Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006304.1 Hibiscus syriacus cultivar Beakdansim tig00015068_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 131734
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:3965 original size:19 final size:21
Alignment explanation
Indices: 3921--3968 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
3911 CTTGCCCTTT
3921 CGGCGTTTGTACAAAATTTAG
1 CGGCGTTTGTACAAAATTTAG
3942 C-GCGTTTGTAC-AAA-TTAG
1 CGGCGTTTGTACAAAATTTAG
3960 CGGCGTTTG
1 CGGCGTTTG
3969 ATCTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 10 0.38
21 1 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (21 bp):
CGGCGTTTGTACAAAATTTAG
Found at i:9821 original size:44 final size:44
Alignment explanation
Indices: 9738--9848 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
9728 TTCTGTGTTA
*
9738 TTAGCGGCGTTTGTA-A--AAAAACACTGCAATATACCATACAT
1 TTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATACAT
* * *
9779 TTAGCGGCGTTTGTATACTAGAAACGTTGCAATATACTATACAT
1 TTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATACAT
* *
9823 TAAGCGGCGTTT-TATACTATAAACGC
1 TTAGCGGCGTTTGTATACTAAAAACGC
9849 CGATAATTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 15 0.25
42 1 0.02
43 12 0.20
44 32 0.53
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (44 bp):
TTAGCGGCGTTTGTATACTAAAAACGCTGCAATATACCATACAT
Found at i:10059 original size:42 final size:44
Alignment explanation
Indices: 10013--10120 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 44
10003 GTTTTTAAGT
10013 AAAACGCCGCTAAATC-TCAACACCTACTGC-G-GTATTTTCCT-A
1 AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTA-TTT-CTGA
*
10055 AAAACGCCGCTAAA-CATCAACACCTATTGCGGCGTATTTCTGA
1 AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTATTTCTGA
* *
10098 CAAACGCCGCTAAAT-AACAACAC
1 AAAACGCCGCTAAATCATCAACAC
10121 TTATTGGCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 29 0.50
43 25 0.43
44 3 0.05
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (44 bp):
AAAACGCCGCTAAATCATCAACACCTACTGCGGCGTATTTCTGA
Found at i:10119 original size:43 final size:42
Alignment explanation
Indices: 9927--10126 Score: 149
Period size: 43 Copynumber: 4.7 Consensus size: 42
9917 CGCTTTTGGG
* * **
9927 GAAAACGCCGCTAAA-AACATCACCTATTGCGGCGT-TTGTGG
1 GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATT-TCT
* * * * * **
9968 GAAAATCGTCGCAAAATATCAAAACCTATTG-TGCTGTTTTTAA
1 GAAAA-CGCCGCTAAATATCAACACCTATTGCGGC-GTATTTCT
* *
10011 GTAAAACGCCGCTAAATCTCAACACCTACTGC-G-GTATTTTCCT
1 G-AAAACGCCGCTAAATATCAACACCTATTGCGGCGTA-TTT-CT
* *
10054 AAAAACGCCGCTAAACATCAACACCTATTGCGGCGTATTTCT
1 GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATTTCT
* *
10096 GACAAACGCCGCTAAATAACAACACTTATTG
1 GA-AAACGCCGCTAAATATCAACACCTATTG
10127 GCAAACGCTG
Statistics
Matches: 124, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
41 7 0.06
42 43 0.35
43 65 0.52
44 9 0.07
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GAAAACGCCGCTAAATATCAACACCTATTGCGGCGTATTTCT
Found at i:10739 original size:32 final size:32
Alignment explanation
Indices: 10670--10741 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
10660 TTTTATGTGA
* * *
10670 TAAATGTTTTTAATTATTCGATAATAAATGCT
1 TAAATATTTTTAATTATTCAATAATAAACGCT
*
10702 TAAATATTTTTAATTATTTAATAATAAACG-T
1 TAAATATTTTTAATTATTCAATAATAAACGCT
10733 TCAAATATT
1 T-AAATATT
10742 CTTACAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (32 bp):
TAAATATTTTTAATTATTCAATAATAAACGCT
Found at i:20775 original size:2 final size:2
Alignment explanation
Indices: 20763--20832 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
20753 ATATTTGGTA
*
20763 AT AT GT 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
20805 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
20833 GGATGAGTGA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28654 original size:18 final size:18
Alignment explanation
Indices: 28631--28672 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
28621 TTGGAATATT
*
28631 TATGAAGGAATTAAAATA
1 TATGAAAGAATTAAAATA
* *
28649 TATGAAAGAATTAGAATC
1 TATGAAAGAATTAAAATA
28667 TATGAA
1 TATGAA
28673 TAAATCGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (18 bp):
TATGAAAGAATTAAAATA
Found at i:29466 original size:24 final size:24
Alignment explanation
Indices: 29438--29494 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
29428 TCATGTTATG
29438 GATGAAATTTACTTTCCCTCCCTT
1 GATGAAATTTACTTTCCCTCCCTT
*
29462 GATGAAATTTACTTTCCCTCCTTT
1 GATGAAATTTACTTTCCCTCCCTT
29486 GATGAAATT
1 GATGAAATT
29495 GGATTTCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (24 bp):
GATGAAATTTACTTTCCCTCCCTT
Found at i:30080 original size:15 final size:15
Alignment explanation
Indices: 30039--30080 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
30029 ATTGTTTTAT
*
30039 TGAATCAGTCAGCAC
1 TGAACCAGTCAGCAC
*
30054 TGAATCAGTCAGCAC
1 TGAACCAGTCAGCAC
*
30069 TGAACCATTCAG
1 TGAACCAGTCAG
30081 AGATACGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (15 bp):
TGAACCAGTCAGCAC
Found at i:30080 original size:19 final size:15
Alignment explanation
Indices: 30039--30072 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
30029 ATTGTTTTAT
30039 TGAATCAGTCAGCAC
1 TGAATCAGTCAGCAC
30054 TGAATCAGTCAGCAC
1 TGAATCAGTCAGCAC
30069 TGAA
1 TGAA
30073 CCATTCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (15 bp):
TGAATCAGTCAGCAC
Found at i:30445 original size:29 final size:29
Alignment explanation
Indices: 30407--30463 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
30397 TCTCTTGATC
*
30407 TTTAAATTTGGATGAGTGTAGTAATCTTT
1 TTTAAATTTGGATGAGTGTAATAATCTTT
*
30436 TTTAAGTTTGGATGAGTGTAATAATCTT
1 TTTAAATTTGGATGAGTGTAATAATCTT
30464 CTTCAAGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (29 bp):
TTTAAATTTGGATGAGTGTAATAATCTTT
Found at i:30471 original size:29 final size:29
Alignment explanation
Indices: 30413--30471 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
30403 GATCTTTAAA
* * *
30413 TTTGGATGAGTGTAGTAATCTTTTTTAAG
1 TTTGGATGAGTGTAATAATCTTCTTCAAG
30442 TTTGGATGAGTGTAATAATCTTCTTCAAG
1 TTTGGATGAGTGTAATAATCTTCTTCAAG
30471 T
1 T
30472 GCTTTTGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (29 bp):
TTTGGATGAGTGTAATAATCTTCTTCAAG
Found at i:30917 original size:23 final size:23
Alignment explanation
Indices: 30889--30946 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
30879 AAATTAATAA
30889 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
30912 TATATTATGTAAAATGTTTCGAT
1 TATATTATGTAAAATGTTTCGAT
30935 TATA--ATGTAAAA
1 TATATTATGTAAAA
30947 ATTATAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (23 bp):
TATATTATGTAAAATGTTTCGAT
Found at i:30977 original size:12 final size:12
Alignment explanation
Indices: 30957--30994 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
30947 ATTATAACTA
30957 ATAATATTAAAT
1 ATAATATTAAAT
*
30969 ATTATATTAAAT
1 ATAATATTAAAT
30981 A-AATATTAAAT
1 ATAATATTAAAT
30992 ATA
1 ATA
30995 TTTATGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAATATTAAAT
Found at i:34146 original size:20 final size:19
Alignment explanation
Indices: 34121--34176 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
34111 ATTCTAAATA
34121 AATAATTATATAAATATTTT
1 AATAATTATAT-AATATTTT
* *
34141 AATAATAAAATAATA-TTT
1 AATAATTATATAATATTTT
*
34159 ACATAAATATATTAATAT
1 A-ATAATTATA-TAATAT
34177 AAAAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 14 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATTATATAATATTTT
Found at i:34167 original size:31 final size:31
Alignment explanation
Indices: 34116--34187 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
34106 TAATAATTCT
* *
34116 AAATAAATAATTATATAAATATTTTAATA-ATA
1 AAAT-AATAATTACATAAATATATTAATATA-A
*
34148 AAATAATATTTACATAAATATATTAATATAA
1 AAATAATAATTACATAAATATATTAATATAA
34179 AAATAATAA
1 AAATAATAA
34188 CTATTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATAATAATTACATAAATATATTAATATAA
Found at i:34712 original size:25 final size:24
Alignment explanation
Indices: 34676--34725 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
34666 TGATTGATCC
*
34676 TTTTTTACAAGAGATCTATCCTTT
1 TTTTTTAAAAGAGATCTATCCTTT
* *
34700 TTTTTTATAAAGAGATTTGTCCTTT
1 TTTTTTA-AAAGAGATCTATCCTTT
34725 T
1 T
34726 GAGAAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (24 bp):
TTTTTTAAAAGAGATCTATCCTTT
Found at i:38205 original size:59 final size:60
Alignment explanation
Indices: 38101--38214 Score: 137
Period size: 59 Copynumber: 1.9 Consensus size: 60
38091 TAATTATGTG
*
38101 ATTATTTTATAACTTTTAATAGTCAATATACTCAACTAAACAATAC-TCTATAATCCATGA
1 ATTATTTTATAACTTTTAATAATCAATATACTCAACTAAACAATACAT-TATAATCCATGA
* * *
38161 ATTA-TTTATAATTTTTAATAATCAAT-TGACTTAA-TAAAATAATACATTATAATC
1 ATTATTTTATAACTTTTAATAATCAATAT-ACTCAACT-AAACAATACATTATAATC
38215 AATACACTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
58 2 0.04
59 40 0.85
60 5 0.11
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (60 bp):
ATTATTTTATAACTTTTAATAATCAATATACTCAACTAAACAATACATTATAATCCATGA
Found at i:38542 original size:6 final size:6
Alignment explanation
Indices: 38503--38559 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
38493 TTTAAAGAGG
*
38503 TTTTATA TTTT-A TTTTATA TTTT-A -TTTGA TTTTAA TTTTAA TTTTAA
1 TTTTA-A TTTTAA TTTTA-A TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
*
38550 TATTAA TTTT
1 TTTTAA TTTT
38560 TAAATAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
4 3 0.07
5 7 0.16
6 24 0.56
7 9 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:38546 original size:17 final size:18
Alignment explanation
Indices: 38503--38546 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
38493 TTTAAAGAGG
*
38503 TTTTATATTTTATTTTATA
1 TTTTA-ATTTGATTTTATA
38522 TTTT-ATTTGATTTTA-A
1 TTTTAATTTGATTTTATA
38538 TTTTAATTT
1 TTTTAATTT
38547 TAATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
19 4 0.17
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTAATTTGATTTTATA
Found at i:38558 original size:29 final size:29
Alignment explanation
Indices: 38503--38558 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
38493 TTTAAAGAGG
*
38503 TTTTATATTTTATTTTATATTTTATTTGA
1 TTTTATATTTTATTTTATATTTAATTTGA
38532 TTTTA-ATTTTAATTTTA-ATATTAATTT
1 TTTTATATTTT-ATTTTATAT-TTAATTT
38559 TTAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (29 bp):
TTTTATATTTTATTTTATATTTAATTTGA
Found at i:38578 original size:23 final size:25
Alignment explanation
Indices: 38532--38608 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 25
38522 TTTTATTTGA
* * *
38532 TTTTAATTTTAATTTTAATATTAAT
1 TTTTAAATATAATTATAATATTAAT
38557 TTTTAAATA-AATTA-AATATTAAT
1 TTTTAAATATAATTATAATATTAAT
* *
38580 TTTTTAATATTATTATAGATATTAAT
1 TTTTAAATATAATTATA-ATATTAAT
38606 TTT
1 TTT
38609 AATATTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
23 17 0.39
24 8 0.18
25 8 0.18
26 11 0.25
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTAAATATAATTATAATATTAAT
Found at i:38609 original size:24 final size:24
Alignment explanation
Indices: 38532--38615 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
38522 TTTTATTTGA
* *
38532 TTTTAATTTTAATTTTAATATTAAT
1 TTTTAATATT-ATTATAATATTAAT
*
38557 TTTTAA-ATAAATTA-AATATTAATT
1 TTTTAATAT-TATTATAATATTAA-T
38581 TTTTAATATTATTATAGATATTAA-
1 TTTTAATATTATTATA-ATATTAAT
38605 TTTTAATATTA
1 TTTTAATATTA
38616 ATTTTTAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
23 8 0.16
24 26 0.52
25 9 0.18
26 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TTTTAATATTATTATAATATTAAT
Found at i:38609 original size:61 final size:64
Alignment explanation
Indices: 38539--38673 Score: 249
Period size: 61 Copynumber: 2.2 Consensus size: 64
38529 TGATTTTAAT
38539 TTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATA-T-TATTATAGATA
1 TTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
38601 -TTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
1 TTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
38664 TTTAATTTTA
1 TTTAATTTTA
38674 TCATATAAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
61 49 0.70
62 1 0.01
63 11 0.16
64 9 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (64 bp):
TTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATA
Found at i:38621 original size:37 final size:37
Alignment explanation
Indices: 38571--38652 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
38561 AAATAAATTA
*
38571 AATATTAATTTTTT-AATATTATTATAGATATTAA-TTTT
1 AATATTAATTTTTTAAATA-AATTA-A-ATATTAATTTTT
38609 AATATTAA-TTTTTAAATAAATTAAATATTAATTTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAA-TTTTT
38646 AATATTA
1 AATATTA
38653 TATTATAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 7 0.17
36 1 0.03
37 20 0.50
38 12 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
Found at i:38685 original size:28 final size:26
Alignment explanation
Indices: 38592--38686 Score: 88
Period size: 23 Copynumber: 3.6 Consensus size: 26
38582 TTTAATATTA
* *
38592 TTATAGATATTAATTTTAATATTAATT
1 TTATA-ATATAAATTATAATATTAATT
38619 TT-TAA-ATAAATTA-AATATTAATT
1 TTATAATATAAATTATAATATTAATT
* *
38642 TTTTAATATTATATTATAGATATTTAATT
1 TTATAATA-TAAATTATA-ATA-TTAATT
*
38671 TTATCATATAAATTAT
1 TTATAATATAAATTAT
38687 TTTATATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
23 12 0.21
24 9 0.16
25 2 0.04
26 8 0.14
27 3 0.05
28 10 0.18
29 12 0.21
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (26 bp):
TTATAATATAAATTATAATATTAATT
Found at i:39215 original size:31 final size:31
Alignment explanation
Indices: 39178--39238 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
39168 GTAGTTGTAT
* *
39178 AAATTATTTAAATTTCAGTATTGTAAAACTA
1 AAATTATTTAAATATCAGTATTGCAAAACTA
39209 AAATTATTTAAATATCAGTATTGCAAAACT
1 AAATTATTTAAATATCAGTATTGCAAAACT
39239 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (31 bp):
AAATTATTTAAATATCAGTATTGCAAAACTA
Found at i:40575 original size:21 final size:24
Alignment explanation
Indices: 40540--40583 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
40530 TTATTTTTTT
40540 ATTATTATTATGATATAA-AAATC
1 ATTATTATTATGATATAATAAATC
40563 ATTA-TATT-TGATATAATAAAT
1 ATTATTATTATGATATAATAAAT
40584 AGTTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (24 bp):
ATTATTATTATGATATAATAAATC
Found at i:40593 original size:22 final size:21
Alignment explanation
Indices: 40550--40593 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
40540 ATTATTATTA
*
40550 TGATATAAAAATCATTATATT
1 TGATATAAAAATCATTAAATT
40571 TGATATAATAAAT-AGTTAAATT
1 TGATATAA-AAATCA-TTAAATT
40593 T
1 T
40594 CTGAAATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
TGATATAAAAATCATTAAATT
Found at i:41175 original size:21 final size:20
Alignment explanation
Indices: 41151--41192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
41141 GTTATACAAC
*
41151 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
41172 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
41192 T
1 T
41193 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:50029 original size:15 final size:14
Alignment explanation
Indices: 50004--50033 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
49994 TGTAGCAATT
50004 TGCAATTAATTTAA
1 TGCAATTAATTTAA
50018 TGCAAGTTAATTTAA
1 TGCAA-TTAATTTAA
50033 T
1 T
50034 CCTCTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (14 bp):
TGCAATTAATTTAA
Found at i:50266 original size:13 final size:14
Alignment explanation
Indices: 50237--50267 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
50227 TGAGCAGGGG
50237 TAATTCAAAAACAA
1 TAATTCAAAAACAA
50251 TAATTCAAAAAC-A
1 TAATTCAAAAACAA
50264 TAAT
1 TAAT
50268 ATGCGGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (14 bp):
TAATTCAAAAACAA
Found at i:63149 original size:21 final size:22
Alignment explanation
Indices: 63122--63179 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
63112 AATATATAGA
63122 AAAAAATAAATATAAAAATACT
1 AAAAAATAAATATAAAAATACT
* * *
63144 -AAAAATAAAAATCAAATTACT
1 AAAAAATAAATATAAAAATACT
63165 AAAAAATTAAATATA
1 AAAAAA-TAAATATA
63180 TATATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.62
22 5 0.17
23 6 0.21
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAAATAAATATAAAAATACT
Found at i:63602 original size:28 final size:27
Alignment explanation
Indices: 63566--63620 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
63556 TAAATAATTC
63566 CTTTAACTTA-AAAAAACTCAATTTAAT
1 CTTTAACTTACAAAAAA-TCAATTTAAT
63593 CTTTGAACTTATCAAAAAATCAATTTAA
1 CTTT-AACTTA-CAAAAAATCAATTTAA
63621 CTCATTTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.16
28 6 0.24
29 9 0.36
30 6 0.24
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (27 bp):
CTTTAACTTACAAAAAATCAATTTAAT
Found at i:64110 original size:71 final size:71
Alignment explanation
Indices: 64035--64173 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
64025 CCACTACTTT
* * * *
64035 AATTATTACATTTAATCGATAAATATAATATAATATCAAAATGAGTAAATATAATTATTTAAATT
1 AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAACT
64100 TCTTAG
66 TCTTAG
* * *
64106 AATTATTATATTTAATCGATAAATAGAATATAACATCTAACTGAATAAATATAATTATTTAAACT
1 AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAACT
64171 TCT
66 TCT
64174 CTAGCTTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (71 bp):
AATTATTACATTTAATCGATAAATAGAATATAACATCAAAATGAATAAATATAATTATTTAAACT
TCTTAG
Found at i:65616 original size:15 final size:16
Alignment explanation
Indices: 65596--65631 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
65586 AACGTCTTTT
65596 AAAAAT-AATTTTAAG
1 AAAAATCAATTTTAAG
*
65611 AAAAATCATTTTTAAG
1 AAAAATCAATTTTAAG
65627 AAAAA
1 AAAAA
65632 AGTTGGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAATCAATTTTAAG
Found at i:67968 original size:18 final size:18
Alignment explanation
Indices: 67942--67976 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67932 TCGAAAGGAC
67942 TGAAGTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
*
67960 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
67977 AGGGATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:72957 original size:18 final size:18
Alignment explanation
Indices: 72931--72965 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
72921 TCGAAAGGAC
*
72931 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
72949 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
72966 AGGGATGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:77038 original size:17 final size:17
Alignment explanation
Indices: 77011--77057 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
77001 AAGGAATTAT
* *
77011 ATTAAATTAAATTAAA-
1 ATTAAAATAAAATAAAG
77027 ATATAAAATAAAATAAAGG
1 AT-TAAAATAAAATAAA-G
77046 ATTAAAATAAAA
1 ATTAAAATAAAA
77058 GATATCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 12 0.46
18 10 0.38
19 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
ATTAAAATAAAATAAAG
Found at i:78413 original size:3 final size:3
Alignment explanation
Indices: 78399--78475 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
78389 AATATTGTAA
* *
78399 AAT AAT ATT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
78447 AAT AAT CAT ACT -AT AGT ATAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA
78476 ATATAATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 1 0.02
3 59 0.95
4 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:89853 original size:23 final size:23
Alignment explanation
Indices: 89827--89880 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
89817 TATTTTTGTG
*
89827 ACACATTTATCTTTGCCTTTATA
1 ACACATTTATCTCTGCCTTTATA
* * * * *
89850 ACACGTTTCTCTCTGTCTTTGTG
1 ACACATTTATCTCTGCCTTTATA
89873 ACACATTT
1 ACACATTT
89881 TTCATTCGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.46
Consensus pattern (23 bp):
ACACATTTATCTCTGCCTTTATA
Found at i:91384 original size:133 final size:131
Alignment explanation
Indices: 91148--91415 Score: 500
Period size: 133 Copynumber: 2.0 Consensus size: 131
91138 TAGTTTAGGT
*
91148 GATTTGAACCTTTTCCATACTCTCTTTTTTTTTTTTTGTTAAATTCTGAGCGCGTTTTAATGCAT
1 GATTTGAACCTTTTCCATACTCTCTTTTTTTTTTTTTGTTAAATTCTGAGCGCGTGTTAATGCAT
91213 CTTAATCATCATCTACACGCCTAGAAAGTAAGGCTATTTTTGTGTTGAAAGAAATATGTTTCATT
66 CTTAATCATCATCTACACGCCTAGAAAGTAAGGCTATTTTTGTGTTGAAAGAAATATGTTTCATT
91278 G
131 G
91279 GATTTGAACCTTTTCCATACTTTCTCTTTTTTTTTTTTTGTTAAATTCTGAGCGCGTGTTAATGC
1 GATTTGAACCTTTTCCATAC--TCTCTTTTTTTTTTTTTGTTAAATTCTGAGCGCGTGTTAATGC
91344 ATCTTAATCATCATCTACACGCCTAGAAAGTAAGGCTATTTTTGTGTTGAAAGAAATATGTTTCA
64 ATCTTAATCATCATCTACACGCCTAGAAAGTAAGGCTATTTTTGTGTTGAAAGAAATATGTTTCA
*
91409 TTT
129 TTG
91412 GATT
1 GATT
91416 ATAAGCCTGT
Statistics
Matches: 133, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
131 20 0.15
133 113 0.85
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.45
Consensus pattern (131 bp):
GATTTGAACCTTTTCCATACTCTCTTTTTTTTTTTTTGTTAAATTCTGAGCGCGTGTTAATGCAT
CTTAATCATCATCTACACGCCTAGAAAGTAAGGCTATTTTTGTGTTGAAAGAAATATGTTTCATT
G
Found at i:93374 original size:20 final size:21
Alignment explanation
Indices: 93349--93389 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93339 GTCATGATGG
*
93349 AAGA-GGAATTAGGGTTGAAA
1 AAGAGGGAATTAGGGATGAAA
*
93369 AAGAGGGAATTGGGGATGAAA
1 AAGAGGGAATTAGGGATGAAA
93390 TCGATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (21 bp):
AAGAGGGAATTAGGGATGAAA
Found at i:96487 original size:20 final size:21
Alignment explanation
Indices: 96462--96502 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96452 GTCATGATGG
*
96462 AAGA-GGAATTAGGGTTGAAA
1 AAGAGGGAATTAGGGATGAAA
*
96482 AAGAGGGAATTGGGGATGAAA
1 AAGAGGGAATTAGGGATGAAA
96503 TCGATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (21 bp):
AAGAGGGAATTAGGGATGAAA
Found at i:100561 original size:15 final size:16
Alignment explanation
Indices: 100537--100570 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
100527 ATGTGTGCTA
*
100537 AAATTCATATATT-TT
1 AAATTAATATATTGTT
100552 AAATTAATATATTGTT
1 AAATTAATATATTGTT
100568 AAA
1 AAA
100571 AATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
AAATTAATATATTGTT
Found at i:101635 original size:28 final size:27
Alignment explanation
Indices: 101582--101639 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
101572 TATTATTTCC
101582 ATTTAGTAATGTTATTATCAAAATTAAT
1 ATTTAGTAATGTTATTATCAAAATT-AT
*
101610 ATTTAGTAATGTTATT-TCATATATTAT
1 ATTTAGTAATGTTATTATCA-AAATTAT
101637 ATT
1 ATT
101640 AAGCAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (27 bp):
ATTTAGTAATGTTATTATCAAAATTAT
Found at i:102045 original size:3 final size:3
Alignment explanation
Indices: 102039--102078 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
102029 AATACTACTT
102039 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102079 GCATTGAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:102046 original size:14 final size:14
Alignment explanation
Indices: 102039--102078 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
102029 AATACTACTT
102039 TAATAATAATAATA
1 TAATAATAATAATA
102053 TAATAATAATAATAA
1 TAATAATAATAAT-A
102068 TAATAATAATA
1 TAATAATAATA
102079 GCATTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:102443 original size:35 final size:35
Alignment explanation
Indices: 102402--102494 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
102392 AACACAATCA
*
102402 TCAATTACATTTTAAACCCCAAAATCCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
* * * *
102437 TCAATTATATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
*
102472 TCAATTACATAC-ACAACCCCAAA
1 TCAATTACATTCTA-AACCCCAAA
102495 TTCATAATCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 1 0.02
35 48 0.98
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATCCAAAATACT
Found at i:102939 original size:152 final size:149
Alignment explanation
Indices: 102663--102957 Score: 425
Period size: 152 Copynumber: 2.0 Consensus size: 149
102653 TACTCAATTA
* * * *
102663 AGTTTATAAAATAGTTTACTCGAATTTTTTTTTGATTTGAGATTGTAAAATTTAATTCAAGTCAA
1 AGTTTATAAAATAGTTGACTCGAATATTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTCAA
* * * *
102728 ATTGAATTGAATTTTTGAGCTTTTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTA
66 ATTGAATTGAATTTTCGAGCTTTTATTTAAATTTAATTATAAATATTTATAATACTATAATATTA
102793 CTTGATTCTAATTCAGTTC
131 CTTGATTCTAATTCAGTTC
*
102812 AGTTTATAAAATAGTTGACTCGAA-ATTTTTTT-ATTTGAGTTTATAAAATTTAAATCAAGTCGA
1 AGTTTATAAAATAGTTGACTCGAATATTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTC--
102875 ATTGAATTGAATTGAATTTTCGAG-TTTCTATTTAAATTTAATTATAAATATTTATAATACTATA
64 A---AATTGAATTGAATTTTCGAGCTTT-TATTTAAATTTAATTATAAATATTTATAATACTATA
*
102939 ATATTATTTGATTCTAATT
125 ATATTACTTGATTCTAATT
102958 TAAATAGTTT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
147 26 0.20
148 7 0.05
149 24 0.18
151 3 0.02
152 70 0.54
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (149 bp):
AGTTTATAAAATAGTTGACTCGAATATTTTTTTGATTTGAGATTATAAAATTTAAATCAAGTCAA
ATTGAATTGAATTTTCGAGCTTTTATTTAAATTTAATTATAAATATTTATAATACTATAATATTA
CTTGATTCTAATTCAGTTC
Found at i:103785 original size:35 final size:35
Alignment explanation
Indices: 103720--103804 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
103710 TTGGGCATGC
*
103720 AATTGAAGTATTTTTAGAATTTGAGATTTAGAATAT
1 AATTGAAGTA-TTTTGGAATTTGAGATTTAGAATAT
* * *
103756 AATTGAAGTATTTTGGAATTTGGGGTTTAGAATGT
1 AATTGAAGTATTTTGGAATTTGAGATTTAGAATAT
*
103791 AATTGATG-ATTTTG
1 AATTGAAGTATTTTG
103805 TTGCAAGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 6 0.14
35 28 0.64
36 10 0.23
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (35 bp):
AATTGAAGTATTTTGGAATTTGAGATTTAGAATAT
Found at i:104636 original size:24 final size:22
Alignment explanation
Indices: 104585--104637 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
104575 ATTTAGTCCA
104585 TTATTTATTATTATTTTTAATT
1 TTATTTATTATTATTTTTAATT
*
104607 TAATTTATT-TTATTATTATACATT
1 TTATTTATTATTATT-TT-TA-ATT
104631 TTATTTA
1 TTATTTA
104638 CACTTTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 10 0.38
23 2 0.08
24 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTATTATTATTTTTAATT
Found at i:105561 original size:20 final size:20
Alignment explanation
Indices: 105536--105579 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
105526 GATAAAATTG
105536 TTTAAA-ATTTTTAATACTTT
1 TTTAAATATTTTTAA-ACTTT
*
105556 TTTAAATATTTTTTAACTTT
1 TTTAAATATTTTTAAACTTT
105576 TTTA
1 TTTA
105580 TTTTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAAATATTTTTAAACTTT
Found at i:105643 original size:23 final size:23
Alignment explanation
Indices: 105613--105679 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 23
105603 GTTTGTGATA
105613 TTTTTTTTAATTTTTAATATTATT
1 TTTTTTTTAATTTTTAATATT-TT
105637 TTTTTTTTAATTTTT-ATA-TTT
1 TTTTTTTTAATTTTTAATATTTT
*
105658 TTATTTTTAATATTTTAA-ATTT
1 TTTTTTTTAAT-TTTTAATATTT
105680 AAATAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 12 0.31
22 6 0.15
23 6 0.15
24 15 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTAATTTTTAATATTTT
Found at i:105658 original size:15 final size:15
Alignment explanation
Indices: 105616--105709 Score: 66
Period size: 15 Copynumber: 6.0 Consensus size: 15
105606 TGTGATATTT
105616 TTTTTA-ATTTTTAA
1 TTTTTATATTTTTAA
* *
105630 TATTATTTTTTTTTTAA
1 T-TT-TTATATTTTTAA
105647 TTTTTATATTTTT-A
1 TTTTTATATTTTTAA
*
105661 TTTTTAATATTTTAAA
1 TTTTT-ATATTTTTAA
** *
105677 TTTAAATAATTTAGTAA
1 TTTTTAT-ATTT-TTAA
105694 TTTTTAATATTTTTAA
1 TTTTT-ATATTTTTAA
105710 AATAAAATGA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
14 7 0.12
15 19 0.32
16 15 0.25
17 17 0.28
18 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (15 bp):
TTTTTATATTTTTAA
Found at i:105709 original size:9 final size:8
Alignment explanation
Indices: 105617--105706 Score: 57
Period size: 7 Copynumber: 11.5 Consensus size: 8
105607 GTGATATTTT
105617 TTTTAAT-
1 TTTTAATA
105624 TTTTAATA
1 TTTTAATA
** *
105632 TTATTTTTT
1 TT-TTAATA
105641 TTTTAAT-
1 TTTTAATA
105648 TTTT-ATA
1 TTTTAATA
*
105655 TTTTTAT-
1 TTTTAATA
105662 TTTTAATA
1 TTTTAATA
105670 TTTTAA-A
1 TTTTAATA
*
105677 TTTAAATAA
1 TTTTAAT-A
105686 TTTAGTAAT-
1 TTT--TAATA
105695 TTTTAATA
1 TTTTAATA
105703 TTTT
1 TTTT
105707 TAAAATAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
6 2 0.03
7 31 0.48
8 17 0.26
9 12 0.18
11 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (8 bp):
TTTTAATA
Found at i:110479 original size:310 final size:311
Alignment explanation
Indices: 109917--110538 Score: 1212
Period size: 310 Copynumber: 2.0 Consensus size: 311
109907 GGTGGTACTA
*
109917 CCTACCTTGATGTGTCTAATAGTTGTGGTTTTCATAATACCGGCAACTTCAATTTGGGGTTTGAT
1 CCTACCTTGATATGTCTAATAGTTGTGGTTTTCATAATACCGGCAACTTCAATTTGGGGTTTGAT
109982 TTTATAGAAGAGCTGGTAAGAGCCGCGGATTGTTTCGACACCCACGAATTGCAACTGGCGCAGTG
66 TTTATAGAAGAGCTGGTAAGAGCCGCGGATTGTTTCGACACCCACGAATTGCAACTGGCGCAGTG
110047 ATATTGGCGCGGCTCAGTCAGCGGCTACGATCTCAGTCCGGGAAGCCGTTACAGAGAGCCGCTTT
131 ATATTGGCGCGGCTCAGTCAGCGGCTACGATCTCAGTCCGGGAAGCCGTTACAGAGAGCCGCTTT
110112 TTTACTTCAAGGAAGCTCTCCAGTGTCTGCTCTCCGGGTCAACTCGGTCGACTCGTTTGTCTTCG
196 TTTACTTCAAGGAAGCTCTCCAGTGTCTGCTCTCCGGGTCAACTCGGTCGACTCGTTTGTCTTCG
110177 TGGAATGAAATCGTTCAAAACCATCGAAGCCTAC-AGGCCTTCTCTGGGAT
261 TGGAATGAAATCGTTCAAAACCATCGAAGCCTACAAGGCCTTCTCTGGGAT
110227 CCTACCTTGATATGTCTAATAGTTGTGGTTTTCATAATACCGGCAACTTCAATTTGGGGTTTGAT
1 CCTACCTTGATATGTCTAATAGTTGTGGTTTTCATAATACCGGCAACTTCAATTTGGGGTTTGAT
110292 TTTATAGAAGAGCTGGTAAGAGCCGCGGATTGTTTCGACACCCACGAATTGCAACTGGCGCAGGT
66 TTTATAGAAGAGCTGGTAAGAGCCGCGGATTGTTTCGACACCCACGAATTGCAACTGGCGCA-GT
110357 GATATTGGCGCGGCTCAGTCAGCGGCTACGATCTCAGTCCGGGAAGCCGTTACAGAGAGCCGC-T
130 GATATTGGCGCGGCTCAGTCAGCGGCTACGATCTCAGTCCGGGAAGCCGTTACAGAGAGCCGCTT
110421 TTTTACTTCAAGGAAGCTCTCCAGTGTCTGCTCTCCGGGTCAACTCGGTCGACTCGTTTGTCTTC
195 TTTTACTTCAAGGAAGCTCTCCAGTGTCTGCTCTCCGGGTCAACTCGGTCGACTCGTTTGTCTTC
110486 GTGGAATGAAATCGTTCAAAACCATCGAAGCCTACAAGGCCTTCTCTGGGAT
260 GTGGAATGAAATCGTTCAAAACCATCGAAGCCTACAAGGCCTTCTCTGGGAT
110538 C
1 C
110539 AACCCTATTC
Statistics
Matches: 309, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
310 227 0.73
311 82 0.27
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (311 bp):
CCTACCTTGATATGTCTAATAGTTGTGGTTTTCATAATACCGGCAACTTCAATTTGGGGTTTGAT
TTTATAGAAGAGCTGGTAAGAGCCGCGGATTGTTTCGACACCCACGAATTGCAACTGGCGCAGTG
ATATTGGCGCGGCTCAGTCAGCGGCTACGATCTCAGTCCGGGAAGCCGTTACAGAGAGCCGCTTT
TTTACTTCAAGGAAGCTCTCCAGTGTCTGCTCTCCGGGTCAACTCGGTCGACTCGTTTGTCTTCG
TGGAATGAAATCGTTCAAAACCATCGAAGCCTACAAGGCCTTCTCTGGGAT
Found at i:118195 original size:13 final size:14
Alignment explanation
Indices: 118167--118195 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118157 AATATAATAT
118167 ATAATTTTCAGAAA
1 ATAATTTTCAGAAA
118181 ATAATTTTC-GAAA
1 ATAATTTTCAGAAA
118194 AT
1 AT
118196 TTATATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
ATAATTTTCAGAAA
Found at i:118240 original size:38 final size:40
Alignment explanation
Indices: 118157--118241 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
118147 TTTTTGACAA
*
118157 AATATAATATATAATTTTCAGAAAATAATTTTCGAAAATT
1 AATATATTATATAATTTTCAGAAAATAATTTTCGAAAATT
* * *
118197 TATATATTATATAATTTT-TGAAAAT-ATTTT-TAAAATAT
1 AATATATTATATAATTTTCAGAAAATAATTTTCGAAAAT-T
118235 AATATAT
1 AATATAT
118242 AGTTTTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 5 0.13
38 12 0.31
39 6 0.15
40 16 0.41
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (40 bp):
AATATATTATATAATTTTCAGAAAATAATTTTCGAAAATT
Found at i:118260 original size:60 final size:62
Alignment explanation
Indices: 118194--118316 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 62
118184 ATTTTCGAAA
* *
118194 ATTTATATATTATATAATTTTTGAAAATATTTTTAAAA-TATA-A-TATATAGTTTTGAAAAC
1 ATTTATATATTATATAATTTTT-AAAACATTTTGAAAACTATATAGTATATAGTTTTGAAAAC
* * *
118254 ATTTATATATTGTATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAGTTTTTAAAAC
1 ATTTATATATTATATAATTTTTAAAACATTTTGAAAAC-TATATAGTATATAGTTTTGAAAAC
118317 TTTTTTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 13 0.24
60 20 0.37
61 4 0.07
62 1 0.02
63 16 0.30
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (62 bp):
ATTTATATATTATATAATTTTTAAAACATTTTGAAAACTATATAGTATATAGTTTTGAAAAC
Found at i:118286 original size:38 final size:37
Alignment explanation
Indices: 118244--118557 Score: 343
Period size: 37 Copynumber: 8.8 Consensus size: 37
118234 TAATATATAG
* *
118244 TTTTGAAAACATTTATATATTGTATAGTTTTTAAAACA-
1 TTTTGAAAA-A-TTATATAATATATAGTTTTTAAAACAT
* * *
118282 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACTT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACAT
* *
118319 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACAT
* **
118356 TTTTGAAAAAATATATAATATATAGTTTAAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACA-T
118394 TTTTGAAAAATTATATAATATATAG-TTTTAAAACCAT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAA-CAT
*
118431 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACA-T
**
118469 TTTTG-AAACCT-TAT-ATA-ATA-TTTTTAAAACA-
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACAT
* *
118500 TTTTG-AAAACTATATAATATATAGTTTTGAAAAC-T
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACAT
118535 TTTT---AAA--ATATAATATATAGTTT
1 TTTTGAAAAATTATATAATATATAGTTT
118558 AAAATATATA
Statistics
Matches: 245, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
31 26 0.11
32 3 0.01
33 16 0.07
34 6 0.02
35 16 0.07
36 26 0.11
37 103 0.42
38 49 0.20
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAAATTATATAATATATAGTTTTTAAAACAT
Found at i:118426 original size:75 final size:74
Alignment explanation
Indices: 118244--118591 Score: 366
Period size: 75 Copynumber: 4.8 Consensus size: 74
118234 TAATATATAG
* * * ** *
118244 TTTTGAAAACATTTATATATTGTATAGTTTTTAAAACA-TTTTGAAAACTTATATAGTATATAGT
1 TTTTGAAAA-A-TTATATAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGT
*
118308 TTTTAAAACTT
64 TTTAAAAACTT
*
118319 TTTTGAAAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAAAATATATAATATATAGTTT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTT
*
118384 AAAAAACATT
66 TAAAAAC-TT
* *
118394 TTTTGAAAAATTATATAATATATAGTTTTAAAACCATTTTTGAAAAATTATATAATATATAGTTT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTT
118459 TAAAAACATT
66 TAAAAAC-TT
** *
118469 TTTTGAAACCTTATAT-A-ATAT--TTTT-AAAACA-TTTTG-AAAACTATATAATATATAGTTT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTT
*
118527 TGAAAAC-T
66 TAAAAACTT
* * * *
118535 TTTT---AAA--ATATAATATATAGTTTAAAATATATATTTTTG-AAATATATATATTATATA
1 TTTTGAAAAATTATATAATATATAGTTTTAAA-A-ACATTTTTGAAAAAATATATAATATATA
118592 AATTATATTT
Statistics
Matches: 238, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
61 4 0.02
62 1 0.00
63 5 0.02
65 3 0.01
66 7 0.03
67 1 0.00
68 29 0.12
69 25 0.11
70 5 0.02
71 4 0.02
73 26 0.11
74 32 0.13
75 96 0.40
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (74 bp):
TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTT
TAAAAACTT
Found at i:118545 original size:24 final size:24
Alignment explanation
Indices: 118500--118546 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
118490 TTTTAAAACA
*
118500 TTTTGAAAACTATATAATATATAG
1 TTTTGAAAACTATATAAAATATAG
* *
118524 TTTTGAAAACTTTTTAAAATATA
1 TTTTGAAAACTATATAAAATATA
118547 ATATATAGTT
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:0.04, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACTATATAAAATATAG
Found at i:118579 original size:15 final size:15
Alignment explanation
Indices: 118546--118583 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
118536 TTTAAAATAT
118546 AATATATA-GTTTAA
1 AATATATATGTTTAA
* *
118560 AATATATATTTTTGA
1 AATATATATGTTTAA
118575 AATATATAT
1 AATATATAT
118584 ATTATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (15 bp):
AATATATATGTTTAA
Found at i:118594 original size:17 final size:16
Alignment explanation
Indices: 118547--118599 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
118537 TTAAAATATA
118547 ATATATAGTTTA-AAAT
1 ATATATA-TTTATAAAT
118563 ATATAT-TTT-TGAAAT
1 ATATATATTTAT-AAAT
118578 ATATATATTATATAAAT
1 ATATATATT-TATAAAT
118595 -TATAT
1 ATATAT
118600 TTAGTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 13 0.41
17 5 0.16
18 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
ATATATATTTATAAAT
Found at i:118599 original size:33 final size:34
Alignment explanation
Indices: 118534--118599 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
118524 TTTTGAAAAC
*
118534 TTTTTAAAATATAATATATAGTTTAAAATATATA
1 TTTTTAAAATATAATATATAGTATAAAATATATA
* *
118568 TTTTTGAAATAT-ATATATTA-TATAAATTATAT
1 TTTTTAAAATATAATATA-TAGTATAAAATATAT
118600 TTAGTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (34 bp):
TTTTTAAAATATAATATATAGTATAAAATATATA
Found at i:119780 original size:15 final size:17
Alignment explanation
Indices: 119752--119785 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
119742 TTAGTCCTCT
119752 TTATGTTTTATTTTATA
1 TTATGTTTTATTTTATA
119769 TTAT-TTTT-TTTTATA
1 TTATGTTTTATTTTATA
119784 TT
1 TT
119786 TTTACTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 4 0.24
17 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTATGTTTTATTTTATA
Found at i:119919 original size:8 final size:9
Alignment explanation
Indices: 119902--119945 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
119892 GCCATTTATT
119902 TTATAT-TA
1 TTATATATA
119910 TTAT-TATA
1 TTATATATA
119918 TTA-ATATA
1 TTATATATA
119926 -TATATATA
1 TTATATATA
119934 TATATATATA
1 T-TATATATA
119944 TT
1 TT
119946 CTTTTTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
7 3 0.10
8 18 0.58
9 1 0.03
10 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATATATA
Found at i:123553 original size:95 final size:95
Alignment explanation
Indices: 123444--123632 Score: 274
Period size: 95 Copynumber: 2.0 Consensus size: 95
123434 TAATATTATG
** * *
123444 TATACAATAAAGCTTGATTTGTCCCTCTAGAT-CAATTGGTTAAACGCCCCGGCTTTATGGCTAA
1 TATACAATAAAGCTTGAGCTGTCCCTCTA-ATGCAATTGGTTAAACGCCCCAGCTTTATGGATAA
* *
123508 TA-TCTAGCTAGCCTGATAAAGGTGATTATAA
65 GATTC-AGCTAACCTGATAAAGGTGATTATAA
*
123539 TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCTCAGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCCCAGCTTTATGGATAAG
*
123604 ATTCAGCTAACCTGATAAAGGTGTTTATA
66 ATTCAGCTAACCTGATAAAGGTGATTATA
123633 TATTAAGTTG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 2 0.02
95 80 0.95
96 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCCCAGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAA
Found at i:124931 original size:84 final size:83
Alignment explanation
Indices: 124798--125366 Score: 527
Period size: 84 Copynumber: 6.8 Consensus size: 83
124788 CTATTTGTAA
* * * * * * *
124798 CATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTTTGAGTTCGATTACGCTCAGCTC
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTC
124863 AATGGCACATCATTTGCAG
66 AA-GGCACATCATTTGCAG
* * * * * * *
124882 TATAGCTTAAGTCGAGAAGGGCTATATGCCAACCAAAGACCCTCGAGTTCGATTACACTAAGCAT
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGC-T
* * * *
124947 CGAGGGAATATTATTTGCAG
65 C-AAGGCACATCATTTGCAG
* * * * * * *
124967 TATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCT-
* *
125032 CAAGGCATATCATTTGCAA
65 CAAGGCACATCATTTGCAG
* * * ** *
125051 TATAGCTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACGCTCAGCTC
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCT-
* * *
125116 CAAGTCACATCATTCGTAG
65 CAAGGCACATCATTTGCAG
* * * * *
125135 CATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTTGAGTTCGACTATGCTCAGCTT
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGC-T
* *
125196 CAAGGGCACATCATTTACAA
65 CAA-GGCACATCATTTGCAG
* * * * ** *
125216 CATAACTCAAGGCTAGAACCGGTTATCTATC-ACCAAAAGACCTTCGAGTTTGATTACGCTCAGC
1 CATAGCTCAAGTCGAGAA-GGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGATTACGCTCAGC
125280 TCCAAGGCACATCATTTGCAG
64 T-CAAGGCACATCATTTGCAG
* * * *
125301 CATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTCTAGTTCGATTACACTCAGCTC
1 CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTC
125366 A
66 A
125367 TAGACAAACC
Statistics
Matches: 396, Mismatches: 77, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
80 30 0.08
81 26 0.07
82 7 0.02
83 2 0.01
84 201 0.51
85 101 0.26
86 29 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
CATAGCTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAGCTC
AAGGCACATCATTTGCAG
Found at i:125083 original size:169 final size:169
Alignment explanation
Indices: 124798--125365 Score: 603
Period size: 169 Copynumber: 3.4 Consensus size: 169
124788 CTATTTGTAA
* * * *
124798 CATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTTTGAGTTCGATTACGCTCAGCT-
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
* * * * * * *
124862 CAATGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCCAACCAAAGACCCTCG
66 CAAGGGCACATCATTTGCAATATAGCTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCG
* * * * * * *
124927 AGTTCGATTACACTAAGCATCGAGGGAATATTATTTGCAG
131 AGTTCGATTACGCTCAGC-TCCAAGGCACATCATTTGCAG
* * * *
124967 TATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
* * **
125032 CAA-GGCATATCATTTGCAATATAGCTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTAT
66 CAAGGGCACATCATTTGCAATATAGCTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCG
* * * *
125096 AGTTCGACTACGCTCAGCTCCAAGTCACATCATTCGTAG
131 AGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAG
* * * *
125135 CATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTTGAGTTCGACTATGCTCAGCTT
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
* * * * * **
125196 CAAGGGCACATCATTTACAACATAACTCAAGGCTAGAACCGGTTATCTATC-ACCAAAAGACCTT
66 CAAGGGCACATCATTTGCAATATAGCTCAAGTCTAGAA-GGGTTATCTGCCAACC-AAAGACCTT
*
125260 CGAGTTTGATTACGCTCAGCTCCAAGGCACATCATTTGCAG
129 CGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAG
* * * ** * *
125301 CATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTCT-AGTTCGATTACACTCAGCT
1 CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTT-TGAGTTCGACTACGCTCAGCT
125365 C
65 C
125366 ATAGACAAAC
Statistics
Matches: 332, Mismatches: 58, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
164 32 0.10
165 32 0.10
166 79 0.24
167 2 0.01
168 35 0.11
169 124 0.37
170 27 0.08
171 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (169 bp):
CATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC
CAAGGGCACATCATTTGCAATATAGCTCAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCG
AGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAG
Found at i:125279 original size:166 final size:164
Alignment explanation
Indices: 125001--125332 Score: 475
Period size: 166 Copynumber: 2.0 Consensus size: 164
124991 TCTGCCAACA
* * * * *
125001 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAATATAGCTCAAGTCTA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCTA
* * * *
125066 GAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACGCTCAGCTCCAAGTCACATCATTC
66 GAACGGTTATCTACCAACAAAAGACCTTAGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTC
*
125131 GTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
131 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* *
125165 AAAGACCTTTGAGTTCGACTATGCTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTACAACATAACTCAAGGCT
* * * * *
125230 AGAACCGGTTATCTATCACCAAAAGACCTTCGAGTTTGATTACGCTCAGCTCCAAGGCACATCAT
65 AGAA-CGGTTATCTACCAACAAAAGACCTTAGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* *
125295 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
129 TCGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
125331 AA
1 AA
125333 CCGAAGACCT
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 32 0.22
165 29 0.20
166 86 0.59
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (164 bp):
AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCTA
GAACGGTTATCTACCAACAAAAGACCTTAGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTC
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
Found at i:125329 original size:250 final size:250
Alignment explanation
Indices: 124790--125365 Score: 699
Period size: 250 Copynumber: 2.3 Consensus size: 250
124780 AATTTTTTCT
* * * * *
124790 ATTTGTAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATACCTTTGAGTTCGATTACG
1 ATTTGCAACATAGCTCAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTT-AGTTCGATTACG
* *
124855 CTCAGCT-CAATGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCCAACCAAA
65 CTCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATG---ACCAAA
* * * * * **
124919 GACCCTCGAGTTCGATTACACTAAGCATCGAGGGAATATTATTTGCAGTATAACTCAAGGCTAGA
127 GACCCTCGAGTTCGACTACACTAAGCATCAAGGGAACATCATTTACAACATAACTCAAGGCTAGA
* * * *
124984 AGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATC
192 ACGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
125043 ATTTGCAATATAGCTCAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACG
1 ATTTGCAACATAGCTCAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTT-TAGTTCGATTACG
* * *
125108 CTCAGCTCCAA-GTCACATCATTCGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
65 CTCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGACCAAAGAC
* * ** * * *
125171 CTTTGAGTTCGACTATGCTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAACC
130 CCTCGAGTTCGACTACACTAAGCATCAAGGGAACATCATTTACAACATAACTCAAGGCTAGAA-C
* * * *
125236 GGTTATCTATCACCAAAAGACCTTCGAGTTTGATTACGCTCAGCTCCAAGGCACATC
194 GGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * ** *
125293 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTCTAGTTCGATTACA
1 ATTTGCAACATAGCTCAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTT-TAGTTCGATTACG
125358 CTCAGCTC
65 CTCAGCTC
125366 ATAGACAAAC
Statistics
Matches: 276, Mismatches: 44, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
249 57 0.21
250 114 0.41
253 101 0.37
254 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (250 bp):
ATTTGCAACATAGCTCAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTTAGTTCGATTACGC
TCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGACCAAAGACC
CTCGAGTTCGACTACACTAAGCATCAAGGGAACATCATTTACAACATAACTCAAGGCTAGAACGG
TTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:126119 original size:38 final size:38
Alignment explanation
Indices: 126008--126120 Score: 88
Period size: 38 Copynumber: 3.0 Consensus size: 38
125998 GTATATGGTA
* * * * *
126008 ATATAGTTTGTGAAAATGTTTTTGACA-A-AATATAAT
1 ATATAGTTTTTGAAAATATTTTTAAAATATAATATATT
* * * * *
126044 ATATAATTTTCAGAAAACGATTTTCGAAAAT-TTATATATT
1 ATATAGTTTT-TGAAAA-TATTTT-TAAAATATAATATATT
126084 ATATAGTTTTTGAAAATATTTTTAAAATATAATATAT
1 ATATAGTTTTTGAAAATATTTTTAAAATATAATATAT
126121 AGTTTTGAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
36 8 0.14
37 10 0.18
38 16 0.29
39 7 0.12
40 15 0.27
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
ATATAGTTTTTGAAAATATTTTTAAAATATAATATATT
Found at i:126211 original size:37 final size:37
Alignment explanation
Indices: 126123--126451 Score: 366
Period size: 37 Copynumber: 9.2 Consensus size: 37
126113 TAATATATAG
* * *
126123 TTTTGAAAACATT-TATATTTTATAGTTTTTAAAACA-
1 TTTTGAAAA-ATTATATAATATATAGTTTTAAAAACAT
* *
126159 TTTTGAAAACA-TATATAGTATATAGTTTTTAAAACAT
1 TTTTGAAAA-ATTATATAATATATAGTTTTAAAAACAT
*
126196 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
*
126233 TTTTGAAAAATTATATAATATATAGTTTAAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACA-T
* *
126271 TTTTGAAATATTATGTAATATATAGTTTTAAAAACAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
* *
126308 TTTTGAAAAAATATATAATATATAGTTTTAAAAATATT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACA-T
*
126346 TTTTGAAAACTTATAT-A-ATAT--TTTT-AAAACA-
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
* *
126377 TTTTG-AAAACTATATAATATATAGTTTTGAAAAC-T
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
* *
126412 TTTT---AAA--ATATAATATATAGTTTAAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
126444 TTTTGAAA
1 TTTTGAAA
126452 TATATAAATT
Statistics
Matches: 256, Mismatches: 22, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.03
31 26 0.10
32 9 0.04
33 8 0.03
34 8 0.03
35 11 0.04
36 37 0.14
37 100 0.39
38 49 0.19
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
Found at i:126310 original size:75 final size:70
Alignment explanation
Indices: 126143--126465 Score: 358
Period size: 75 Copynumber: 4.6 Consensus size: 70
126133 ATTTATATTT
* * *
126143 TATAGTTTTTAAAACA-TTTTGAAAACATATATAGTATATAGTTTTTAAAACATTTTTGAAAAAT
1 TATAGTTTTAAAAACATTTTTGAAAA-ATATATAATATATAGTTTTAAAAACATTTTTG-AAAA-
126207 TATATAATA
63 T-TATAATA
* *
126216 TATAGTTTTAAAAATATTTTTGAAAAATTATATAATATATAGTTTAAAAAACATTTTTTGAAATA
1 TATAGTTTTAAAAACATTTTTGAAAAA-TATATAATATATAGTTTTAAAAACA-TTTTTGAAA-A
126281 TTATGTAATA
63 TTA--TAATA
*
126291 TATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTTTAAAAATATTTTTTGAAAAC
1 TATAGTTTTAAAAACATTTTTG-AAAAATATATAATATATAGTTTTAAAAACA-TTTTTGAAAA-
126356 TTAT-ATA
63 TTATAATA
* * *
126363 -ATA-TTTTTAAAACA-TTTTGAAAACTATATAATATATAGTTTTGAAAAC-TTTTT-AAAA-TA
1 TATAGTTTTAAAAACATTTTTGAAAAATATATAATATATAGTTTTAAAAACATTTTTGAAAATTA
126422 TAATA
66 TAATA
* * *
126427 TATAGTTTAAAAAATATTTTTGAAATATATA-AATTATAT
1 TATAGTTTTAAAAACATTTTTGAAAAATATATAA-TATAT
126466 TTAGTATATT
Statistics
Matches: 220, Mismatches: 17, Indels: 32
0.82 0.06 0.12
Matches are distributed among these distances:
63 3 0.01
64 3 0.01
65 7 0.03
66 15 0.07
67 17 0.08
68 26 0.12
69 5 0.02
70 10 0.05
71 3 0.01
72 3 0.01
73 18 0.08
74 36 0.16
75 69 0.31
76 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (70 bp):
TATAGTTTTAAAAACATTTTTGAAAAATATATAATATATAGTTTTAAAAACATTTTTGAAAATTA
TAATA
Found at i:126422 original size:24 final size:24
Alignment explanation
Indices: 126377--126423 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
126367 TTTTAAAACA
*
126377 TTTTGAAAACTATATAATATATAG
1 TTTTGAAAACTATATAAAATATAG
* *
126401 TTTTGAAAACTTTTTAAAATATA
1 TTTTGAAAACTATATAAAATATA
126424 ATATATAGTT
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:0.04, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACTATATAAAATATAG
Found at i:126489 original size:5 final size:5
Alignment explanation
Indices: 126475--126532 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
126465 TTTAGTATAT
* * *
126475 TTTTA TTTTTA TTTTA TTTTA TTCATGTA ATTTA TGTTA ATTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TT--T-TA TTTTA TTTTA TTTTA TTTTA
126524 TTTTA TTTT
1 TTTTA TTTT
126533 TCTTTTCAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 33 0.77
6 6 0.14
7 1 0.02
8 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:126741 original size:16 final size:15
Alignment explanation
Indices: 126720--126749 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
126710 TCGACCGTTT
126720 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
126736 ATCCCGGGATGACC
1 ATCCCGGGATGACC
126750 GGCCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:127713 original size:2 final size:2
Alignment explanation
Indices: 127690--127730 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
127680 TCATTTATTT
127690 TA TA T- TA T- TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127728 TA T
1 TA T
127731 TTCTTTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.11
2 31 0.89
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Done.