAA-
1 TTTT-ATAAT
*
15021982 ATTTAT-AT
1 TTTTATAAT
15021990 GTTTTATATAT
1 -TTTTATA-AT
15022001 TTTTATTAAAT
1 TTTTA-T-AAT
* *
15022012 TCTAATAAT
1 TTTTATAAT
15022021 TTTTATAAT
1 TTTTATAAT
15022030 TTTT
1 TTTT
15022034 TTATTTTTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 35 0.47
10 27 0.36
11 8 0.11
12 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:15021973 original size:39 final size:39
Alignment explanation
Indices: 15021925--15022012 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
15021915 TTTTTATGCA
15021925 TTTTATAATTTTT-ATAAAGTTTCACAAGTTTT-TATATTT
1 TTTTATAATTTTTAATAAA-TTT-ACAAGTTTTATATATTT
* * *
15021964 TTTTCTAATTTTTAATAAATTTATATGTTTTATATATTT
1 TTTTATAATTTTTAATAAATTTACAAGTTTTATATATTT
15022003 TTATTA-AATT
1 TT-TTATAATT
15022013 CTAATAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
38 7 0.17
39 28 0.67
40 7 0.17
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (39 bp):
TTTTATAATTTTTAATAAATTTACAAGTTTTATATATTT
Found at i:15021986 original size:28 final size:28
Alignment explanation
Indices: 15021971--15022033 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
15021961 TTTTTTTCTA
15021971 ATTTTTAATAAATTTATATGTTTTATAT
1 ATTTTTAATAAATTTATATGTTTTATAT
*
15021999 ATTTTTATTAAATTCTAATAAT-TTTTATA-
1 ATTTTTAATAAATT-T-AT-ATGTTTTATAT
15022028 ATTTTT
1 ATTTTT
15022034 TTATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 13 0.42
29 7 0.23
30 9 0.29
31 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTTAATAAATTTATATGTTTTATAT
Found at i:15026443 original size:61 final size:61
Alignment explanation
Indices: 15026364--15026527 Score: 159
Period size: 61 Copynumber: 2.7 Consensus size: 61
15026354 TATTTTTTAA
* * * *
15026364 TTTTTGGAGTTAGGACTAAATTGATAGATTTTGTAAATGTTTAGAGCCAAATTTATTGAAT
1 TTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAGAGCCAAATTTATTGAAT
* * * * * * * * *
15026425 TTTTTAGAATTAGAACTAAAATGACAAATTTTTTAAACATTGAGGGCTAAATTTGTTGAAT
1 TTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAGAGCCAAATTTATTGAAT
* * * *
15026486 TTTTTATATTTAGGA-TCAAATTGATAGAATGTGTAAATATTG
1 TTTTTAGAATTAGGACT-AAATTGATAGATTTTGTAAATATTG
15026528 TAGGGCTAAT
Statistics
Matches: 79, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
60 1 0.01
61 78 0.99
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAGAGCCAAATTTATTGAAT
Found at i:15030315 original size:20 final size:22
Alignment explanation
Indices: 15030287--15030334 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
15030277 AGCTATAAAT
*
15030287 TAATATAAT-AAT-AAAAATTA
1 TAATTTAATCAATAAAAAATTA
**
15030307 TAATTTAATCTTTAAAAAATTA
1 TAATTTAATCAATAAAAAATTA
15030329 TAATTT
1 TAATTT
15030335 TATTCTGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 8 0.35
21 1 0.04
22 14 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATTTAATCAATAAAAAATTA
Found at i:15033206 original size:17 final size:18
Alignment explanation
Indices: 15033174--15033215 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15033164 ATGTTTTTAA
15033174 ATAATTTTACTAAATTTT
1 ATAATTTTACTAAATTTT
*
15033192 ATAATTTT-TTAAATTTT
1 ATAATTTTACTAAATTTT
*
15033209 AAAATTT
1 ATAATTT
15033216 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTTACTAAATTTT
Found at i:15033580 original size:24 final size:24
Alignment explanation
Indices: 15033553--15033604 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15033543 CATATATTTG
*
15033553 ATTTTGATACTCACTAAAATTTTT
1 ATTTTAATACTCACTAAAATTTTT
** *
15033577 ATTTTAATGTTCACTAAATTTTTT
1 ATTTTAATACTCACTAAAATTTTT
15033601 ATTT
1 ATTT
15033605 ACCAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTTAATACTCACTAAAATTTTT
Found at i:15034422 original size:18 final size:18
Alignment explanation
Indices: 15034399--15034433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15034389 TTGCATATAA
15034399 AAATAATAATTATATTTG
1 AAATAATAATTATATTTG
* *
15034417 AAATAATTATTTTATTT
1 AAATAATAATTATATTT
15034434 TATAATATTA
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATAATAATTATATTTG
Found at i:15036730 original size:23 final size:24
Alignment explanation
Indices: 15036696--15036740 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15036686 GGTACCTTGT
*
15036696 TTTTTCCAATTTGA-TACTTGATA
1 TTTTTCCAATTTAAGTACTTGATA
*
15036719 TTTTTCCCATTTAAGTACTTGA
1 TTTTTCCAATTTAAGTACTTGA
15036741 GTTCAGCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTTTCCAATTTAAGTACTTGATA
Found at i:15046549 original size:96 final size:101
Alignment explanation
Indices: 15046420--15046737 Score: 323
Period size: 96 Copynumber: 3.1 Consensus size: 101
15046410 TTCACTTCTA
*
15046420 CCACCCAAAAATTTTCTGAAGTAACTAAT-TACCTTATGAAGTATTAACCATCAA-AAGGACATA
1 CCACCCACAAA-TTTC-GAAGTAACT-ATGTACCTTATGAAGTATTAACCATCAACAAGGACATA
* *
15046483 AGTAAACCAAATATATATCT-TTGATATTAGCAGCCAA-
63 AGTAAACCAAATATATATATATTGATATGAGCAGCCAAT
15046520 CCACCCACAAA-TTC-AAGTAACTATGTACCTTATGAAGTATTAACCATCAACAA-GACATAAGT
1 CCACCCACAAATTTCGAAGTAACTATGTACCTTATGAAGTATTAACCATCAACAAGGACATAAGT
* * *
15046582 AACAAAACATATACATATATATATTGGTATGAGCAGCCAATT
66 ---AAACCA-A-ATATATATATATTGATATGAGCAGCCAA-T
* * * *
15046624 CCACCCACAAATTTTCTGAAGTAACTAAGTACCTTATAAAGTATTAACCATCAACAAGCA-AAAA
1 CCACCCACAAA-TTTC-GAAGTAACTATGTACCTTATGAAGTATTAACCATCAACAAGGACATAA
* * * *
15046688 GT-AACCAAGTATATATGTCTTGATATGAGCAGCAAAT
64 GTAAACCAAATATATATATATTGATATGAGCAGCCAAT
* *
15046725 -TACCTACAAATTT
1 CCACCCACAAATTT
15046738 ATTCAATTCT
Statistics
Matches: 184, Mismatches: 19, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
95 2 0.01
96 42 0.23
97 2 0.01
98 3 0.02
99 8 0.04
100 19 0.10
101 9 0.05
102 37 0.20
103 1 0.01
104 15 0.08
106 3 0.02
108 42 0.23
109 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (101 bp):
CCACCCACAAATTTCGAAGTAACTATGTACCTTATGAAGTATTAACCATCAACAAGGACATAAGT
AAACCAAATATATATATATTGATATGAGCAGCCAAT
Found at i:15046925 original size:94 final size:94
Alignment explanation
Indices: 15046764--15046941 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 94
15046754 CATAAAGTCT
* * * * *
15046764 CTTAAGTAACAAAGTACCTTATTAAGTATTAACCATCAAAAAGACAAAAGTAACCAAGTATATAT
1 CTTAAGCAACAAAGTACCTTAATAAGCAGTAACCATCAAAAAGACAAAAGTAACCAAGCATATAT
15046829 CTTGATATAAGCAGCCAATCACAAATTCC
66 CTTGATATAAGCAGCCAATCACAAATTCC
* * * *
15046858 CTTAAGCAACTAAGTACCTTAATAAGCAGTAGCCATCAACAAGACAAAAGTGA-CAAGGCACT-T
1 CTTAAGCAACAAAGTACCTTAATAAGCAGTAACCATCAAAAAGACAAAAGTAACCAA-GCA-TAT
*
15046921 ATCTTGATATGAGCAGCCAAT
64 ATCTTGATATAAGCAGCCAAT
15046942 TACCCCCAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
93 3 0.04
94 68 0.94
95 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (94 bp):
CTTAAGCAACAAAGTACCTTAATAAGCAGTAACCATCAAAAAGACAAAAGTAACCAAGCATATAT
CTTGATATAAGCAGCCAATCACAAATTCC
Found at i:15050182 original size:23 final size:23
Alignment explanation
Indices: 15050156--15050199 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15050146 AATTAATAAT
*
15050156 CTCAATAAAATAATTTTTTTAAC
1 CTCAACAAAATAATTTTTTTAAC
**
15050179 CTCAACAAAATTTTTTTTTTA
1 CTCAACAAAATAATTTTTTTA
15050200 GGTCCCAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (23 bp):
CTCAACAAAATAATTTTTTTAAC
Found at i:15050478 original size:15 final size:15
Alignment explanation
Indices: 15050458--15050486 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15050448 TTACTTGAAT
15050458 ATATATTTATGAAAA
1 ATATATTTATGAAAA
15050473 ATATATTTATGAAA
1 ATATATTTATGAAA
15050487 CATTTAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
ATATATTTATGAAAA
Found at i:15057619 original size:42 final size:46
Alignment explanation
Indices: 15057556--15057767 Score: 150
Period size: 49 Copynumber: 4.6 Consensus size: 46
15057546 CTTTGTTTAC
** * *
15057556 TCGATGTCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
15057598 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
** * *
15057647 TCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* * * * * *
15057694 T-GATGCCATATCCCAGATATGGTCTTATACAGTAGCATAT-ATCACA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATA
* * **
15057740 CCGATGTCATATCCCAAATATGGTCTTA
1 TCGATGTCATAGCCCAGCTATGGTCTTA
15057768 TACGGAAATC
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
42 28 0.20
44 1 0.01
45 11 0.08
46 25 0.18
47 26 0.19
48 14 0.10
49 35 0.25
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (46 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:15057658 original size:49 final size:48
Alignment explanation
Indices: 15057595--15057720 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 48
15057585 ACATCTTCAT
*
15057595 ATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
* *
15057644 ATATCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATCTC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
* * *
15057692 A-CT-GATGCCATATCCCAGATATGGTCTTA
1 ATATCGATGCCATAGCCCAGCTATGGTCTTA
15057721 TACAGTAGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
46 23 0.33
47 1 0.01
48 13 0.19
49 33 0.47
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:15057754 original size:47 final size:46
Alignment explanation
Indices: 15057599--15057767 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 46
15057589 CTTCATATAT
* * *
15057599 CGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * *
15057648 CGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
15057694 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
* * *
15057741 CGATGTCATATCCCAAATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
15057768 TACGGAAATC
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 26 0.25
47 36 0.35
48 11 0.11
49 29 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:15057916 original size:50 final size:51
Alignment explanation
Indices: 15057840--15057948 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 51
15057830 CCACCATTTT
* * *
15057840 TCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATTACTTA
1 TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTA
15057891 TCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTA
1 TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTA
15057941 TCACTTGT
1 TCACTTGT
15057949 TGCCATGGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTA
Found at i:15060988 original size:21 final size:22
Alignment explanation
Indices: 15060962--15061008 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15060952 CTCTGCTCAA
*
15060962 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
15060983 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
15061005 ACTC
1 ACTC
15061009 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:15063975 original size:2 final size:2
Alignment explanation
Indices: 15063970--15063999 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15063960 TTTTGCCATT
15063970 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
15064000 CTATTACGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15064276 original size:25 final size:25
Alignment explanation
Indices: 15064248--15064298 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
15064238 ATCATATTTA
15064248 AAAATTATAAAAATAAAAAAAAATT
1 AAAATTATAAAAATAAAAAAAAATT
* * *
15064273 AAAATTATATAAATATATAAAAATT
1 AAAATTATAAAAATAAAAAAAAATT
15064298 A
1 A
15064299 CAAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAATTATAAAAATAAAAAAAAATT
Found at i:15064353 original size:19 final size:19
Alignment explanation
Indices: 15064325--15064385 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
15064315 AAATTTAATG
15064325 AATT-ATAAAATTATATAA
1 AATTGATAAAATTATATAA
* *
15064343 AATTGATAAAAACATATCTAA
1 AATTGAT-AAAA-TTATATAA
*
15064364 AATATG-TAAAATTTTATAA
1 AAT-TGATAAAATTATATAA
15064383 AAT
1 AAT
15064386 CATAAAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 8 0.24
21 10 0.29
22 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AATTGATAAAATTATATAA
Found at i:15065032 original size:20 final size:20
Alignment explanation
Indices: 15065009--15065064 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
15064999 TATTTTTATT
15065009 AATTTTATAAAATTT-TTACA
1 AATTTTATAAAATTTATTA-A
*
15065029 AATTATT-T-AAATTTATTAG
1 AATT-TTATAAAATTTATTAA
*
15065048 ATTTTTATAAAATTTAT
1 AATTTTATAAAATTTAT
15065065 AAGTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTATAAAATTTATTAA
Found at i:15066082 original size:40 final size:40
Alignment explanation
Indices: 15066033--15066108 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
15066023 TCTTTCTGCA
*
15066033 AATCTCATTCCTCCCTTTCTCTCTTTTTCAGGCAAAGGCC
1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC
*
15066073 AATCTCATTCCTCTCTTTCTCTCTTTCTCAGGCAAA
1 AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAA
15066109 TCTCATTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.34, G:0.08, T:0.39
Consensus pattern (40 bp):
AATCTCATTCCTCCCTTTCTCTCTTTCTCAGGCAAAGGCC
Found at i:15066111 original size:34 final size:34
Alignment explanation
Indices: 15066012--15066120 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 34
15066002 CATCTTCTTT
*
15066012 CTCTCTCTCTCTCTTTCT---GCAAATCTCATTC
1 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
* *
15066043 CTCCCTTTCTCTCTTTTTCAGGCAAAGGCCAATCTCATTC
1 CTCTCTTTCTCTCTTTCTCAGGC--A----AATCTCATTC
15066083 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
1 CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
15066117 CTCT
1 CTCT
15066121 TCGCAAGGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
31 15 0.23
34 16 0.25
36 1 0.02
38 1 0.02
40 31 0.48
ACGTcount: A:0.15, C:0.37, G:0.06, T:0.42
Consensus pattern (34 bp):
CTCTCTTTCTCTCTTTCTCAGGCAAATCTCATTC
Found at i:15069528 original size:14 final size:14
Alignment explanation
Indices: 15069511--15069544 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
15069501 ATTTATTTAT
15069511 TTATAAATAAATCA
1 TTATAAATAAATCA
15069525 TTATAAATAAATCA
1 TTATAAATAAATCA
15069539 TTATAA
1 TTATAA
15069545 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
TTATAAATAAATCA
Found at i:15069587 original size:18 final size:18
Alignment explanation
Indices: 15069566--15069608 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15069556 ATAATTTAAA
15069566 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
15069584 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
15069602 ATGTAAA
1 ATATAAA
15069609 AATAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:15079125 original size:21 final size:21
Alignment explanation
Indices: 15079096--15079135 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15079086 TCTCGTCTTG
*
15079096 TAACCTTTTTTTTTAAATTAT
1 TAACCTTTTTTTTAAAATTAT
*
15079117 TAACTTTTTTTTTAAAATT
1 TAACCTTTTTTTTAAAATT
15079136 TGTTGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TAACCTTTTTTTTAAAATTAT
Found at i:15079678 original size:6 final size:6
Alignment explanation
Indices: 15079669--15079707 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15079659 AATTAAAAGT
* * *
15079669 AAAATC AAAATA AAAATC AATATT AAAATC AAAATC AAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAA
15079708 GCTAGATAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATC
Found at i:15079685 original size:24 final size:24
Alignment explanation
Indices: 15079658--15079703 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15079648 AAAAGAGAAC
*
15079658 AAATTAAAAGTAAAATCAAAATAA
1 AAATCAAAAGTAAAATCAAAATAA
* *
15079682 AAATCAATATTAAAATCAAAAT
1 AAATCAAAAGTAAAATCAAAAT
15079704 CAAAGCTAGA
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:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATCAAAAGTAAAATCAAAATAA
Found at i:15082832 original size:16 final size:17
Alignment explanation
Indices: 15082803--15082836 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15082793 ATTTATGAAC
15082803 TAAAAATGAAAACTAAA
1 TAAAAATGAAAACTAAA
*
15082820 TAAAAAT-ATAACTAAA
1 TAAAAATGAAAACTAAA
15082836 T
1 T
15082837 TACTTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAAATGAAAACTAAA
Found at i:15091919 original size:30 final size:30
Alignment explanation
Indices: 15091883--15091942 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15091873 AAGTTAAAGC
15091883 ATGTCTACTATAACTGTTAGATTGAATAAA
1 ATGTCTACTATAACTGTTAGATTGAATAAA
15091913 ATGTCTACTATAACTGTTAGATTGAATAAA
1 ATGTCTACTATAACTGTTAGATTGAATAAA
15091943 TGTTAACCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
ATGTCTACTATAACTGTTAGATTGAATAAA
Found at i:15094581 original size:5 final size:5
Alignment explanation
Indices: 15094571--15094623 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
15094561 AATAATTAAG
15094571 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
15094621 TAT
1 TAT
15094624 AAAAGAAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:15095451 original size:40 final size:40
Alignment explanation
Indices: 15095404--15095484 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
15095394 AATTATGTGA
* ** *
15095404 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* * *
15095444 TACTGAATAATGTTACGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
15095484 T
1 T
15095485 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:15095749 original size:45 final size:45
Alignment explanation
Indices: 15095696--15095802 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
15095686 CGACTACTAT
* *
15095696 TACTGTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* * * *
15095741 TATTGTTACCGTTATTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
*
15095786 TACCGTTACTGATTACT
1 TACTGTTACTG-TTACT
15095803 AGGTACTGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 47 0.92
46 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:15101858 original size:10 final size:11
Alignment explanation
Indices: 15101843--15101883 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
15101833 AATAATTAAG
15101843 TATATTATAT-
1 TATATTATATA
15101853 TATATTATTATA
1 TATATTA-TATA
15101865 TATTATTATATA
1 TA-TATTATATA
15101877 TATATTA
1 TATATTA
15101884 AAAGAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.25
11 8 0.29
12 8 0.29
13 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTATATA
Found at i:15102565 original size:23 final size:23
Alignment explanation
Indices: 15102525--15102583 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
15102515 AAAAGTTATC
* *
15102525 TACAAATTAAATC-TCTAAA-AT
1 TACAAATCATATCTTCTAAAGAT
15102546 TACAGAATCATATCTTCTAAAGAT
1 TACA-AATCATATCTTCTAAAGAT
*
15102570 TACATATCATATCT
1 TACAAATCATATCT
15102584 AGGATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 7 0.22
23 15 0.47
24 6 0.19
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (23 bp):
TACAAATCATATCTTCTAAAGAT
Found at i:15111076 original size:21 final size:21
Alignment explanation
Indices: 15111050--15111132 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
15111040 TGATCAGTAT
*
15111050 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
15111071 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
15111092 ATGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
15111114 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
15111133 GATCGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:15111530 original size:15 final size:15
Alignment explanation
Indices: 15111505--15111562 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
15111495 TCATATATAT
15111505 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
15111521 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
15111536 AATAATTTCAATCAA
1 TATAAATTCAATCAA
15111551 TATAAATTCAAT
1 TATAAATTCAAT
15111563 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:15112844 original size:5 final size:5
Alignment explanation
Indices: 15112831--15112867 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
15112821 TTCTTTAGTT
15112831 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
15112868 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:15112902 original size:8 final size:8
Alignment explanation
Indices: 15112889--15112917 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15112879 GATCTTTATT
15112889 ATATAATA
1 ATATAATA
15112897 ATATAATA
1 ATATAATA
15112905 ATATAATA
1 ATATAATA
15112913 ATATA
1 ATATA
15112918 CTAAACATAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Done.