Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 67 of 91
Found at i:24124180 original size:23 final size:24
Alignment explanation
Indices: 24124126--24124180 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24124116 GCACAAATTG
24124126 GCAGCAAACAGCTCCAATTTTTCT
1 GCAGCAAACAGCTCCAATTTTTCT
*
24124150 GCAGCAAACAGCTCTAATTTTTCT
1 GCAGCAAACAGCTCCAATTTTTCT
24124174 GCA-CAAA
1 GCAGCAAA
24124181 TTGGCAGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (24 bp):
GCAGCAAACAGCTCCAATTTTTCT
Found at i:24124814 original size:16 final size:16
Alignment explanation
Indices: 24124793--24124831 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
24124783 TTCCCATTCT
*
24124793 TTTTATTTTCTTA-TTA
1 TTTTATTAT-TTATTTA
24124809 TTTTATTATTTATTTA
1 TTTTATTATTTATTTA
24124825 TTTTATT
1 TTTTATT
24124832 CTCTCCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:24127086 original size:12 final size:12
Alignment explanation
Indices: 24127055--24127098 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
24127045 AGAATTTTTT
*
24127055 TCTCAATTCTCC
1 TCTCAATTCTTC
*
24127067 TCTAAATTCTTC
1 TCTCAATTCTTC
* *
24127079 TGTCAATTCTTG
1 TCTCAATTCTTC
24127091 TCTCAATT
1 TCTCAATT
24127099 ATTTTCTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.48
Consensus pattern (12 bp):
TCTCAATTCTTC
Found at i:24127874 original size:28 final size:27
Alignment explanation
Indices: 24127806--24127867 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
24127796 TTGTATATAT
24127806 TATATATTTTTTGTTTTTTTAAAAAGG
1 TATATATTTTTTGTTTTTTTAAAAAGG
* *
24127833 TATGTATTTTTTGTTTTTTT-TAAAGG
1 TATATATTTTTTGTTTTTTTAAAAAGG
*
24127859 GATATATTT
1 TATATATTT
24127868 GTTTTGTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (27 bp):
TATATATTTTTTGTTTTTTTAAAAAGG
Found at i:24133994 original size:37 final size:37
Alignment explanation
Indices: 24133953--24134197 Score: 330
Period size: 37 Copynumber: 6.5 Consensus size: 37
24133943 ATAAATAAAT
*
24133953 TCCTCAAAACTGAGGCCACGAGACTTTTAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAATGAAC
* *
24133990 TCCTCAAAACTGAGGCAATGAGAACTTTTAAAAGTGAGC
1 TCCTCAAAACTGAGGCAACGAG-ACTTTTAAAA-TGAAC
* *
24134029 TCCTCAAAGCTGAGGCAACGAGACTTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAATGAAC
* *
24134066 TCCTCAAAACTGAGGCGACGAGACTTTAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAATGAAC
24134103 TCCTCAAAACTGAGGCAACGAGACTTTTTAAAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGAC-TTTT--AAAATGAAC
* * * * *
24134143 CCCTCAAAACTAAGGCACCAAAAC-TTTAAAATGAAC
1 TCCTCAAAACTGAGGCAACGAGACTTTTAAAATGAAC
24134179 TCCTCAAAACTGAGGCAAC
1 TCCTCAAAACTGAGGCAAC
24134198 AAAAGTTTTT
Statistics
Matches: 184, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
36 25 0.14
37 82 0.45
38 25 0.14
39 24 0.13
40 28 0.15
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (37 bp):
TCCTCAAAACTGAGGCAACGAGACTTTTAAAATGAAC
Found at i:24134079 original size:76 final size:73
Alignment explanation
Indices: 24133953--24134197 Score: 330
Period size: 76 Copynumber: 3.3 Consensus size: 73
24133943 ATAAATAAAT
* * *
24133953 TCCTCAAAACTGAGGCCACGAGACTTTTAAAATGAACTCCTCAAAACTGAGGCAATGAGAACTTT
1 TCCTCAAAACTGAGGCAACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGC-ACGAGAAC-TT
*
24134018 TAAAAGTGAGC
64 TAAAA-TGAAC
*
24134029 TCCTCAAAGCTGAGGCAACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCGACGAG-ACTTT
1 TCCTCAAAACTGAGGCAACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGC-ACGAGAACTTT
24134093 AAAAATGAAC
65 -AAAATGAAC
* * * *
24134103 TCCTCAAAACTGAGGCAACGAGACTTTTTAAAAAATGAACCCCTCAAAACTAAGGCACCAAAACT
1 TCCTCAAAACTGAGGCAACGAGAC--TTT-AAAAATGAACTCCTCAAAACTGAGGCACGAGAACT
24134168 TTAAAATGAAC
63 TTAAAATGAAC
24134179 TCCTCAAAACTGAGGCAAC
1 TCCTCAAAACTGAGGCAAC
24134198 AAAAGTTTTT
Statistics
Matches: 153, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
74 30 0.20
75 6 0.04
76 88 0.58
77 29 0.19
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (73 bp):
TCCTCAAAACTGAGGCAACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCACGAGAACTTTA
AAATGAAC
Found at i:24134174 original size:113 final size:113
Alignment explanation
Indices: 24133953--24134194 Score: 353
Period size: 113 Copynumber: 2.1 Consensus size: 113
24133943 ATAAATAAAT
* *
24133953 TCCTCAAAACTGAGGCCACGAGACTTTTAAAATGAACTCCTCAAAACTGAGGCAATGAGAACTTT
1 TCCTCAAAACTGAGGCCACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAACTTT
* * * * * * *
24134018 TAAAAGTGAGCTCCTCAAAGCTGAGGCAACGAGACTTTAAAAATGAAC
66 TAAAAATGAACCCCTCAAAACTAAGGCAACAAAACTTTAAAAATGAAC
*
24134066 TCCTCAAAACTGAGGCGACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAG-ACTTT
1 TCCTCAAAACTGAGGCCACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAAC-TT
*
24134130 TTAAAAAATGAACCCCTCAAAACTAAGGCACCAAAACTTT-AAAATGAAC
65 TT-AAAAATGAACCCCTCAAAACTAAGGCAACAAAACTTTAAAAATGAAC
24134179 TCCTCAAAACTGAGGC
1 TCCTCAAAACTGAGGC
24134195 AACAAAAGTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
112 2 0.02
113 85 0.73
114 29 0.25
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (113 bp):
TCCTCAAAACTGAGGCCACGAGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGAACTTT
TAAAAATGAACCCCTCAAAACTAAGGCAACAAAACTTTAAAAATGAAC
Found at i:24146637 original size:16 final size:17
Alignment explanation
Indices: 24146612--24146648 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
24146602 CGAAAACAGA
*
24146612 GATATTTAT-ATGCAAT
1 GATATGTATAATGCAAT
24146628 GATATGTATAATGCAAT
1 GATATGTATAATGCAAT
24146645 -ATAT
1 GATAT
24146649 ATATGCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (17 bp):
GATATGTATAATGCAAT
Found at i:24146720 original size:17 final size:17
Alignment explanation
Indices: 24146677--24146727 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
24146667 CAATTATCTA
*
24146677 TATTTT-TTAGTTATTAT
1 TATTTTATTA-TTATTTT
* *
24146694 TAATTAATTATTATTTT
1 TATTTTATTATTATTTT
24146711 TATTTTATTA-TATTTT
1 TATTTTATTATTATTTT
24146727 T
1 T
24146728 CATTATCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 7 0.25
17 18 0.64
18 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTTTATTATTATTTT
Found at i:24147508 original size:7 final size:7
Alignment explanation
Indices: 24147498--24147542 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
24147488 TTTTTATCAT
24147498 TTTTTTA
1 TTTTTTA
*
24147505 TTTTATGA
1 TTTT-TTA
24147513 TTTTTTA
1 TTTTTTA
*
24147520 TTATTTA
1 TTTTTTA
24147527 TTATTTTA
1 TT-TTTTA
24147535 TTTTTTA
1 TTTTTTA
24147542 T
1 T
24147543 AAATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 20 0.62
8 12 0.38
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (7 bp):
TTTTTTA
Found at i:24147516 original size:26 final size:25
Alignment explanation
Indices: 24147487--24147535 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24147477 TAAATTTTAC
*
24147487 TTTTTTATCATTTTTTTATTTTATGA
1 TTTTTTATCA-TTTATTATTTTATGA
*
24147513 TTTTTTATTATTTATTATTTTAT
1 TTTTTTATCATTTATTATTTTAT
24147536 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTTTATCATTTATTATTTTATGA
Found at i:24147534 original size:8 final size:8
Alignment explanation
Indices: 24147480--24147542 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
24147470 AAAATTTTAA
24147480 ATTTTACTT
1 ATTTTA-TT
*
24147489 -TTTTATC
1 ATTTTATT
*
24147496 ATTTTTTT
1 ATTTTATT
*
24147504 ATTTTATG
1 ATTTTATT
24147512 ATTTT-TT
1 ATTTTATT
24147519 ATTATTTATT
1 A-T-TTTATT
24147529 ATTTTATT
1 ATTTTATT
24147537 -TTTTAT
1 ATTTTAT
24147543 AAATTATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
7 9 0.20
8 28 0.64
9 4 0.09
10 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (8 bp):
ATTTTATT
Found at i:24147537 original size:22 final size:22
Alignment explanation
Indices: 24147480--24147566 Score: 75
Period size: 22 Copynumber: 3.7 Consensus size: 22
24147470 AAAATTTTAA
* *
24147480 ATTTTACTTTTTTATCATTTTTTT
1 ATTTTA-TTTTTTAT-AATTTATT
*
24147504 ATTTTATGATTTTTTATTATTTATT
1 A-TTT-T-ATTTTTTATAATTTATT
*
24147529 ATTTTATTTTTTATAAATTATT
1 ATTTTATTTTTTATAATTTATT
* *
24147551 ATTATATTTTTAATAA
1 ATTTTATTTTTTATAA
24147567 ATATTTTCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
22 29 0.55
23 1 0.02
24 4 0.08
25 9 0.17
26 9 0.17
27 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (22 bp):
ATTTTATTTTTTATAATTTATT
Found at i:24147541 original size:15 final size:15
Alignment explanation
Indices: 24147480--24147542 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
24147470 AAAATTTTAA
*
24147480 ATTTTACTTTTTTATC
1 ATTTTA-TTTTTTATT
*
24147496 ATTTTTTTATTTTATGAT
1 ATTTTATT-TTTTAT--T
* *
24147514 TTTTTATTATTTATT
1 ATTTTATTTTTTATT
24147529 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
24147543 AAATTATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
15 15 0.41
16 11 0.30
17 5 0.14
18 6 0.16
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (15 bp):
ATTTTATTTTTTATT
Found at i:24147548 original size:19 final size:21
Alignment explanation
Indices: 24147526--24147573 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
24147516 TTTATTATTT
24147526 ATTATTTTAT-TTTTT-ATAA
1 ATTATTTTATATTTTTAATAA
24147545 ATTATTATTATATTTTTAATAA
1 ATTATT-TTATATTTTTAATAA
24147567 A-TATTTT
1 ATTATTTT
24147574 CCTTCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 9 0.35
22 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTATTTTATATTTTTAATAA
Found at i:24147553 original size:32 final size:32
Alignment explanation
Indices: 24147477--24147555 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
24147467 ATAAAAATTT
* *
24147477 TAAATTTTACTTTTTTATCATTTTTTTATTTTA
1 TAAATTTTA-TTATTTATCATTTTATTATTTTA
** *
24147510 TGATTTTTTATTATTTATTATTTTATT-TTTTA
1 T-AAATTTTATTATTTATCATTTTATTATTTTA
24147542 TAAATTATTATTAT
1 TAAATT-TTATTAT
24147556 ATTTTTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
31 3 0.08
32 13 0.35
33 15 0.41
34 6 0.16
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (32 bp):
TAAATTTTATTATTTATCATTTTATTATTTTA
Found at i:24147567 original size:22 final size:22
Alignment explanation
Indices: 24147502--24147568 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
24147492 TATCATTTTT
* *
24147502 TTATT-TTATGATTTTTTATTAT
1 TTATTATTAT-ATTTTTTATAAA
*
24147524 TTATTATTTTATTTTTTATAAA
1 TTATTATTATATTTTTTATAAA
*
24147546 TTATTATTATATTTTTAATAAA
1 TTATTATTATATTTTTTATAAA
24147568 T
1 T
24147569 ATTTTCCTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 36 0.92
23 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (22 bp):
TTATTATTATATTTTTTATAAA
Found at i:24148715 original size:16 final size:16
Alignment explanation
Indices: 24148674--24148721 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
24148664 TTTTTCATTT
*
24148674 TTCATTTTTTTTTAAA
1 TTCATTTTTTTTTTAA
*
24148690 TAT-ATGTTTTTTTTAA
1 T-TCATTTTTTTTTTAA
24148706 TTCATTTTTTTGTTTA
1 TTCATTTTTTT-TTTA
24148722 TAATTTAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 20 0.77
17 5 0.19
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (16 bp):
TTCATTTTTTTTTTAA
Found at i:24150088 original size:23 final size:23
Alignment explanation
Indices: 24150035--24150105 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
24150025 AAATATTCAG
*
24150035 ATAATTTTAGGCAAGTTTTC-AAA
1 ATAA-TTTAGGAAAGTTTTCAAAA
*
24150058 ATGCAATTTAGGAAAGTTTCCAAAA
1 AT--AATTTAGGAAAGTTTTCAAAA
24150083 ATAATTTA-GATAAGTTTTCAAAA
1 ATAATTTAGGA-AAGTTTTCAAAA
24150106 GAGGAAATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.05
23 19 0.46
24 13 0.32
25 7 0.17
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (23 bp):
ATAATTTAGGAAAGTTTTCAAAA
Found at i:24151967 original size:36 final size:36
Alignment explanation
Indices: 24151921--24152033 Score: 172
Period size: 36 Copynumber: 3.1 Consensus size: 36
24151911 TATGGGAGCT
24151921 CATGACGATAATAACTATGTGCAGTGTGGGAGTGCA
1 CATGACGATAATAACTATGTGCAGTGTGGGAGTGCA
* *
24151957 CATGATGATAATAACTATGTGCAGTGTGGAAGTGCA
1 CATGACGATAATAACTATGTGCAGTGTGGGAGTGCA
* * * *
24151993 CATGACAACAATAGCTATGTGCGGTGTGGGAGTGCA
1 CATGACGATAATAACTATGTGCAGTGTGGGAGTGCA
24152029 CATGA
1 CATGA
24152034 ACTGAGTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (36 bp):
CATGACGATAATAACTATGTGCAGTGTGGGAGTGCA
Found at i:24153743 original size:34 final size:34
Alignment explanation
Indices: 24153671--24153743 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
24153661 ACACATAATG
* *
24153671 TTACATGCCAAGTTCAAAACTTCAACACCAGATG
1 TTACATGCCAAGGTCAAAACTTCAACACCAGATA
* * * *
24153705 TTACATGCCAAGGTCAAAGCTTTAGCACCATATA
1 TTACATGCCAAGGTCAAAACTTCAACACCAGATA
24153739 TTACA
1 TTACA
24153744 CACCAAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (34 bp):
TTACATGCCAAGGTCAAAACTTCAACACCAGATA
Found at i:24154305 original size:23 final size:23
Alignment explanation
Indices: 24154275--24154320 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24154265 AATCCCTTTT
*
24154275 TAAAAATAATTTAGGAAGGTTTC
1 TAAAAATAATTTAGGAAAGTTTC
*
24154298 TAAAAATATTTTAGGAAAGTTTC
1 TAAAAATAATTTAGGAAAGTTTC
24154321 ATTAAGAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (23 bp):
TAAAAATAATTTAGGAAAGTTTC
Found at i:24162755 original size:32 final size:32
Alignment explanation
Indices: 24162667--24162759 Score: 86
Period size: 32 Copynumber: 2.9 Consensus size: 32
24162657 TATTATTATT
24162667 TTTTATTTTATTTCTTAA-ATATTAATAATTAATA
1 TTTTATTTTA-TT-TTAATATATTAAT-ATTAATA
* * *
24162701 TTTTA-TTTATAATTAAT-CATTAAT-TTTATNA
1 TTTTATTTTAT-TTTAATATATTAATATTAAT-A
24162732 TTTTATTTTATTTTAATATATTAATATT
1 TTTTATTTTATTTTAATATATTAATATT
24162760 TTATTTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
30 4 0.08
31 11 0.23
32 22 0.46
33 6 0.12
34 5 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTTATTTTATTTTAATATATTAATATTAATA
Found at i:24162785 original size:26 final size:26
Alignment explanation
Indices: 24162731--24162788 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
24162721 TAATTTTATN
**
24162731 ATTTTATTTTATTTTAATATATTAAT
1 ATTTTATTTTAAATTAATATATTAAT
*
24162757 ATTTTATTTATAAATTAAATATAATTATT
1 ATTTTATTT-TAAATT-AATAT-ATTAAT
24162786 ATT
1 ATT
24162789 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 4 0.15
28 5 0.19
29 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTATTTTAAATTAATATATTAAT
Found at i:24162986 original size:17 final size:17
Alignment explanation
Indices: 24162966--24163000 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24162956 TTTTTTAATC
* *
24162966 ATTAAATTTTTATTTTT
1 ATTAAAATTTTAATTTT
24162983 ATTAAAATTTTAATTTT
1 ATTAAAATTTTAATTTT
24163000 A
1 A
24163001 ATAATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTAAAATTTTAATTTT
Found at i:24164701 original size:15 final size:16
Alignment explanation
Indices: 24164681--24164722 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
24164671 GTTCTCTTGC
*
24164681 ATTTATTATTATTA-T
1 ATTTATTATTATCATT
24164696 ATTTATTATTATCATT
1 ATTTATTATTATCATT
24164712 ATTTCATTATT
1 ATTT-ATTATT
24164723 TCTTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTATTATTATCATT
Found at i:24166220 original size:36 final size:34
Alignment explanation
Indices: 24166170--24166240 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 34
24166160 GTCAATTAGC
*
24166170 TTTTTTTTTATTTGATTTTTTTGTTTTTTTATTT
1 TTTTTTTTTATTTGATTTTTTTATTTTTTTATTT
24166204 TTTTCTTTTTGATTTGATTTTTTTATTTTTTTATTT
1 TTTT-TTTTT-ATTTGATTTTTTTATTTTTTTATTT
24166240 T
1 T
24166241 CTTCAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.12
35 5 0.15
36 25 0.74
ACGTcount: A:0.10, C:0.01, G:0.06, T:0.83
Consensus pattern (34 bp):
TTTTTTTTTATTTGATTTTTTTATTTTTTTATTT
Found at i:24166231 original size:8 final size:8
Alignment explanation
Indices: 24166170--24166240 Score: 63
Period size: 8 Copynumber: 8.5 Consensus size: 8
24166160 GTCAATTAGC
24166170 TTTTTTT-
1 TTTTTTTA
* *
24166177 TTATTTGA
1 TTTTTTTA
*
24166185 TTTTTTTG
1 TTTTTTTA
24166193 TTTTTTTA
1 TTTTTTTA
*
24166201 TTTTTTTCT
1 TTTTTTT-A
24166210 TTTTGATTTGA
1 TTTT--TTT-A
24166221 TTTTTTTA
1 TTTTTTTA
24166229 TTTTTTTA
1 TTTTTTTA
24166237 TTTT
1 TTTT
24166241 CTTCAAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
7 5 0.10
8 32 0.63
9 7 0.14
11 7 0.14
ACGTcount: A:0.10, C:0.01, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:24166788 original size:61 final size:59
Alignment explanation
Indices: 24166718--24167563 Score: 417
Period size: 61 Copynumber: 13.8 Consensus size: 59
24166708 CCAACTAAAT
* *
24166718 TTGGGCTTAAATTATTTCATGCCAATATAACTGGACTTAAACATCTTGGATGCTAGTTTGA
1 TTGGGCTTAAATTATTT-ATGCCAACATAACTGGACTTATACATCTTGGATGCTAG-TTGA
* * * ** * *
24166779 TTGGACTTAAAGTCATTTATGTCAATGTAACTGGACTCATATATCTTGGATGCTAGCTTGA
1 TTGGGCTTAAA-TTATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAG-TTGA
* * * ** * * *
24166840 TTGGGCTTAAAATCATTTGTGCCAATGTTACTAGACTTATAAATGTTATAAATCTTGGATGTCAA
1 TTGGGCTT-AAATTATTTATGCCAA---CA-TA-AC---TGGA-CTTATACATCTTGGATG-CTA
*
24166905 CTTGA
55 GTTGA
* * * * * *
24166910 TTGGGCTTAAACTCTTTCATGCCAACATAACTGGACTTAGACATCTTGGATGCCAGCTAA
1 TTGGGCTTAAATTATTT-ATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTGA
* * ** * *
24166970 TTGGGCTTAAACTTTATTTGTGTCAAC-T-A---GACTTATACATCTTAAATGCCAGTTAA
1 TTGGGCTTAAA--TTATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTGA
* * * * * **
24167026 GTAGGGTTTAAATTCTTTCATGCCAACATAACTGAACTTATATATCTTGGATGCTAGGTAAA
1 -TTGGGCTTAAATTATTT-ATGCCAACATAACTGGACTTATACATCTTGGATGCTA-GTTGA
** *
24167088 TTGGGCTTAAACTCCCTTTGTGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTTGA
1 TTGGGCTTAAA-T-TATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAG-TTGA
* * * * * *
24167150 TTGGGATTAAATTCTTTCGTGCCAACATAACTGGACTTATACATCTTGGATGCCACTTAAA
1 TTGGGCTTAAATTATTT-ATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTT-GA
* * * * ** *
24167211 TTGTGCTTAAACTCT-TTTCGTACTAATGTAA-TAGGACTTATATATCTTGGATGCCATA-TAT-
1 TTGGGCTTAAA-T-TATTT-ATGCCAACATAACT-GGACTTATACATCTTGGATG-C-TAGT-TG
24167272 A
59 A
* * * * * ** *
24167273 TTGGGCTTAAATTCTTTTGTGCCAACGTAACTAGACTTATACATCTTGGATGCCAACTAA
1 TTGGGCTTAAATT-ATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTGA
* * * * * * *
24167333 TTGGGCTTAAACTCTTTTTATG---TC--AACTGAACTTATACATCTTAGATACCAGTTAAA
1 TTGGGCTTAAA-T-TATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTT-GA
* * * ** * **
24167390 TTGGACTTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTATATGCCAAGTAAA
1 TTGGGCTTAAATTATTT-ATGCCAACATAACTGGACTTATACATCTTGGATG-CTAGTTGA
* * * * *
24167451 TTGGGTTTAAACTCCT-TTTGTGCTAACGTAACTAGACTTATACATCTTGGATGCTAGTTGA
1 TTGGGCTTAAA-T--TATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTGA
* ** * *
24167512 TTGGGCTTAAACTCTTTTTATGCCAATGTAATTAGACTTATACATCTTGGAT
1 TTGGGCTTAAA-T-TATTTATGCCAACATAACTGGACTTATACATCTTGGAT
24167564 ACCAATTTAA
Statistics
Matches: 617, Mismatches: 115, Indels: 106
0.74 0.14 0.13
Matches are distributed among these distances:
55 9 0.01
56 57 0.09
57 22 0.04
58 2 0.00
59 4 0.01
60 38 0.06
61 275 0.45
62 145 0.24
63 10 0.02
64 4 0.01
65 4 0.01
66 4 0.01
67 1 0.00
69 8 0.01
70 32 0.05
71 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (59 bp):
TTGGGCTTAAATTATTTATGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTGA
Found at i:24167196 original size:240 final size:235
Alignment explanation
Indices: 24166906--24167568 Score: 610
Period size: 240 Copynumber: 2.8 Consensus size: 235
24166896 GGATGTCAAC
* * *
24166906 TTGATTGGGCTTAAACTCTTTCATGCCAACATAACTGGACTTAGACATCTTGGATGCCAGCT-AA
1 TTGATTGGGATTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTGGATGCCAGCTAAA
24166970 TTGGGCTTAAACT-TTATTTGTGTCAACTAGACTTATACATCTTAAATGCCAGT-TA-AGTAGGG
66 TTGGGCTTAAACTCTT-TTTGTGTCAACTAGACTTATACATCTTAAATGCCA-TATATA-TAGGG
* * * **
24167032 TTTAAATTCTTTCATGCCAACATAACT-GAACTTATATATCTTGGATGCTAGGTAAATTGGGCTT
128 CTTAAATTCTTTCATGCCAACATAACTAG-ACTTATACATCTTGGATGCCAACT-AATTGGGCTT
* * * * *
24167096 AAACTCCCTTTGTGCCAACATAACTGGACTTATACATCTTGGATGCTAGT
191 AAACTCCCTTTATG---AC--AACTGAACTTATACATCTTAGATACCAGT
* *
24167146 TTGATTGGGATTAAATTCTTTCGTGCCAACATAACTGGACTTATACATCTTGGATGCCA-CTTAA
1 TTGATTGGGATTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTGGATGCCAGC-TAA
* * * * * * ** *
24167210 ATTGTGCTTAAACTCTTTTCGTACTAATGTAATAGGACTTATATATCTTGGATGCCATATATATT
65 ATTGGGCTTAAACTCTTTTTGT-GTCA---ACTA-GACTTATACATCTTAAATGCCATATATATA
** *
24167275 GGGCTTAAATTCTTTTGTGCCAACGTAACTAGACTTATACATCTTGGATGCCAACTAATTGGGCT
125 GGGCTTAAATTCTTTCATGCCAACATAACTAGACTTATACATCTTGGATGCCAACTAATTGGGCT
** *
24167340 TAAACTCTTTTTATGTCAACTGAACTTATACATCTTAGATACCAGT
190 TAAACTCCCTTTATGACAACTGAACTTATACATCTTAGATACCAGT
** **
24167386 TAAATT-GGACTTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTATATGCCAAG-TA
1 TTGATTGGGA-TTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTGGATGCC-AGCTA
* * **
24167449 AATTGGGTTTAAACTCCTTTTGTGCTAACGTAACTAGACTTATACATCTTGGATG-C-TAGT-TG
64 AATTGGGCTTAAACTCTTTTTGTG-T--C--AACTAGACTTATACATCTTAAATGCCATA-TAT-
* * * ** * *
24167511 ATTGGGCTTAAACTCTTTTTATGCCAATGTAATTAGACTTATACATCTTGGATACCAA
122 ATAGGGCTTAAATTC-TTTCATGCCAACATAACTAGACTTATACATCTTGGATGCCAA
24167569 TTTAATCAAG
Statistics
Matches: 353, Mismatches: 48, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
238 3 0.01
239 20 0.06
240 207 0.59
241 22 0.06
242 5 0.01
244 1 0.00
245 25 0.07
246 68 0.19
247 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (235 bp):
TTGATTGGGATTAAATTCTTTCATGCCAACATAACTGGACTTACACATCTTGGATGCCAGCTAAA
TTGGGCTTAAACTCTTTTTGTGTCAACTAGACTTATACATCTTAAATGCCATATATATAGGGCTT
AAATTCTTTCATGCCAACATAACTAGACTTATACATCTTGGATGCCAACTAATTGGGCTTAAACT
CCCTTTATGACAACTGAACTTATACATCTTAGATACCAGT
Found at i:24167417 original size:363 final size:363
Alignment explanation
Indices: 24166909--24167563 Score: 956
Period size: 363 Copynumber: 1.8 Consensus size: 363
24166899 TGTCAACTTG
* *
24166909 ATTGGGCTTAAACTCTTTCATGCCAACATAACTGGACTTAGACATCTTGGATGCCAGCTAATTGG
1 ATTGGGCTTAAACTCTTTCATGCCAACATAACTAGACTTAGACATCTTGGATGCCAACTAATTGG
* * * **
24166974 GCTTAAACTTTATTTGTGTCAACTAGACTTATACATCTTAAATGCCAGTTAAGTAGGGTTTAAAT
66 GCTTAAACTTTATTTATGTCAACTAGACTTATACATCTTAAATACCAGTTAAATAGGACTTAAAT
* * * * *
24167039 TCTTTCATGCCAACATAACTGAACTTATATATCTTGGATGCTAGGTAAATTGGGCTTAAACTCCC
131 TCTTTCATGCCAACATAACTGAACTTACACATCTTAGATGCCAAGTAAATTGGGCTTAAACTCCC
* *
24167104 TTTGTGCCAACATAACTGGACTTATACATCTTGGATGCTAGTTTGATTGGGATTAAATTC-TTTC
196 TTTGTGCCAACATAACTAGACTTATACATCTTGGATGCTAG-TTGATTGGGATTAAACTCTTTTC
* *
24167168 GTGCCAACATAACTGGACTTATACATCTTGGATGCCACTTAAATTGTGCTTAAACTCTTTTCGTA
260 ATGCCAACATAACTAGACTTATACATCTTGGATGCCACTTAAATTGTGCTTAAACTCTTTTCGTA
24167233 CTAATGTAATAGGACTTATATATCTTGGATGCCATATAT
325 CTAATGTAATAGGACTTATATATCTTGGATGCCATATAT
* ** * *
24167272 ATTGGGCTTAAATTCTTTTGTGCCAACGTAACTAGACTTATACATCTTGGATGCCAACTAATTGG
1 ATTGGGCTTAAACTCTTTCATGCCAACATAACTAGACTTAGACATCTTGGATGCCAACTAATTGG
* *
24167337 GCTTAAACTCTT-TTTATGTCAACT-GAACTTATACATCTTAGATACCAGTTAAATTGGACTTAA
66 GCTTAAACT-TTATTTATGTCAACTAG-ACTTATACATCTTAAATACCAGTTAAATAGGACTTAA
* * *
24167400 ATTCTTTCATGCCAACATAACTGGACTTACACATCTTATATGCCAAGTAAATTGGGTTTAAACTC
129 ATTCTTTCATGCCAACATAACTGAACTTACACATCTTAGATGCCAAGTAAATTGGGCTTAAACTC
* * * *
24167465 CTTTTGTGCTAACGTAACTAGACTTATACATCTTGGATGCTAGTTGATTGGGCTTAAACTCTTTT
194 CCTTTGTGCCAACATAACTAGACTTATACATCTTGGATGCTAGTTGATTGGGATTAAACTCTTTT
* ** *
24167530 TATGCCAATGTAATTAGACTTATACATCTTGGAT
259 CATGCCAACATAACTAGACTTATACATCTTGGAT
24167564 ACCAATTTAA
Statistics
Matches: 255, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
362 17 0.07
363 236 0.93
364 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (363 bp):
ATTGGGCTTAAACTCTTTCATGCCAACATAACTAGACTTAGACATCTTGGATGCCAACTAATTGG
GCTTAAACTTTATTTATGTCAACTAGACTTATACATCTTAAATACCAGTTAAATAGGACTTAAAT
TCTTTCATGCCAACATAACTGAACTTACACATCTTAGATGCCAAGTAAATTGGGCTTAAACTCCC
TTTGTGCCAACATAACTAGACTTATACATCTTGGATGCTAGTTGATTGGGATTAAACTCTTTTCA
TGCCAACATAACTAGACTTATACATCTTGGATGCCACTTAAATTGTGCTTAAACTCTTTTCGTAC
TAATGTAATAGGACTTATATATCTTGGATGCCATATAT
Found at i:24167584 original size:123 final size:122
Alignment explanation
Indices: 24166885--24167570 Score: 636
Period size: 123 Copynumber: 5.7 Consensus size: 122
24166875 CTTATAAATG
* * * * * *
24166885 TTATAAATCTTGGATGTCAACTTGATTGGGCTTAAACTCTTTCATGCCAACATAACTGGACTTAG
1 TTATACATCTTGGATG-CTAGTTGATTGGGCTTAAATTCTTTCATGCCAACATAACTAGACTTAT
** *
24166950 ACATCTTGGATGCCAGCT-AATTGGGCTTAAACT-TTATTTGTG-T--C--AACTAGAC
65 ACATCTTGGATGCCAATTAAATTGGGCTTAAACTCCT-TTTGTGCTAACGTAACTAGAC
** * * * *
24167002 TTATACATCTTAAATGCCAGTTAAGTAGGGTTTAAATTCTTTCATGCCAACATAACT-GAACTTA
1 TTATACATCTTGGATGCTAGTTGA-TTGGGCTTAAATTCTTTCATGCCAACATAACTAG-ACTTA
* * ** * * * *
24167066 TATATCTTGGATGCTAGGTAAATTGGGCTTAAACTCCCTTTGTGCCAACATAACTGGAC
64 TACATCTTGGATGCCAATTAAATTGGGCTTAAACTCCTTTTGTGCTAACGTAACTAGAC
* * *
24167125 TTATACATCTTGGATGCTAGTTTGATTGGGATTAAATTCTTTCGTGCCAACATAACTGGACTTAT
1 TTATACATCTTGGATGCTAG-TTGATTGGGCTTAAATTCTTTCATGCCAACATAACTAGACTTAT
* * * *
24167190 ACATCTTGGATGCCACTTAAATTGTGCTTAAACT-CTTTTCGTACTAATGTAA-TAGGAC
65 ACATCTTGGATGCCAATTAAATTGGGCTTAAACTCCTTTT-GTGCTAACGTAACTA-GAC
* ** *
24167248 TTATATATCTTGGATGCCATA-TAT-ATTGGGCTTAAATTCTTTTGTGCCAACGTAACTAGACTT
1 TTATACATCTTGGATG-C-TAGT-TGATTGGGCTTAAATTCTTTCATGCCAACATAACTAGACTT
* * *
24167311 ATACATCTTGGATGCCAACT-AATTGGGCTTAAACTCTTTTTATG-T--C--AACT-GAAC
63 ATACATCTTGGATGCCAATTAAATTGGGCTTAAACTCCTTTTGTGCTAACGTAACTAG-AC
* * * * * * *
24167365 TTATACATCTTAGATACCAGTTAAATTGGACTTAAATTCTTTCATGCCAACATAACTGGACTTAC
1 TTATACATCTTGGATGCTAGTT-GATTGGGCTTAAATTCTTTCATGCCAACATAACTAGACTTAT
** * *
24167430 ACATCTTATATGCCAAGTAAATTGGGTTTAAACTCCTTTTGTGCTAACGTAACTAGAC
65 ACATCTTGGATGCCAATTAAATTGGGCTTAAACTCCTTTTGTGCTAACGTAACTAGAC
* * ** *
24167488 TTATACATCTTGGATGCTAGTTGATTGGGCTTAAACTCTTTTTATGCCAATGTAATTAGACTTAT
1 TTATACATCTTGGATGCTAGTTGATTGGGCTTAAATTC-TTTCATGCCAACATAACTAGACTTAT
*
24167553 ACATCTTGGATACCAATT
65 ACATCTTGGATGCCAATT
24167571 TAATCAAGCT
Statistics
Matches: 460, Mismatches: 79, Indels: 54
0.78 0.13 0.09
Matches are distributed among these distances:
115 2 0.00
116 9 0.02
117 129 0.28
118 43 0.09
119 1 0.00
121 3 0.01
122 33 0.07
123 231 0.50
124 7 0.02
125 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (122 bp):
TTATACATCTTGGATGCTAGTTGATTGGGCTTAAATTCTTTCATGCCAACATAACTAGACTTATA
CATCTTGGATGCCAATTAAATTGGGCTTAAACTCCTTTTGTGCTAACGTAACTAGAC
Found at i:24173404 original size:181 final size:182
Alignment explanation
Indices: 24173086--24173488 Score: 666
Period size: 181 Copynumber: 2.2 Consensus size: 182
24173076 ACTCTCTACA
* * * *
24173086 CTCTTCTTTCCGACGACAGATCTGGTGGCGTCGATGGTCGGGGCCCCTTCTCGCGTCGGCGAACT
1 CTCTTCCTTCCGGCGACAGATCTGGCGGCGTCGATGGTCGGGGCCCCTTCTCGCATCGGCGAACT
*
24173151 CTTCCTTGCGGCGTGGGTCAAGTCGGCTCTCTCCCACCGGCGACAGATCTGGTGGCGCGACGGGT
66 CTTCCTTACGGCGTGGGTCAAGTCGGCTCTCTCCCACCGGCGACAGATCTGGTGGCGCGACGGGT
24173216 TCTCTTACGGTCGGCCTCCCCAACCGGTAGCGTCGCTCCTCGCCTGGGTCGG
131 TCTCTTACGGTCGGCCTCCCCAACCGGTAGCGTCGCTCCTCGCCTGGGTCGG
* * *
24173268 CTCTTCCTTCCGGCGACAGATCTGGCGGCGTCGATGGTC-GGGCTCCTTCTGGTATCGGCGAACT
1 CTCTTCCTTCCGGCGACAGATCTGGCGGCGTCGATGGTCGGGGCCCCTTCTCGCATCGGCGAACT
*
24173332 CTTCCTTACGGCGTGGGTCAAGTCGGCTCTC-CCCAACCGGCGACAGATCTGGTGGCGCGACTGG
66 CTTCCTTACGGCGTGGGTCAAGTCGGCTCTCTCCC-ACCGGCGACAGATCTGGTGGCGCGACGGG
* *
24173396 TTCTCTTACGGTCGGTCTCCCCAACCGGTGGCGTCGCTCCTCGCCTGGGTCGG
130 TTCTCTTACGGTCGGCCTCCCCAACCGGTAGCGTCGCTCCTCGCCTGGGTCGG
*
24173449 CTCTTCCTTCCGGCGACAGATCTGGCGGAGTCGATCGGTC
1 CTCTTCCTTCCGGCGACAGATCTGGCGGCGTCGAT-GGTC
24173489 TTCTCTGGCC
Statistics
Matches: 207, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
180 3 0.01
181 164 0.79
182 40 0.19
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (182 bp):
CTCTTCCTTCCGGCGACAGATCTGGCGGCGTCGATGGTCGGGGCCCCTTCTCGCATCGGCGAACT
CTTCCTTACGGCGTGGGTCAAGTCGGCTCTCTCCCACCGGCGACAGATCTGGTGGCGCGACGGGT
TCTCTTACGGTCGGCCTCCCCAACCGGTAGCGTCGCTCCTCGCCTGGGTCGG
Found at i:24181128 original size:52 final size:51
Alignment explanation
Indices: 24181044--24181145 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 51
24181034 TTTAACCAAG
*
24181044 AAAATGGTAATCCTTTCTTGCTCCCCTCGAAACAAATGCTCTCATTTGTCAA
1 AAAATGGTAATCCTTTCTTGCTCCCCTCGAAACAAAAGCTCTCA-TTGTCAA
* * *
24181096 AAAATGGTAATTCTTTCTTGCTTCCCTTGAAACAAAAGCTCTCATTGTCA
1 AAAATGGTAATCCTTTCTTGCTCCCCTCGAAACAAAAGCTCTCATTGTCA
24181146 TTGGCATTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 6 0.13
52 40 0.87
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
AAAATGGTAATCCTTTCTTGCTCCCCTCGAAACAAAAGCTCTCATTGTCAA
Found at i:24183380 original size:40 final size:40
Alignment explanation
Indices: 24183319--24183394 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
24183309 TGAATTTTCG
*
24183319 TATGTAATCCGTGATACATAGTTGCTTTAATGTATTTATA
1 TATGTAATCCGGGATACATAGTTGCTTTAATGTATTTATA
* * *
24183359 TATGTAATCTGGGATAGATAGTTGCTTTCATGTATT
1 TATGTAATCCGGGATACATAGTTGCTTTAATGTATT
24183395 AATTTACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (40 bp):
TATGTAATCCGGGATACATAGTTGCTTTAATGTATTTATA
Found at i:24198314 original size:215 final size:218
Alignment explanation
Indices: 24197722--24198245 Score: 640
Period size: 215 Copynumber: 2.4 Consensus size: 218
24197712 AGAAAAAAAA
* * * * * *
24197722 AACTTTATTAGTTACCACCATAATTTT-ATAACCTATTGTTTATAATTAGTTATTATTGATACAA
1 AACTTTATTAGTTATCACCTTAGTTTTCATAACATACTGTTTATAATTAGTTATTATTTATACAA
* * **
24197786 ACTTTG--AT----A-TAAAACATTATAACATATAAGTTGTGTCATTAATTTCATATATATATAT
66 ACTCTGATATAAAAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTTGTATATATA-AT
* * * * * * * *
24197844 ATA-TATATAATAAAGTAATATTATATATATTTAATTTATATATAAGCATTACTATAACTTATAA
130 AAAGTA-ATATTATA-T-ATA-TACACATAGTTAATTTATACATAAGCATTACCATAACTTATAA
24197908 TAGAATTTATTTATATGATTACACTTAAT
191 TAGAA-TTATTTATATGATTACACTTAAT
* * *
24197937 AACTTTATTAGTTATTACCTTAGTTTTTATAACATACTGTTTATAATTAGTTATTATTTATGCAA
1 AACTTTATTAGTTATCACCTTAGTTTTCATAACATACTGTTTATAATTAGTTATTATTTATACAA
* *
24198002 ATTTTGATATAAAAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTTGTATATATAATA
66 ACTCTGATATAAAAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTTGTATATATAATA
* *
24198067 AAGTAATATTATATATATACACATATTTAATTTATACATAAGTATTACCATAACTTATAATA-AA
131 AAGTAATATTATATATATACACATAGTTAATTTATACATAAGCATTACCATAACTTATAATAGAA
24198131 -T-TTTATATGATTACACTTAAT
196 TTATTTATATGATTACACTTAAT
* *
24198152 AATTTTATTAGTTATCACCTTAGTTTTCATAACATATTGTTTATAATTAGTTATTATTTATACAA
1 AACTTTATTAGTTATCACCTTAGTTTTCATAACATACTGTTTATAATTAGTTATTATTTATACAA
* *
24198217 ACTCTGATATAATACATTATAATATTATA
66 ACTCTGATATAA-AAATTAAAATATTATA
24198246 GTTTTATTTT
Statistics
Matches: 270, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
215 113 0.42
216 53 0.20
218 4 0.01
219 40 0.15
220 3 0.01
221 1 0.00
222 11 0.04
223 45 0.17
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (218 bp):
AACTTTATTAGTTATCACCTTAGTTTTCATAACATACTGTTTATAATTAGTTATTATTTATACAA
ACTCTGATATAAAAATTAAAATATTATAACATATAAGTTGTGTCATTAATTTTGTATATATAATA
AAGTAATATTATATATATACACATAGTTAATTTATACATAAGCATTACCATAACTTATAATAGAA
TTATTTATATGATTACACTTAAT
Found at i:24200699 original size:13 final size:13
Alignment explanation
Indices: 24200681--24200705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24200671 TGAAAGCACC
24200681 AAAATACCCCTCT
1 AAAATACCCCTCT
24200694 AAAATACCCCTC
1 AAAATACCCCTC
24200706 ATTAAACACT
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:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATACCCCTCT
Found at i:24203956 original size:25 final size:25
Alignment explanation
Indices: 24203920--24203973 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
24203910 CTTTTTAAAC
*
24203920 TAATGTTTATTTATT-CTATAAAGAT
1 TAATGTTAATTTATTGC-ATAAAGAT
*
24203945 TAATGTTAATTTATTGCATGAAGAT
1 TAATGTTAATTTATTGCATAAAGAT
24203970 TAAT
1 TAAT
24203974 ATTATTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (25 bp):
TAATGTTAATTTATTGCATAAAGAT
Found at i:24208873 original size:31 final size:31
Alignment explanation
Indices: 24208835--24208895 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
24208825 TCACGGGCCG
*
24208835 AAGCTTTTTACTCTTGACATTCTCCAACCCC
1 AAGCTTTTTACTCTTGACATACTCCAACCCC
* * *
24208866 AAGCTTTTTATTCTTTAGATACTCCAACCC
1 AAGCTTTTTACTCTTGACATACTCCAACCC
24208896 AACCCTGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.07, T:0.38
Consensus pattern (31 bp):
AAGCTTTTTACTCTTGACATACTCCAACCCC
Found at i:24209395 original size:2 final size:2
Alignment explanation
Indices: 24209388--24209417 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24209378 CGATGTGTAA
24209388 AT 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 AT
24209418 TATTAAAAAC
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):
AT
Found at i:24221288 original size:19 final size:17
Alignment explanation
Indices: 24221258--24221393 Score: 74
Period size: 16 Copynumber: 8.1 Consensus size: 17
24221248 TAAAAAAATT
24221258 AAAATAAAATATATAATA
1 AAAATAAAATATAT-ATA
* *
24221276 TAAA-AAATTATAT-TA
1 AAAATAAAATATATATA
24221291 AAAATAAAATATATAT-
1 AAAATAAAATATATATA
*
24221307 AAAATGAAAATAAAATATATG
1 AAAAT-AAAAT---ATATATA
* * *
24221328 ATATTAAAA-ATACATA
1 AAAATAAAATATATATA
* *
24221344 AAAAGATAATATTATATA
1 AAAATAAAATA-TATATA
24221362 AAAAT--AATA-ATA-A
1 AAAATAAAATATATATA
24221375 AAAATATAAATATAT-TA
1 AAAATA-AAATATATATA
24221392 AA
1 AA
24221394 CTTAATGTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 29
0.68 0.11 0.22
Matches are distributed among these distances:
13 6 0.07
14 3 0.03
15 5 0.06
16 31 0.34
17 20 0.22
18 12 0.13
20 10 0.11
21 3 0.03
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATAAAATATATATA
Found at i:24221292 original size:27 final size:27
Alignment explanation
Indices: 24221250--24221388 Score: 99
Period size: 27 Copynumber: 5.0 Consensus size: 27
24221240 TTATCTTTTA
24221250 AAAAAATTAAAATAAAATATATAATAT
1 AAAAAATTAAAATAAAATATATAATAT
* * *
24221277 AAAAAATTATATTAAAA-ATAAAATAT
1 AAAAAATTAAAATAAAATATATAATAT
* *
24221303 ATATAAAATGAAAATAAAATATATGATAT
1 A-A-AAAATTAAAATAAAATATATAATAT
* *
24221332 TAAAAA-TACATAA-AAAGATA-ATATTAT
1 AAAAAATTA-A-AATAAA-ATATATAATAT
*
24221359 ATAAAAA-TAATAATAAAAAATATAAATAT
1 A-AAAAATTAA-AATAAAATATAT-AATAT
24221388 A
1 A
24221389 TTAAACTTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
26 10 0.11
27 35 0.40
28 30 0.34
29 12 0.14
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAAATTAAAATAAAATATATAATAT
Found at i:24221311 original size:55 final size:54
Alignment explanation
Indices: 24221252--24221388 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 54
24221242 ATCTTTTAAA
* *
24221252 AAAATTAAAATAAAATATATAATATAAAAAATTATATTAAAAATAAAATA-TATAT
1 AAAATTAAAATAAAATATATAATATAAAAAA-TACA-TAAAAAGAAAATATTATAT
* * * *
24221307 AAAATGAAAATAAAATATATGATATTAAAAATACATAAAAAGATAATATTATAT
1 AAAATTAAAATAAAATATATAATATAAAAAATACATAAAAAGAAAATATTATAT
* *
24221361 AAAAATAATAATAAAAAATATAAATATA
1 AAAATTAA-AATAAAATATAT-AATATA
24221389 TTAAACTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 11 0.16
54 14 0.21
55 39 0.57
56 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (54 bp):
AAAATTAAAATAAAATATATAATATAAAAAATACATAAAAAGAAAATATTATAT
Found at i:24221316 original size:17 final size:16
Alignment explanation
Indices: 24221257--24221318 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
24221247 TTAAAAAAAT
24221257 TAAAATAAAATATATAA
1 TAAAATAAAATATAT-A
*
24221274 TATAA-AAAAT-TATA
1 TAAAATAAAATATATA
24221288 TTAAAAATAAAATATATA
1 -T-AAAATAAAATATATA
24221306 TAAAATGAAAATA
1 TAAAAT-AAAATA
24221319 AAATATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 13 0.34
17 16 0.42
18 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
TAAAATAAAATATATA
Found at i:24221383 original size:12 final size:13
Alignment explanation
Indices: 24221251--24221388 Score: 63
Period size: 13 Copynumber: 10.1 Consensus size: 13
24221241 TATCTTTTAA
*
24221251 AAAAAT-TAAAAT
1 AAAAATATAATAT
24221263 AAAATATATAATAT
1 AAAA-ATATAATAT
*
24221277 AAAAA-ATTATATT
1 AAAAATATAATA-T
*
24221290 AAAAATAAAATAT
1 AAAAATATAATAT
*
24221303 ATATAAA-ATGAAAAT
1 A-A-AAATAT-AATAT
*
24221318 AAAATATATGATATT
1 AAAA-ATATAATA-T
24221333 AAAAATACATAA-A-
1 AAAAAT--ATAATAT
*
24221346 AAGATAATATTATAT
1 AA-A-AATATAATAT
24221361 AAAAATAATAATA-
1 AAAAAT-ATAATAT
24221374 AAAAATATAAATAT
1 AAAAATAT-AATAT
24221388 A
1 A
24221389 TTAAACTTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
12 11 0.11
13 31 0.32
14 30 0.31
15 21 0.22
16 3 0.03
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAAATATAATAT
Found at i:24222222 original size:21 final size:22
Alignment explanation
Indices: 24222182--24222222 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24222172 TAGGGTTGGA
*
24222182 AGTTGAGAGAGCATGTGTGACT
1 AGTTGAGAGAGCATGCGTGACT
*
24222204 AGTTGATAG-GCATGCGTGA
1 AGTTGAGAGAGCATGCGTGA
24222223 TTGGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (22 bp):
AGTTGAGAGAGCATGCGTGACT
Found at i:24222801 original size:21 final size:20
Alignment explanation
Indices: 24222777--24222815 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24222767 TGTCACAAGA
24222777 CATGTATGACTGGTTGATAGG
1 CATGTATG-CTGGTTGATAGG
*
24222798 CATGTGTGCTGGTTGATA
1 CATGTATGCTGGTTGATA
24222816 AGAATTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (20 bp):
CATGTATGCTGGTTGATAGG
Found at i:24224881 original size:45 final size:45
Alignment explanation
Indices: 24224832--24224919 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
24224822 TGAGCGAAAC
* *
24224832 ATGCAAATGCATATGCAGTCAATGC-GATTAGAGATCTAGCAGTAA
1 ATGCAAATGCAGATGCAGTCAATGCAG-CTAGAGATCTAGCAGTAA
** * *
24224877 ATGCACCTGCAGATGCAGTTAATGCAGCTAGATATCTAGCAGT
1 ATGCAAATGCAGATGCAGTCAATGCAGCTAGAGATCTAGCAGT
24224920 CACTGCAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 35 0.97
46 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
ATGCAAATGCAGATGCAGTCAATGCAGCTAGAGATCTAGCAGTAA
Found at i:24226495 original size:26 final size:26
Alignment explanation
Indices: 24226437--24226497 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
24226427 AACATTGTTG
*
24226437 TGTATCATCTCCAAATATTCTTTGAT
1 TGTATCATTTCCAAATATTCTTTGAT
*
24226463 TGT-TCATTTCTAAATTATTCTTTG-T
1 TGTATCATTTCCAAA-TATTCTTTGAT
*
24226488 TTTATCATTT
1 TGTATCATTT
24226498 AACAAAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.56
Consensus pattern (26 bp):
TGTATCATTTCCAAATATTCTTTGAT
Found at i:24228395 original size:22 final size:22
Alignment explanation
Indices: 24228326--24228397 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
24228316 CTCACATTGT
* *
24228326 CTAATATTCAGTCACGCAATGC
1 CTAATAATCAGTCAAGCAATGC
* * * **
24228348 CAAATAAACAAGTTAAGC-ATTT
1 CTAATAATC-AGTCAAGCAATGC
*
24228370 CTAATAATCAGTCATGCAATGC
1 CTAATAATCAGTCAAGCAATGC
24228392 CTAATA
1 CTAATA
24228398 TCCAATCACA
Statistics
Matches: 35, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
21 6 0.17
22 23 0.66
23 6 0.17
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (22 bp):
CTAATAATCAGTCAAGCAATGC
Found at i:24236982 original size:18 final size:18
Alignment explanation
Indices: 24236959--24237004 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
24236949 TTAGCTTGCG
24236959 TGAAATGCTTCAAGCTTA
1 TGAAATGCTTCAAGCTTA
24236977 TGAAATGCTTCAAGCTTA
1 TGAAATGCTTCAAGCTTA
24236995 TGAAATGCTT
1 TGAAATGCTT
24237005 ATATTGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
TGAAATGCTTCAAGCTTA
Found at i:24241754 original size:19 final size:18
Alignment explanation
Indices: 24241723--24241767 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
24241713 ATATATAATT
*
24241723 TAAAA-TTATAAATATCA
1 TAAAATTTATAAATATAA
*
24241740 TAATATTTATCAAATATAA
1 TAAAATTTAT-AAATATAA
24241759 TAAAATTTA
1 TAAAATTTA
24241768 ATATCAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 15 0.65
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATTTATAAATATAA
Found at i:24255864 original size:12 final size:11
Alignment explanation
Indices: 24255835--24255866 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24255825 CATATATTTT
24255835 AAATTTTTATA
1 AAATTTTTATA
*
24255846 AAATTTTTTTA
1 AAATTTTTATA
24255857 AAATTTTTAT
1 AAATTTTTAT
24255867 GAACCATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AAATTTTTATA
Found at i:24255908 original size:34 final size:34
Alignment explanation
Indices: 24255863--24255936 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
24255853 TTTAAAATTT
24255863 TTATG-AACCATCAACCATATTCTCTTTTTTTTA
1 TTATGTAACCATCAACCATATTCTCTTTTTTTTA
*
24255896 TTATGTAACCATCAACCATATTCTTTTTTTTTTA
1 TTATGTAACCATCAACCATATTCTCTTTTTTTTA
24255930 TTATGTA
1 TTATGTA
24255937 GGTTCTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 5 0.13
34 34 0.87
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (34 bp):
TTATGTAACCATCAACCATATTCTCTTTTTTTTA
Found at i:24259772 original size:2 final size:2
Alignment explanation
Indices: 24259765--24259800 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24259755 ATATTTTTAG
24259765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24259801 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24260270 original size:29 final size:31
Alignment explanation
Indices: 24260217--24260275 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
24260207 AAATTATTAA
* *
24260217 TTACAATATATATACCTTTATTTATATAAAT
1 TTACAATATATATAACTTTAATTATATAAAT
*
24260248 TTACAATATATA-AAC-TTAATTATCTAAA
1 TTACAATATATATAACTTTAATTATATAAA
24260276 AATAAGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 2 0.08
31 12 0.48
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (31 bp):
TTACAATATATATAACTTTAATTATATAAAT
Found at i:24266779 original size:16 final size:16
Alignment explanation
Indices: 24266758--24267048 Score: 291
Period size: 16 Copynumber: 17.9 Consensus size: 16
24266748 TGGTCCCCCC
24266758 TTGCTGCAGGTTCTCT
1 TTGCTGCAGGTTCTCT
* *
24266774 TTGCTGCCGGTTCTCC
1 TTGCTGCAGGTTCTCT
24266790 TTGCTGCAGGTTCTCT
1 TTGCTGCAGGTTCTCT
* *
24266806 TTGCTGCCGGTTCTCC
1 TTGCTGCAGGTTCTCT
*
24266822 TTGATGCAGGTTCTCT
1 TTGCTGCAGGTTCTCT
* *
24266838 TTGCTGCCGGTTCTCC
1 TTGCTGCAGGTTCTCT
*
24266854 TTGCTGCAGGTTTTCT
1 TTGCTGCAGGTTCTCT
*
24266870 TTGCTGTC-GGTTCTCC
1 TTGCTG-CAGGTTCTCT
*
24266886 TTGCTGCAGGTTCTCC
1 TTGCTGCAGGTTCTCT
*
24266902 TTGCTGCAGGTCCTCT
1 TTGCTGCAGGTTCTCT
* *
24266918 TCGCTGCCGGTTCTCT
1 TTGCTGCAGGTTCTCT
* *
24266934 CTGCTGCCGGTTCTCT
1 TTGCTGCAGGTTCTCT
* *
24266950 CCT-CTGCCGGTTCTCT
1 -TTGCTGCAGGTTCTCT
*
24266966 CCTCTCGCTGCAGGTTCTCC
1 --T-T-GCTGCAGGTTCTCT
*
24266986 TTGCTGCAGGTTCTCC
1 TTGCTGCAGGTTCTCT
* *
24267002 TTGCTGCCGGTTCTCC
1 TTGCTGCAGGTTCTCT
*
24267018 TTGCTGCAGGTT-TTT
1 TTGCTGCAGGTTCTCT
*
24267033 GTTGCTGCCGGTTCTC
1 -TTGCTGCAGGTTCTC
24267049 CTTCTCTATT
Statistics
Matches: 233, Mismatches: 33, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
15 2 0.01
16 212 0.91
17 6 0.03
18 2 0.01
20 11 0.05
ACGTcount: A:0.03, C:0.32, G:0.25, T:0.40
Consensus pattern (16 bp):
TTGCTGCAGGTTCTCT
Found at i:24266792 original size:32 final size:32
Alignment explanation
Indices: 24266756--24267051 Score: 391
Period size: 32 Copynumber: 9.1 Consensus size: 32
24266746 GCTGGTCCCC
24266756 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
24266788 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
*
24266820 CCTTGATGCAGGTTCTCTTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
* *
24266852 CCTTGCTGCAGGTTTTCTTTGCTGTCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
* * *
24266884 CCTTGCTGCAGGTTCTCCTTGCTGCAGGTCCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
* *
24266916 -CTTCGCTGCCGGTTCTCTCTGCTGCCGGTTCT
1 CCTT-GCTGCAGGTTCTCTTTGCTGCCGGTTCT
* * *
24266948 CTCCT-CTGCCGGTTCTCTCCTCTCGCTGCAGGTTCT
1 C-CTTGCTGCAGGTTCTCT--T-T-GCTGCCGGTTCT
*
24266984 CCTTGCTGCAGGTTCTCCTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
*
24267016 CCTTGCTGCAGGTT-TTTGTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCT-TTGCTGCCGGTTCT
24267048 CCTT
1 CCTT
24267052 CTCTATTTTT
Statistics
Matches: 232, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
31 4 0.02
32 198 0.85
33 1 0.00
34 3 0.01
35 3 0.01
36 23 0.10
ACGTcount: A:0.03, C:0.32, G:0.24, T:0.40
Consensus pattern (32 bp):
CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCT
Found at i:24266818 original size:48 final size:48
Alignment explanation
Indices: 24266756--24267051 Score: 328
Period size: 48 Copynumber: 6.1 Consensus size: 48
24266746 GCTGGTCCCC
*
24266756 CCTTGCTGCAGGTTCTCTTTGCTGCCGGTTCTCCTTGCTGCAGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCAGGTTCTCCTTGCTGCAGGTTCT
* * * * * *
24266804 CTTTGCTGCCGGTTCTCCTTGATGCAGGTTCTCTTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCAGGTTCTCCTTGCTGCAGGTTCT
*
24266852 CCTTGCTGCAGGTTTTCTTTGCTGTC-GGTTCTCCTTGCTGCAGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTG-CAGGTTCTCCTTGCTGCAGGTTCT
* * * *
24266900 CCTTGCTGCAGGTCCTCTTCGCTGCCGGTTCT-CTCTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCAGGTTCTCCT-TGCTGCAGGTTCT
* *
24266948 CTCCT-CTGCCGGTTCTCTCCTCTCGCTGCAGGTTCTCCTTGCTGCAGGTTCT
1 C-CTTGCTGCAGGTTCTCT--T-T-GCTGCAGGTTCTCCTTGCTGCAGGTTCT
* * * ** *
24267000 CCTTGCTGCCGGTTCTCCTTGCTGCAGGTTTTTGTTGCTGCCGGTTCT
1 CCTTGCTGCAGGTTCTCTTTGCTGCAGGTTCTCCTTGCTGCAGGTTCT
24267048 CCTT
1 CCTT
24267052 CTCTATTTTT
Statistics
Matches: 208, Mismatches: 30, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
47 3 0.01
48 159 0.76
49 4 0.02
50 2 0.01
51 2 0.01
52 36 0.17
53 2 0.01
ACGTcount: A:0.03, C:0.32, G:0.24, T:0.40
Consensus pattern (48 bp):
CCTTGCTGCAGGTTCTCTTTGCTGCAGGTTCTCCTTGCTGCAGGTTCT
Found at i:24267317 original size:19 final size:18
Alignment explanation
Indices: 24267290--24267330 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24267280 TCCTTTTTTT
*
24267290 TTTTTTTTTATTTTTATTA
1 TTTTATTTTATTTTTA-TA
*
24267309 TTTTATTTTTTTTTTATA
1 TTTTATTTTATTTTTATA
24267327 TTTT
1 TTTT
24267331 TCACTCTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTTTATTTTTATA
Found at i:24267317 original size:21 final size:21
Alignment explanation
Indices: 24267287--24267328 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24267277 TCCTCCTTTT
* *
24267287 TTTTTTTTTTTTATTTTTATTA
1 TTTTATTTTTTT-TTTATATTA
24267309 TTTTATTTTTTTTTTATATT
1 TTTTATTTTTTTTTTATATT
24267329 TTTCACTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTATTTTTTTTTTATATTA
Found at i:24267330 original size:8 final size:7
Alignment explanation
Indices: 24267283--24267331 Score: 52
Period size: 6 Copynumber: 7.4 Consensus size: 7
24267273 TCTCTCCTCC
24267283 TTTT-TT
1 TTTTATT
24267289 TTTT-TT
1 TTTTATT
24267295 TTTTA-T
1 TTTTATT
24267301 TTTTATT
1 TTTTATT
24267308 ATTTTATT
1 -TTTTATT
24267316 TTTT-TT
1 TTTTATT
*
24267322 TTATATT
1 TTTTATT
24267329 TTT
1 TTT
24267332 CACTCTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 21 0.57
7 9 0.24
8 7 0.19
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:24271313 original size:2 final size:2
Alignment explanation
Indices: 24271306--24271392 Score: 99
Period size: 2 Copynumber: 45.0 Consensus size: 2
24271296 ACATACATAC
*
24271306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** * * *
24271346 -T GN AT AC AT AC AT AC 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 AT AT AT AT AT AT AT
24271387 AT AT AT
1 AT AT AT
24271393 TTGATTATTG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
1 3 0.04
2 69 0.96
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24271378 original size:55 final size:54
Alignment explanation
Indices: 24271294--24271402 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 54
24271284 TCTCACGTAA
24271294 ATACATACATACATATATATATATATATATATATATATATATA-TTGTATTATTG
1 ATACATACATACATATATATATATATATATATATATATATATATTTG-ATTATTG
24271348 NATACATACATACATATATATATATATATATATATATATATATATTTGATTATTG
1 -ATACATACATACATATATATATATATATATATATATATATATATTTGATTATTG
24271403 CTATCAAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 50 0.94
56 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (54 bp):
ATACATACATACATATATATATATATATATATATATATATATATTTGATTATTG
Found at i:24283194 original size:28 final size:29
Alignment explanation
Indices: 24283142--24283205 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
24283132 GTCTATGGGC
* * *
24283142 AATTTTTCAGTTTTTGGGGTAAAAA-CGT
1 AATTTTTCACTTTATGGGGGAAAAAGCGT
* *
24283170 AATTTTTCACTTTATGGGGGCAAAAGTGT
1 AATTTTTCACTTTATGGGGGAAAAAGCGT
24283199 AATTTTT
1 AATTTTT
24283206 AAAAATTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (29 bp):
AATTTTTCACTTTATGGGGGAAAAAGCGT
Found at i:24283194 original size:29 final size:28
Alignment explanation
Indices: 24283142--24283205 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
24283132 GTCTATGGGC
* * *
24283142 AATTTTTCAGTTTTTGGGGTAAAAACGT
1 AATTTTTCACTTTTGGGGGCAAAAACGT
**
24283170 AATTTTTCACTTTATGGGGGCAAAAGTGT
1 AATTTTTCACTTT-TGGGGGCAAAAACGT
24283199 AATTTTT
1 AATTTTT
24283206 AAAAATTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (28 bp):
AATTTTTCACTTTTGGGGGCAAAAACGT
Found at i:24283718 original size:13 final size:13
Alignment explanation
Indices: 24283700--24283724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24283690 AGAAAATTAG
24283700 ATTTTATAAAATA
1 ATTTTATAAAATA
24283713 ATTTTATAAAAT
1 ATTTTATAAAAT
24283725 TTTTAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:24286711 original size:33 final size:33
Alignment explanation
Indices: 24286669--24286733 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
24286659 AAAAATCTTT
*
24286669 CAATATTGTTGCTAAACATTAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
*
24286702 CAATCTTGTTGCTAAACATGAAGAAAATGGTA
1 CAATATTGTTGCTAAACATGAAGAAAATGGTA
24286734 ATCAACTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (33 bp):
CAATATTGTTGCTAAACATGAAGAAAATGGTAG
Found at i:24287349 original size:22 final size:22
Alignment explanation
Indices: 24287313--24287375 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 22
24287303 ATTACACAAA
24287313 CAAATACATAAAATAAAAATTAAT
1 CAAATA-AT-AAATAAAAATTAAT
24287337 CAAGA-AATAAAT-AAAA-TAAT
1 CAA-ATAATAAATAAAAATTAAT
24287357 CAAATAATATAATAAAAAT
1 CAAATAATA-AATAAAAAT
24287376 AAAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
19 1 0.03
20 11 0.32
21 7 0.21
22 8 0.24
23 2 0.06
24 4 0.12
25 1 0.03
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (22 bp):
CAAATAATAAATAAAAATTAAT
Found at i:24287410 original size:20 final size:21
Alignment explanation
Indices: 24287323--24287422 Score: 77
Period size: 20 Copynumber: 5.0 Consensus size: 21
24287313 CAAATACATA
* *
24287323 AAATAAAAATTAATCAAGAAAT
1 AAAT-AAAATTAATTAAAAAAT
* *
24287345 AAATAAAA-TAATCAAATAAT
1 AAATAAAATTAATTAAAAAAT
*
24287365 ATAAT-AAA--AA-TAAAAATT
1 A-AATAAAATTAATTAAAAAAT
*
24287383 AAACAAAATTAATTAAAAAAT
1 AAATAAAATTAATTAAAAAAT
*
24287404 -AATAAAATTAAATAAAAAA
1 AAATAAAATTAATTAAAAAA
24287423 CCAAGAGGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.03
18 9 0.14
19 2 0.03
20 33 0.52
21 14 0.22
22 4 0.06
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (21 bp):
AAATAAAATTAATTAAAAAAT
Found at i:24287851 original size:174 final size:176
Alignment explanation
Indices: 24287537--24287888 Score: 564
Period size: 175 Copynumber: 2.0 Consensus size: 176
24287527 TGTTAGATCT
**
24287537 AGGGATTGCCAGTGGAGGGAAGAGATATTTAGGGTTTTGGCTGATTGAACTTCAAGCCACCGGTG
1 AGGGATTGCCAGTGGAGGGAAGAGATATTTAGGGTTTTGGCTGACCGAACTTCAAGCCACCGGTG
* * * *
24287602 GCGGGGAAGGTGAGAGAGAAGGAGAAAGCGGCCGACGAAGGAAAAAGTTTAGAGAGAAGTGAGAG
66 GAGGGAAAGGTGAGAGAGAAGGAGAAAGAGGACGACGAAGGAAAAAGTTTAGAGAGAAGTGAGAG
*
24287667 GGTGGCTGCTGCTAGAGAGAG-AAAGGGAAAGAAGAAAATGAAGGG
131 GGTGGCTGCTGCTAGAGAGAGAAAAAGGAAAGAAGAAAATGAAGGG
* * * **
24287712 AGGGATTGCTAGTGGAGGGAAGAGATATTTAGGGTTTTGGGTGACCGAGCTTCAAGCCATTGGTG
1 AGGGATTGCCAGTGGAGGGAAGAGATATTTAGGGTTTTGGCTGACCGAACTTCAAGCCACCGGTG
* *
24287777 GAGGGAAAGGTG-GAGAGAAGGAGAAAGAGGACGACGGAGGGAAAAGTTTAGAGAGAAGTGAGAG
66 GAGGGAAAGGTGAGAGAGAAGGAGAAAGAGGACGACGAAGGAAAAAGTTTAGAGAGAAGTGAGAG
24287841 GGTGGCTGCTGCTAGAGAGAGAAAAAGGAAAGAAGAAAATGAAGGG
131 GGTGGCTGCTGCTAGAGAGAGAAAAAGGAAAGAAGAAAATGAAGGG
24287887 AG
1 AG
24287889 AGGAGCAAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 69 0.43
175 93 0.57
ACGTcount: A:0.35, C:0.08, G:0.41, T:0.16
Consensus pattern (176 bp):
AGGGATTGCCAGTGGAGGGAAGAGATATTTAGGGTTTTGGCTGACCGAACTTCAAGCCACCGGTG
GAGGGAAAGGTGAGAGAGAAGGAGAAAGAGGACGACGAAGGAAAAAGTTTAGAGAGAAGTGAGAG
GGTGGCTGCTGCTAGAGAGAGAAAAAGGAAAGAAGAAAATGAAGGG
Found at i:24288435 original size:28 final size:27
Alignment explanation
Indices: 24288404--24288457 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
24288394 TTTCGGAGCA
*
24288404 TAGGGGTAAAATGGTAATTTTGCCACCG
1 TAGGGGCAAAATGGTAATTTT-CCACCG
*
24288432 TAGGGGCAAAATTGTAATTTTCCACC
1 TAGGGGCAAAATGGTAATTTTCCACC
24288458 ACCAGGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACCG
Found at i:24290643 original size:2 final size:2
Alignment explanation
Indices: 24290636--24290686 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
24290626 NNNNNNNNNN
24290636 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
*
24290678 AT AC AT AT A
1 AT AT AT AT A
24290687 ATTGAATGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24294624 original size:3 final size:3
Alignment explanation
Indices: 24294616--24294660 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
24294606 AGAACTTATG
24294616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24294661 AGAACTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24297765 original size:20 final size:20
Alignment explanation
Indices: 24297708--24297770 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
24297698 TATATACCCA
*
24297708 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
24297727 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
24297747 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
24297767 TCAT
1 TCAT
24297771 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:24297817 original size:43 final size:43
Alignment explanation
Indices: 24297769--24297887 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
24297759 TCACCAGCTC
** * *
24297769 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
24297812 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
24297855 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
24297888 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:24311219 original size:23 final size:23
Alignment explanation
Indices: 24311193--24311243 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
24311183 GTTTAGAGTT
* *
24311193 TGTGAAACGGCATGTTGGGAATG
1 TGTGAAACGACATGGTGGGAATG
* *
24311216 TGTGACATGACATGGTGGGAATG
1 TGTGAAACGACATGGTGGGAATG
24311239 TGTGA
1 TGTGA
24311244 CACAGCAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.39, T:0.27
Consensus pattern (23 bp):
TGTGAAACGACATGGTGGGAATG
Found at i:24311277 original size:47 final size:47
Alignment explanation
Indices: 24311216--24311592 Score: 380
Period size: 47 Copynumber: 8.1 Consensus size: 47
24311206 GTTGGGAATG
* * * * * *
24311216 TGTGACATGACATGGTGGGAATGTGTGACACAGCAGGGTTTAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* ** * *
24311263 TGTGACACACCATGGAAAGAATCTGTGAC-C-GCAGGGTTTAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * *
24311308 TGTGACACGCCATGGAGGAAATCTGTGAGACGGCAGGGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * * ** ** ** * *
24311355 TATGACATGGCATAAAGGGAATCTAAGACACATCAGCGTTCAAACTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * *
24311402 TGTGACACGCCATGGAGGGAATCTGTGACATGGTAGGGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * * *
24311449 TGTGACACCCCATTGAGGGAATCTGTGACACGGCAGCGTTTAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * *
24311496 TGTGACACGCCATGGAGGGAATCTGTGACACGTCAGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
* * * * *
24311543 TGCGACACTCCATGGAGGAAATCTGTGATACGGTAGGGTTCAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
24311590 TGT
1 TGT
24311593 CAGATTGCAT
Statistics
Matches: 265, Mismatches: 63, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
45 38 0.14
46 2 0.01
47 225 0.85
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
TGTGACACGCCATGGAGGGAATCTGTGACACGGCAGGGTTCAAAGTT
Found at i:24311429 original size:23 final size:23
Alignment explanation
Indices: 24311402--24311527 Score: 65
Period size: 23 Copynumber: 5.4 Consensus size: 23
24311392 GTTCAAACTT
24311402 TGTGACACGCCATGGAGGGAATC
1 TGTGACACGCCATGGAGGGAATC
* ** * *** * *
24311425 TGTGACATGGTAGGGTTCAGAGTT
1 TGTGACACGCCATGG-AGGGAATC
* *
24311449 TGTGACACCCCATTGAGGGAATC
1 TGTGACACGCCATGGAGGGAATC
* **** *
24311472 TGTGACACGGCA-GCGTTTAAAGTT
1 TGTGACACGCCATG-GAGGGAA-TC
24311496 TGTGACACGCCATGGAGGGAATC
1 TGTGACACGCCATGGAGGGAATC
24311519 TGTGACACG
1 TGTGACACG
24311528 TCAGCGTTCA
Statistics
Matches: 65, Mismatches: 34, Indels: 8
0.61 0.32 0.07
Matches are distributed among these distances:
23 37 0.57
24 27 0.42
25 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (23 bp):
TGTGACACGCCATGGAGGGAATC
Found at i:24312328 original size:31 final size:31
Alignment explanation
Indices: 24312290--24312644 Score: 489
Period size: 31 Copynumber: 11.5 Consensus size: 31
24312280 TTAGCGTTGT
* *
24312290 CGTGTTACAACATTTGAC-TTGATACGTATGG
1 CGTGTTACAACATTTGACGTT-ATATGCATGG
*
24312321 CGTGTTACAACATTTTACGTTATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* **
24312352 CTTGTTACAACATTATGA-GTTATATGCATAA
1 CGTGTTACAACATT-TGACGTTATATGCATGG
24312383 CGTGTTACAACATTTGACGTTATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* *
24312414 CGTGTTACAATATTTGACGTTATATGTATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
24312445 CGTGTTACAACATTTGACGTTATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* * *
24312476 CGTGTTACAACATTTAAAGTTATAGGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* *
24312507 CGTGTTACAATATTTTACGTTATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* * *
24312538 CATGTTACAACATTTGATGTTACATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* * *
24312569 CATGTTACAACATTTTACATTATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
* *
24312600 CGTGTTACAACATTTTACGTCATATGCATGG
1 CGTGTTACAACATTTGACGTTATATGCATGG
24312631 CGTGTTACAACATT
1 CGTGTTACAACATT
24312645 ATGGGTTAAC
Statistics
Matches: 288, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
30 3 0.01
31 281 0.98
32 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
CGTGTTACAACATTTGACGTTATATGCATGG
Found at i:24312559 original size:15 final size:16
Alignment explanation
Indices: 24312537--24312583 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
24312527 TATATGCATG
24312537 GCATGTTACAACATTT
1 GCATGTTACAACATTT
* *
24312553 G-ATGTTACATGCA-TG
1 GCATGTTACA-ACATTT
24312568 GCATGTTACAACATTT
1 GCATGTTACAACATTT
24312584 TACATTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (16 bp):
GCATGTTACAACATTT
Found at i:24312575 original size:16 final size:16
Alignment explanation
Indices: 24312525--24312577 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
24312515 AATATTTTAC
*
24312525 GTTATATGCATGGCAT
1 GTTACATGCATGGCAT
* *
24312541 GTTACA-ACATTTG-AT
1 GTTACATGCA-TGGCAT
24312556 GTTACATGCATGGCAT
1 GTTACATGCATGGCAT
24312572 GTTACA
1 GTTACA
24312578 ACATTTTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (16 bp):
GTTACATGCATGGCAT
Found at i:24314381 original size:145 final size:145
Alignment explanation
Indices: 24314040--24314370 Score: 403
Period size: 145 Copynumber: 2.3 Consensus size: 145
24314030 TGAAAAGCTA
* * * *
24314040 GTAAGGACGGTTCTAACGATTTGTGTTCAACAATTCCATATGTGATTATTGAATAACATATTTGT
1 GTAAGAACGGTTCTAACGATTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGT
* * * * * * * *
24314105 GTTTGCAGTTGGACCATGCGACGATAGCTTCACAACCACCGATAGGTCTTCTTCAGACTCACAAT
66 GTTTGCAATTGGACCATGCGACGACAGATCCACAACCACCGAGAGGTCCTCCTCAGAATCACAAT
* **
24314170 GCTAACGAGGAGCCG
131 GCTAACAACCAGCCG
* *
24314185 GTAAGAACAGTTATAACGATTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGT
1 GTAAGAACGGTTCTAACGATTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGT
* * *
24314250 GTTTGCAATTGGACCATGCGACGACAGATCCTCAACCACTGAGAGGTCCTCCTCA-AATGCACAG
66 GTTTGCAATTGGACCATGCGACGACAGATCCACAACCACCGAGAGGTCCTCCTCAGAAT-CACAA
* **
24314314 TGCTAACAACCCGTTG
130 TGCTAACAACCAGCCG
* * * *
24314330 GTAAGATCGGTTCTAATGGTTTGTGTTCAACATTTTCATAT
1 GTAAGAACGGTTCTAACGATTTGTGTTCAACAATTTCATAT
24314371 ATTTTTATCG
Statistics
Matches: 156, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
144 2 0.01
145 154 0.99
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (145 bp):
GTAAGAACGGTTCTAACGATTTGTGTTCAACAATTTCATATGTGATTATCGAATAACATATCTGT
GTTTGCAATTGGACCATGCGACGACAGATCCACAACCACCGAGAGGTCCTCCTCAGAATCACAAT
GCTAACAACCAGCCG
Found at i:24316488 original size:19 final size:19
Alignment explanation
Indices: 24316464--24316500 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
24316454 CCATTTGACT
24316464 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24316483 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
24316501 AGTTTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:24319379 original size:117 final size:117
Alignment explanation
Indices: 24319166--24319447 Score: 431
Period size: 117 Copynumber: 2.4 Consensus size: 117
24319156 CTGGAACAAG
*
24319166 TCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCTATGTC
1 TCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCATGTC
24319231 ACCCCACAATACTGCAAGAAGTCAACATGTCACCACCA-AAATCTGCAGGCAC
66 ACCCCACAATACTGCAAGAAGTCAACATGTCACCA-CAGAAATCTGCAGGCAC
* * * * * *
24319283 TCAGCATGTCACGCCAAGTATTTGCTTTCACTCAGCGTGTCACCACAATTGGGGTGTGCCGTGTC
1 TCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCATGTC
* * *
24319348 ACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
66 ACCCCACAATACTGCAAGAAGTCAACATGTCACCACAGAAATCTGCAGGCAC
* * *
24319400 TTAGTGTGTCACGTCAAGTATCTGCTTCCACTCAACGTGTCACCACAA
1 TCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAA
24319448 GATGTCATTG
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
116 2 0.01
117 145 0.99
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (117 bp):
TCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCATGTC
ACCCCACAATACTGCAAGAAGTCAACATGTCACCACAGAAATCTGCAGGCAC
Found at i:24323353 original size:31 final size:31
Alignment explanation
Indices: 24323318--24323395 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
24323308 TTTGTCAGTC
24323318 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
24323349 ATGTTATCACACGTCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
24323380 ATATTGTAACATGCCA
1 ATGTTGTAACACGCCA
24323396 ACGCTGACAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:24323830 original size:9 final size:9
Alignment explanation
Indices: 24323814--24323855 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
24323804 GGTATTCAAC
24323814 AGAGAGTTG
1 AGAGAGTTG
*
24323823 ATAGAGTTG
1 AGAGAGTTG
* *
24323832 AGATAGTTC
1 AGAGAGTTG
24323841 AGAGAGTTG
1 AGAGAGTTG
24323850 AGAGAG
1 AGAGAG
24323856 AAAGATGAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.24
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:24323840 original size:54 final size:54
Alignment explanation
Indices: 24323742--24323846 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
24323732 CCACAGCCCG
* * *
24323742 ATGACGATGGTGCTCAATAGAGAGTTGACAGAGCTCATACAGTTCAAAGAGCTT
1 ATGACGATGGTACTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAGCTT
* * * * * *
24323796 ATGACGATGGTATTCAACAGAGAGTTGATAGAGTTGAGATAGTTCAGAGAG
1 ATGACGATGGTACTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAG
24323847 TTGAGAGAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (54 bp):
ATGACGATGGTACTCAACAGAGAGTTGACAGAGCTCAGACAGTTCAAAGAGCTT
Found at i:24324211 original size:2 final size:2
Alignment explanation
Indices: 24324206--24324289 Score: 84
Period size: 2 Copynumber: 43.5 Consensus size: 2
24324196 GAAAAAAATC
* * *
24324206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AN GT A- AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
24324247 A- AG A- AA AA AT AC 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 AT AT AT AT AT AT AT
24324287 AT A
1 AT A
24324290 ATGTAACATA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
1 3 0.04
2 68 0.96
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (2 bp):
AT
Found at i:24325126 original size:33 final size:33
Alignment explanation
Indices: 24325084--24325151 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
24325074 AGCTTATAAG
24325084 TTGTAAGTTTTTAATGATGAATTATCCTCTTAA
1 TTGTAAGTTTTTAATGATGAATTATCCTCTTAA
24325117 TTGTAAGTTTTTAATGATGAATTATCCTCTTAA
1 TTGTAAGTTTTTAATGATGAATTATCCTCTTAA
24325150 TT
1 TT
24325152 ACCTAATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (33 bp):
TTGTAAGTTTTTAATGATGAATTATCCTCTTAA
Found at i:24337140 original size:20 final size:18
Alignment explanation
Indices: 24337115--24337160 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
24337105 TGTGGTATGT
*
24337115 TGACATGTCATAATAGATAA
1 TGACATGACAT-ATAGAT-A
*
24337135 TGACATGACATATTGATA
1 TGACATGACATATAGATA
24337153 TGACATGA
1 TGACATGA
24337161 TAATTTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 10 0.42
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (18 bp):
TGACATGACATATAGATA
Found at i:24342957 original size:122 final size:122
Alignment explanation
Indices: 24342740--24342985 Score: 447
Period size: 122 Copynumber: 2.0 Consensus size: 122
24342730 GGATTAAAAT
* *
24342740 GTTCTTGAATGTAAGTACTATGATTGTGGATTGAGAAAGTCTCCACTTTTCCTTGATTCATGTGT
1 GTTCTTGAATGTAAGTACTATGACTATGGATTGAGAAAGTCTCCACTTTTCCTTGATTCATGTGT
*
24342805 TTAACATAAATTGGTATGATCTTCTATAAAATTTTGACTATGTTGTGATTGGTTTTA
66 TTAACATAAATTGGTATGATCTTCTATAAAATTTTGACTATGTTGTAATTGGTTTTA
*
24342862 GTTCTTGAATGTAAGTACTATGACTATGGATTGAGAAGGTCTCCACTTTTCCTTGATTCATGTGT
1 GTTCTTGAATGTAAGTACTATGACTATGGATTGAGAAAGTCTCCACTTTTCCTTGATTCATGTGT
*
24342927 TTAACATAAATTGGTATGATCTTCTATAAAATTTTGACTGTGTTGTAATTGGTTTTA
66 TTAACATAAATTGGTATGATCTTCTATAAAATTTTGACTATGTTGTAATTGGTTTTA
24342984 GT
1 GT
24342986 CCTGGTGTGG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (122 bp):
GTTCTTGAATGTAAGTACTATGACTATGGATTGAGAAAGTCTCCACTTTTCCTTGATTCATGTGT
TTAACATAAATTGGTATGATCTTCTATAAAATTTTGACTATGTTGTAATTGGTTTTA
Found at i:24349273 original size:29 final size:29
Alignment explanation
Indices: 24349220--24349275 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
24349210 TTATCATACC
*
24349220 CAATTAAGTTTTTGTTTTTTAATTTTAGT
1 CAATTAAGTTTTTGTTTCTTAATTTTAGT
24349249 CAATTGAA-TTTTTGTTTGCTT-ATTTTA
1 CAATT-AAGTTTTTGTTT-CTTAATTTTA
24349276 TTTAATCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (29 bp):
CAATTAAGTTTTTGTTTCTTAATTTTAGT
Found at i:24349286 original size:29 final size:29
Alignment explanation
Indices: 24349228--24349286 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
24349218 CCCAATTAAG
* *
24349228 TTTTTGTTTTTTAATTTTAGTCAATTGAA
1 TTTTTGTTTCTTAATTTTAGTCAATCGAA
* *
24349257 TTTTTGTTTGCTT-ATTTTATTTAATCGAA
1 TTTTTGTTT-CTTAATTTTAGTCAATCGAA
24349286 T
1 T
24349287 CCTTATCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTTTGTTTCTTAATTTTAGTCAATCGAA
Found at i:24352233 original size:2 final size:2
Alignment explanation
Indices: 24352221--24352278 Score: 80
Period size: 2 Copynumber: 28.5 Consensus size: 2
24352211 TCACAGATGA
* * *
24352221 AT AT TT AT AT AT AT AT AT AC GT 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 AT AT AT AT AT AT AT
24352263 AT AT AT CAT AT AT AT A
1 AT AT AT -AT AT AT AT A
24352279 AAATTGTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24361605 original size:6 final size:6
Alignment explanation
Indices: 24361594--24361619 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24361584 TGATATTCAT
24361594 AGAGGC AGAGGC AGAGGC AGAGGC AG
1 AGAGGC AGAGGC AGAGGC AGAGGC AG
24361620 GAACAGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAGGC
Found at i:24368466 original size:3 final size:3
Alignment explanation
Indices: 24368460--24368505 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
24368450 AAAGTAACAC
*
24368460 ATA ATA A-A GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24368506 TAGAATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24370544 original size:16 final size:16
Alignment explanation
Indices: 24370523--24370553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24370513 AAAAAAAACT
*
24370523 CTCTTTTTCTTTTATA
1 CTCTTTTCCTTTTATA
24370539 CTCTTTTCCTTTTAT
1 CTCTTTTCCTTTTAT
24370554 TTCCCTTACG
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:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (16 bp):
CTCTTTTCCTTTTATA
Found at i:24380536 original size:2 final size:2
Alignment explanation
Indices: 24380529--24380555 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24380519 AAAGTTAAAA
24380529 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
24380556 TGGGAAGCAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24390565 original size:14 final size:14
Alignment explanation
Indices: 24390546--24390600 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
24390536 CTCATCCTTG
24390546 ATTATAAATATTAA
1 ATTATAAATATTAA
24390560 ATTATAAATA--AA
1 ATTATAAATATTAA
*
24390572 A-TATTAATATTTAA
1 ATTATAAATA-TTAA
*
24390586 ATTATTAATTATTAA
1 ATTA-TAAATATTAA
24390601 TATTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
11 7 0.21
12 3 0.09
14 13 0.39
15 6 0.18
16 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAAATATTAA
Found at i:24390575 original size:19 final size:19
Alignment explanation
Indices: 24390551--24390608 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 19
24390541 CCTTGATTAT
24390551 AAATATTAA-ATTATAAATA
1 AAATATTAATATT-TAAATA
24390570 AAATATTAATATTTAAATTA
1 AAATATTAATATTTAAA-TA
*
24390590 TTAATTATTAATATTTAAA
1 --AAATATTAATATTTAAA
24390609 AAATAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.38
20 5 0.15
22 16 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATTAATATTTAAATA
Found at i:24390700 original size:27 final size:29
Alignment explanation
Indices: 24390654--24390728 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 29
24390644 AAATTATAAA
*
24390654 TAAAAATTAAATTATCAATTACTAATATT
1 TAAAAATTAAATTATAAATTACTAATATT
* *
24390683 T-TAAA-TAAATTATAAATTATTAATATT
1 TAAAAATTAAATTATAAATTACTAATATT
*
24390710 TAAAAATTAAATTAAAAAT
1 TAAAAATTAAATTATAAAT
24390729 CAATGGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 21 0.54
28 6 0.15
29 12 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATTAAATTATAAATTACTAATATT
Found at i:24391379 original size:8 final size:8
Alignment explanation
Indices: 24391349--24391378 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24391339 AACGTAGCTC
24391349 TATATACA
1 TATATACA
24391357 TATATACA
1 TATATACA
*
24391365 TATATATA
1 TATATACA
24391373 TATATA
1 TATATA
24391379 TCCAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATACA
Found at i:24402863 original size:26 final size:26
Alignment explanation
Indices: 24402834--24402935 Score: 90
Period size: 26 Copynumber: 4.0 Consensus size: 26
24402824 ATTTTATTTT
24402834 TTAAATATTAATAATTTATAATTTAA
1 TTAAATATTAATAATTTATAATTTAA
*
24402860 TTAAATATTAATAATTAATAA-TT-A
1 TTAAATATTAATAATTTATAATTTAA
*
24402884 --AAATATTAATATTTTAGTATAATTTAA
1 TTAAATATTAATA-ATT--TATAATTTAA
*
24402911 TTATTAATATT--TTATTTATAATTTA
1 TTA--AATATTAATAATTTATAATTTA
24402936 GTATTATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
22 11 0.18
23 2 0.03
24 1 0.02
25 6 0.10
26 31 0.50
27 1 0.02
28 2 0.03
29 2 0.03
31 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TTAAATATTAATAATTTATAATTTAA
Found at i:24402940 original size:25 final size:25
Alignment explanation
Indices: 24402877--24402941 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
24402867 TTAATAATTA
* *
24402877 ATAATTAAAATATTAATATTTTAGT
1 ATAATTTAAGTATTAATATTTTAGT
* *
24402902 ATAATTTAATTATTAATATTTTATTT
1 ATAATTTAAGTATTAATATTTTA-GT
24402928 ATAATTT-AGTATTA
1 ATAATTTAAGTATTA
24402942 TTATGATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 27 0.77
26 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
ATAATTTAAGTATTAATATTTTAGT
Found at i:24403772 original size:16 final size:15
Alignment explanation
Indices: 24403732--24403772 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
24403722 TTGAAATTTT
24403732 GAAAAAGAAAAAAGA
1 GAAAAAGAAAAAAGA
24403747 GAAAAA-AAAATAA-A
1 GAAAAAGAAAA-AAGA
24403761 GAAATAAGAAAA
1 GAAA-AAGAAAA
24403773 GAATTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 10 0.43
16 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAAAAAGA
Found at i:24404629 original size:31 final size:29
Alignment explanation
Indices: 24404589--24404649 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
24404579 ATTAAGTCCT
24404589 TATACTTTTATTTTAAATCAAATAAATCTC
1 TATACTTTTATTTTAAATCAAATAAA-CTC
* *
24404619 TATACATTTTATTTTGAGTCAAATAAACTC
1 TATAC-TTTTATTTTAAATCAAATAAACTC
24404649 T
1 T
24404650 TATTACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (29 bp):
TATACTTTTATTTTAAATCAAATAAACTC
Found at i:24407660 original size:71 final size:71
Alignment explanation
Indices: 24407574--24407714 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 71
24407564 ATAAGCCAGA
*
24407574 TGTTGCATTTCCAAAGGGATGGTTAGCCTGCATTGGTAACAAATATCAATATATCTCAACATGTA
1 TGTTGCATTTCCAAAGGGATGGTTAGCCTGCAATGGTAACAAATATCAATATATCTCAACATGTA
24407639 CGTAGG
66 CGTAGG
* *
24407645 TGTTGCATTTCCAAAGGGATGGTTAGCCTGGAATGGTCACAAATATCAATATATCTCAACATGTA
1 TGTTGCATTTCCAAAGGGATGGTTAGCCTGCAATGGTAACAAATATCAATATATCTCAACATGTA
24407710 CGTAG
66 CGTAG
24407715 AAAGTAATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (71 bp):
TGTTGCATTTCCAAAGGGATGGTTAGCCTGCAATGGTAACAAATATCAATATATCTCAACATGTA
CGTAGG
Found at i:24407868 original size:19 final size:19
Alignment explanation
Indices: 24407831--24407870 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24407821 AATAACATTG
* *
24407831 TTTACGAATAGTTAGATAA
1 TTTACGAATAGTCAAATAA
*
24407850 TTTATGAATAGTCAAATAA
1 TTTACGAATAGTCAAATAA
24407869 TT
1 TT
24407871 AATAACTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTACGAATAGTCAAATAA
Found at i:24416053 original size:40 final size:40
Alignment explanation
Indices: 24416009--24416092 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
24415999 AAACTCAATC
* *
24416009 TATCGATAAAAATGAAACAGAATACTTATTACCTTAAAAG
1 TATCGATAAAAATGAAACAGAATACTTACTACCTCAAAAG
* ** **
24416049 TATCGATACATTTTCAACAGAATACTTACTACCTCAAAAG
1 TATCGATAAAAATGAAACAGAATACTTACTACCTCAAAAG
24416089 TATC
1 TATC
24416093 TATATATTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (40 bp):
TATCGATAAAAATGAAACAGAATACTTACTACCTCAAAAG
Found at i:24421480 original size:22 final size:20
Alignment explanation
Indices: 24421437--24421478 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24421427 AAGCCAATTC
24421437 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
24421457 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
24421477 TT
1 TT
24421479 TTTCTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (20 bp):
TTCATATATTATGAATCATT
Found at i:24429071 original size:28 final size:26
Alignment explanation
Indices: 24429039--24429100 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
24429029 GGTGAAAGTA
24429039 AAGTAAAAGAGGAGTAGGCAGCCAAAAC
1 AAGTAAAAGAGGAGTAGGCAG-C-AAAC
* *
24429067 AAGTAAAAGTGGAGTCGGCAGCAAAC
1 AAGTAAAAGAGGAGTAGGCAGCAAAC
*
24429093 AAGAAAAA
1 AAGTAAAA
24429101 AACCTGCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.35
27 1 0.03
28 19 0.61
ACGTcount: A:0.52, C:0.13, G:0.27, T:0.08
Consensus pattern (26 bp):
AAGTAAAAGAGGAGTAGGCAGCAAAC
Found at i:24429303 original size:14 final size:13
Alignment explanation
Indices: 24429284--24429339 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
24429274 TCCACACCTC
24429284 TTTCTTTCTCTTTT
1 TTTCTTT-TCTTTT
24429298 TTTCTTGTTC--TT
1 TTTCTT-TTCTTTT
*
24429310 TTTCTTTTGTTTT
1 TTTCTTTTCTTTT
*
24429323 TTTATTTTACTTTT
1 TTTCTTTT-CTTTT
24429337 TTT
1 TTT
24429340 TTTCTATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.06
12 8 0.23
13 9 0.26
14 15 0.43
15 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTCTTTTCTTTT
Found at i:24438185 original size:22 final size:20
Alignment explanation
Indices: 24438144--24438185 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
24438134 TTCTCTACAC
*
24438144 CTCTTTCTTTTTTTCTTTTT
1 CTCTTTCTTTTTGTCTTTTT
24438164 CTCTTCTCTTTTGTGTCTTTTT
1 CTCTT-TCTTTT-TGTCTTTTT
24438186 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (20 bp):
CTCTTTCTTTTTGTCTTTTT
Found at i:24457825 original size:20 final size:20
Alignment explanation
Indices: 24457777--24457825 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
24457767 AACATTTATC
* *
24457777 AAAGAGAAGTTAAACACTAAA
1 AAAGA-AAGTTAAAAAATAAA
24457798 AAAGGAAAGTTAAAAAATAAA
1 AAA-GAAAGTTAAAAAATAAA
24457819 AAAGAAA
1 AAAGAAA
24457826 ACCCACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.69, C:0.04, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAGAAAGTTAAAAAATAAA
Found at i:24461273 original size:63 final size:65
Alignment explanation
Indices: 24461194--24461315 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
24461184 GAAAACGACG
24461194 AATCAATTTAGG-TTTTTTTTT-TTCCATTTGCATCCAACGAAAAGACAAGAACAATAGAAAGTA
1 AATCAATTTAGGTTTTTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAGAAAGTA
* * *
24461257 AATCATTTTAGGTTTTTTTTTTGTTCCATTTGTATCCAACGAAAGGACAAGAACAATAG
1 AATCAATTTAGGTTTTTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAG
24461316 GAAGATACAG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 11 0.20
64 9 0.17
65 34 0.63
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (65 bp):
AATCAATTTAGGTTTTTTTTTTGTTCCATTTGCATCCAACGAAAAGACAAGAACAATAGAAAGTA
Found at i:24462612 original size:17 final size:19
Alignment explanation
Indices: 24462592--24462627 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
24462582 ATTTTTTTAA
24462592 TATTTTAT-T-ATTTTGAT
1 TATTTTATATAATTTTGAT
24462609 TATTTTATATAATTTTGAT
1 TATTTTATATAATTTTGAT
24462628 ATTAATCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TATTTTATATAATTTTGAT
Found at i:24468783 original size:19 final size:20
Alignment explanation
Indices: 24468759--24468800 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24468749 AATAATAACC
24468759 AAATTAAAA-AAATAACATA
1 AAATTAAAATAAATAACATA
* *
24468778 AAATTAAAATAACTAACTTA
1 AAATTAAAATAAATAACATA
24468798 AAA
1 AAA
24468801 GTAACCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATTAAAATAAATAACATA
Found at i:24484874 original size:20 final size:20
Alignment explanation
Indices: 24484846--24484883 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24484836 ACAGTGTCAG
24484846 AACTAGTCAATGCACTTCAA
1 AACTAGTCAATGCACTTCAA
* *
24484866 AACTGGTCAGTGCACTTC
1 AACTAGTCAATGCACTTC
24484884 TAGCCACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
AACTAGTCAATGCACTTCAA
Found at i:24490717 original size:32 final size:32
Alignment explanation
Indices: 24490681--24490755 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
24490671 TTTAACATGG
* *
24490681 CGTGTAACAATAGTATTTTTTTTTCAACAAGA
1 CGTGTAACAACAATATTTTTTTTTCAACAAGA
* *
24490713 CGTGTAACAACAATATTTTTTTTTCAATATGA
1 CGTGTAACAACAATATTTTTTTTTCAACAAGA
24490745 CGTGTAACAAC
1 CGTGTAACAAC
24490756 CTAATCATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (32 bp):
CGTGTAACAACAATATTTTTTTTTCAACAAGA
Done.