Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_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: 1388410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:636646 original size:42 final size:44
Alignment explanation
Indices: 636557--636674 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 44
636547 CACATAGAAC
* * * *
636557 GTCCCGAAGGACAATATATATGTCCCGAATGACCACAAAGAATT
1 GTCCCGAAGGACCATATATATGTTCCAAAGGACCACAAAGAATT
*
636601 GTCCCGAAGGACCATATATATGTTCCAAAGGA-C-CAAA-TATAT
1 GTCCCGAAGGACCATATATATGTTCCAAAGGACCACAAAGAAT-T
* * *
636643 GTCCCAAAGGACCACATATATATTCCAAAGGA
1 GTCCCGAAGGACCATATATATGTTCCAAAGGA
636675 TCATATCTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
41 2 0.03
42 34 0.52
43 1 0.02
44 28 0.43
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (44 bp):
GTCCCGAAGGACCATATATATGTTCCAAAGGACCACAAAGAATT
Found at i:636670 original size:21 final size:21
Alignment explanation
Indices: 636602--636696 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
636592 CAAAGAATTG
* *
636602 TCCCGAAGGACCATATATATG
1 TCCCAAAGGACCATATATATA
* * *
636623 TTCCAAAGGACCAAATATATG
1 TCCCAAAGGACCATATATATA
*
636644 TCCCAAAGGACCACATATATA
1 TCCCAAAGGACCATATATATA
* * *
636665 TTCCAAAGGATCATATCTATA
1 TCCCAAAGGACCATATATATA
636686 TCCCAAAGGAC
1 TCCCAAAGGAC
636697 TGCGTAGAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (21 bp):
TCCCAAAGGACCATATATATA
Found at i:636690 original size:42 final size:42
Alignment explanation
Indices: 636602--636696 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
636592 CAAAGAATTG
* * * *
636602 TCCCGAAGGACCATATATATGTTCCAAAGGACCAAATATATG
1 TCCCAAAGGACCACATATATATTCCAAAGGACCAAATATATA
* * *
636644 TCCCAAAGGACCACATATATATTCCAAAGGATCATATCTATA
1 TCCCAAAGGACCACATATATATTCCAAAGGACCAAATATATA
636686 TCCCAAAGGAC
1 TCCCAAAGGAC
636697 TGCGTAGAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (42 bp):
TCCCAAAGGACCACATATATATTCCAAAGGACCAAATATATA
Found at i:644497 original size:20 final size:20
Alignment explanation
Indices: 644472--644527 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
644462 TACTATTCAT
644472 TACTGTTCACACAGTATTGA
1 TACTGTTCACACAGTATTGA
* *
644492 TACTGTTCACATAGTATTGG
1 TACTGTTCACACAGTATTGA
* *
644512 TACTATTCATACAGTA
1 TACTGTTCACACAGTA
644528 CAGTACCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
TACTGTTCACACAGTATTGA
Found at i:644802 original size:18 final size:19
Alignment explanation
Indices: 644755--644811 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
644745 ATGTTTAATG
*
644755 AAAAAGATATTAATTGTTA
1 AAAAAGATATCAATTGTTA
644774 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
*
644794 AAAAAGATACCAATTGTT
1 AAAAAGATATCAATTGTT
644812 GGAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 5 0.15
21 12 0.35
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:649795 original size:18 final size:18
Alignment explanation
Indices: 649763--649808 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
649753 ATGCGAATTG
649763 GAAATGTGCAACTG-ATAT
1 GAAATGTG-AACTGAATAT
649781 GAAATGTGAATCTGAAATAT
1 GAAATGTGAA-CTG-AATAT
649801 G-AATGTGA
1 GAAATGTGA
649809 TGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 7 0.28
20 5 0.20
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (18 bp):
GAAATGTGAACTGAATAT
Found at i:651308 original size:20 final size:20
Alignment explanation
Indices: 651266--651351 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 20
651256 ATTTTTATGA
* *
651266 AAAAAAGATCGATTCCTTATG
1 AAAAAAGATCAATCCCTT-TG
*
651287 AAAAAATATCAATCCCTTTG
1 AAAAAAGATCAATCCCTTTG
* *
651307 AAAAAGGCTCAATCCCTTTTG
1 AAAAAAGATCAATCCC-TTTG
** *
651328 AAAAGGGAGCAATCCC-TTG
1 AAAAAAGATCAATCCCTTTG
651347 AAAAA
1 AAAAA
651352 GGGATATATC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 7 0.13
20 15 0.28
21 32 0.59
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAAAAGATCAATCCCTTTG
Found at i:651330 original size:41 final size:41
Alignment explanation
Indices: 651280--651370 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
651270 AAGATCGATT
* * * *
651280 CCTTATGAAAAAATATCAATCCCTTTGAAAAA-GGCTCA-ATC
1 CCTTTTGAAAAAAGAGCAATCCC-TTGAAAAAGGGAT-ATATC
**
651321 CCTTTTGAAAAGGGAGCAATCCCTTGAAAAAGGGATATATC
1 CCTTTTGAAAAAAGAGCAATCCCTTGAAAAAGGGATATATC
651362 CCTTTTGAA
1 CCTTTTGAA
651371 TGTTTAGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 9 0.21
41 33 0.79
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (41 bp):
CCTTTTGAAAAAAGAGCAATCCCTTGAAAAAGGGATATATC
Found at i:651352 original size:20 final size:21
Alignment explanation
Indices: 651296--651355 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
651286 GAAAAAATAT
**
651296 CAATCCCTTTGAAAAA-GGCT
1 CAATCCCTTTGAAAAAGGGAG
651316 CAATCCCTTTTG-AAAAGGGAG
1 CAATCCC-TTTGAAAAAGGGAG
651337 CAATCCC-TTGAAAAAGGGA
1 CAATCCCTTTGAAAAAGGGA
651356 TATATCCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.09
20 19 0.54
21 13 0.37
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
CAATCCCTTTGAAAAAGGGAG
Found at i:653108 original size:22 final size:22
Alignment explanation
Indices: 653080--653150 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
653070 ATTGCTATGA
*
653080 CACTTTTGTATCAGTGCGAATG
1 CACTTTTGTATCAGTGCGAAGG
*
653102 CACTTTTTTATCAGTGCTG-AGG
1 CACTTTTGTATCAGTGC-GAAGG
* * *
653124 CACTTTAGTATTAGTGCTAAGG
1 CACTTTTGTATCAGTGCGAAGG
653146 CACTT
1 CACTT
653151 CCGTGATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (22 bp):
CACTTTTGTATCAGTGCGAAGG
Found at i:654468 original size:3 final size:3
Alignment explanation
Indices: 654455--654497 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
654445 TCTACAAAAA
654455 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
654498 AATTACATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:660226 original size:2 final size:2
Alignment explanation
Indices: 660221--660273 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
660211 TATATATATA
660221 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
660263 TG TG TG TG TG T
1 TG TG TG TG TG T
660274 ATACAATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:661709 original size:37 final size:38
Alignment explanation
Indices: 661653--661852 Score: 143
Period size: 36 Copynumber: 5.4 Consensus size: 38
661643 TTTGATTTTC
**
661653 TTTCTCTCGAAACAAAGTGTTA-TCTCGCTAGAGACAAT
1 TTTCTCTAAAAACAAAGTG-TAGTCTCGCTAGAGACAAT
* *
661691 TTT-TCTGAAAAAC-AAGTGTAGTCTCGCTTGAGACAGT
1 TTTCTCT-AAAAACAAAGTGTAGTCTCGCTAGAGACAAT
* * * * *
661728 TTTCTCT-AAAATAAACT-TTGTCTCGCTTGAGACAGT
1 TTTCTCTAAAAACAAAGTGTAGTCTCGCTAGAGACAAT
* * *
661764 TTTCTCT-AAAACAAACT-TTGTCTCGC-ATGAGACAAC
1 TTTCTCTAAAAACAAAGTGTAGTCTCGCTA-GAGACAAT
* * *
661800 TTTCTCTAAAAAAACAAAGTGTCGTCTTGCTTGAGACAA-
1 TTTCTCT--AAAAACAAAGTGTAGTCTCGCTAGAGACAAT
661839 -TT-TCTAAAAACAAA
1 TTTCTCTAAAAACAAA
661853 AGTTTTTCTC
Statistics
Matches: 137, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
35 9 0.07
36 62 0.45
37 31 0.23
38 12 0.09
39 9 0.07
40 14 0.10
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (38 bp):
TTTCTCTAAAAACAAAGTGTAGTCTCGCTAGAGACAAT
Found at i:661751 original size:36 final size:35
Alignment explanation
Indices: 661675--661814 Score: 165
Period size: 36 Copynumber: 3.9 Consensus size: 35
661665 CAAAGTGTTA
* * * *
661675 TCTCGCTAGAGACAATTTT-TCTGAAAAACAAGTGTAG
1 TCTCGCTTGAGACAGTTTTCTCT-AAAAA-AACT-TTG
661712 TCTCGCTTGAGACAGTTTTCTCTAAAATAAACTTTG
1 TCTCGCTTGAGACAGTTTTCTCTAAAA-AAACTTTG
661748 TCTCGCTTGAGACAGTTTTCTCTAAAACAAACTTTG
1 TCTCGCTTGAGACAGTTTTCTCTAAAA-AAACTTTG
* **
661784 TCTCGCATGAGACAACTTTCTCTAAAAAAAC
1 TCTCGCTTGAGACAGTTTTCTCTAAAAAAAC
661815 AAAGTGTCGT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
35 4 0.04
36 61 0.66
37 24 0.26
38 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (35 bp):
TCTCGCTTGAGACAGTTTTCTCTAAAAAAACTTTG
Found at i:661879 original size:36 final size:37
Alignment explanation
Indices: 661711--661879 Score: 157
Period size: 36 Copynumber: 4.6 Consensus size: 37
661701 AACAAGTGTA
* *
661711 GTCTCGCTTGAGACAGTTTTCTCTAAAA-TAAACTTT
1 GTCTCGCTTGAGACAGTTTTCTCAAAAACAAAACTTT
*
661747 GTCTCGCTTGAGACAGTTTTCTCTAAAAC-AAACTTT
1 GTCTCGCTTGAGACAGTTTTCTCAAAAACAAAACTTT
* ** * * *
661783 GTCTCGCATGAGACAACTTTCTCTAAAAAAACAAAGTGTC
1 GTCTCGCTTGAGACAGTTTTCTC-AAAAACA-AAACT-TT
* * *
661823 GTCTTGCTTGAGACA-ATTTCT-AAAAACAAAAGTTT
1 GTCTCGCTTGAGACAGTTTTCTCAAAAACAAAACTTT
* *
661858 TTCTCTCTTGAGACAGTTTTCT
1 GTCTCGCTTGAGACAGTTTTCT
661880 TGAGAAATCT
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
35 13 0.12
36 65 0.59
37 10 0.09
39 9 0.08
40 14 0.13
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (37 bp):
GTCTCGCTTGAGACAGTTTTCTCAAAAACAAAACTTT
Found at i:662405 original size:38 final size:37
Alignment explanation
Indices: 662358--662429 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
662348 TTTCTTGTGA
*
662358 AAAACCTTTGCGTCTGTTTCCCTTGAAACAAAACAAAC
1 AAAACCTTTGAGTCTGTTTCCCTTGAAA-AAAACAAAC
* * *
662396 AAAATCTTTGAGTCTGTTTCTCTTGGAAAAAACA
1 AAAACCTTTGAGTCTGTTTCCCTTGAAAAAAACA
662430 TCTTTGAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 6 0.20
38 24 0.80
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (37 bp):
AAAACCTTTGAGTCTGTTTCCCTTGAAAAAAACAAAC
Found at i:662904 original size:131 final size:132
Alignment explanation
Indices: 662559--663070 Score: 550
Period size: 134 Copynumber: 3.9 Consensus size: 132
662549 AACCAAAATC
** ** *
662559 CCTAAAGATGGTTTATCGTCCTCATCGTGTAGGAACAGTGTTATCC-CCGACCAGACCTCCTCAT
1 CCTAAAGATGGCCTATCGTCCTCATCACGTAGGAACTGTGTTATCCACCGACCAGACCTCCTCAT
* *
662623 CACGTAGGAGCCATGTCACCCCTAGATAACTA-ACTGTCCTCATCGCGTAGGAATCGTGTTATCA
66 CACGTAGGAGTCATGTCACCCCTAGATAACCAGAC-GTCCTCATCGCGTAGGAATCGTGTTATCA
662687 CCCTT
130 --CTT
* * * *
662692 CCTAAAGATGGCATGTCGTCCTCATCACGTAGGAACCGTGTTATTCACCGACCAGACCTCCTCAT
1 CCTAAAGATGGCCTATCGTCCTCATCACGTAGGAACTGTGTTATCCACCGACCAGACCTCCTCAT
* * *
662757 CACGTAGGAG-CTGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAATCGTGTTATCA
66 CACGTAGGAGTC-ATGTCACCCCTAGATAACCAGACGTCCTCATCGCGTAGGAATCGTGTTATCA
662821 -TT
130 CTT
* * * * *
662823 CCTAAAGATGGCCTACCGTCCTCATCACATAGGAACTGTGTCATCCACCGACCAGACATACTCAT
1 CCTAAAGATGGCCTATCGTCCTCATCACGTAGGAACTGTGTTATCCACCGACCAGACCTCCTCAT
* * * * **
662888 CACGTAGGAGTCGTGTCACCCTTAGATAACCAGCCGTCCTCATCGCATAGGAATAATGTTATCAC
66 CACGTAGGAGTCATGTCACCCCTAGATAACCAGACGTCCTCATCGCGTAGGAATCGTGTTATCA-
662953 CCTT
130 -CTT
* * * ** * * * * * *
662957 CCTAAAGACGGCCATAAC-TCTTCATCGTGTATGAGCTGTGTTATCTACTGACCAAATCTCCTCA
1 CCTAAAGATGGCC-TATCGTCCTCATCACGTAGGAACTGTGTTATCCACCGACCAGACCTCCTCA
* * * *
663021 TCACGTAGGAGTCATGTCACCCTTAGATGACCATATC-TCTTCATCGCGTA
65 TCACGTAGGAGTCATGTCACCCCTAGATAACCAGA-CGTCCTCATCGCGTA
663071 TGAGCAGTGT
Statistics
Matches: 323, Mismatches: 47, Indels: 17
0.83 0.12 0.04
Matches are distributed among these distances:
131 114 0.35
132 1 0.00
133 40 0.12
134 163 0.50
135 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (132 bp):
CCTAAAGATGGCCTATCGTCCTCATCACGTAGGAACTGTGTTATCCACCGACCAGACCTCCTCAT
CACGTAGGAGTCATGTCACCCCTAGATAACCAGACGTCCTCATCGCGTAGGAATCGTGTTATCAC
TT
Found at i:662931 original size:43 final size:44
Alignment explanation
Indices: 662742--662931 Score: 117
Period size: 43 Copynumber: 4.4 Consensus size: 44
662732 TTATTCACCG
*
662742 ACCAGACC-TCCTCATCACGTAGGAG-CTGTGTCACCCCTAGATA
1 ACCAG-CCGTCCTCATCACGTAGGAGTCTGTGTCACCCTTAGATA
* * * * * *
662785 ACCAGTCGTCCTCATCACGTAGGAATCGTGTTATCATTCCTAAAGATG
1 ACCAGCCGTCCTCATCACGTAGGAGTC-TG-TGTCA-CCCT-TAGATA
* * * * ***
662833 GCCTA-CCGTCCTCATCACATAGGA-ACTGTGTCATCC--A-CCG
1 ACC-AGCCGTCCTCATCACGTAGGAGTCTGTGTCACCCTTAGATA
* * *
662873 ACCAGACATACTCATCACGTAGGAGTC-GTGTCACCCTTAGATA
1 ACCAGCCGTCCTCATCACGTAGGAGTCTGTGTCACCCTTAGATA
662916 ACCAGCCGTCCTCATC
1 ACCAGCCGTCCTCATC
662932 GCATAGGAAT
Statistics
Matches: 108, Mismatches: 27, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
39 1 0.01
40 26 0.24
41 2 0.02
42 2 0.02
43 34 0.31
44 4 0.04
45 6 0.06
46 6 0.06
47 3 0.03
48 23 0.21
49 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (44 bp):
ACCAGCCGTCCTCATCACGTAGGAGTCTGTGTCACCCTTAGATA
Found at i:663258 original size:3 final size:3
Alignment explanation
Indices: 663250--663331 Score: 148
Period size: 3 Copynumber: 27.7 Consensus size: 3
663240 ATTATCTTAC
*
663250 TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
663298 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
663332 AATTACATTT
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 74 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:668553 original size:16 final size:16
Alignment explanation
Indices: 668532--668565 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
668522 GACGACCACG
668532 GATCATCATCAGTAGT
1 GATCATCATCAGTAGT
668548 GATCATCATCAGTAGT
1 GATCATCATCAGTAGT
668564 GA
1 GA
668566 GAAGTGACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (16 bp):
GATCATCATCAGTAGT
Found at i:679568 original size:6 final size:6
Alignment explanation
Indices: 679547--679581 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
679537 CAACATACAA
679547 TAAA-T TAAATTT TAAATT TAAATT TAAATT TAAAT
1 TAAATT TAAA-TT TAAATT TAAATT TAAATT TAAAT
679582 CAAATCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.14
6 19 0.68
7 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:681924 original size:15 final size:15
Alignment explanation
Indices: 681879--681930 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
681869 TGAGATTAAA
681879 AAAAATCTAAGAAAT
1 AAAAATCTAAGAAAT
* *
681894 TAAAATGGATAA-AAAT
1 AAAAAT--CTAAGAAAT
681910 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAA-T
681926 AAAAA
1 AAAAA
681931 ATTTAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 15 0.52
17 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (15 bp):
AAAAATCTAAGAAAT
Found at i:681928 original size:16 final size:15
Alignment explanation
Indices: 681879--681956 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 15
681869 TGAGATTAAA
681879 AAAAATCTAAGAAATT
1 AAAAATCTAA-AAATT
*
681895 -AAAATGGATAAAAA-T
1 AAAAAT--CTAAAAATT
681910 AAAAATCTAAGAAATT
1 AAAAATCTAA-AAATT
*
681926 AAAAAATTTAAAAATT
1 -AAAAATCTAAAAATT
*
681942 AAGAAA-CTTAAAATT
1 AA-AAATCTAAAAATT
681957 TATAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
14 3 0.06
15 18 0.36
16 17 0.34
17 12 0.24
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAATCTAAAAATT
Found at i:681938 original size:31 final size:31
Alignment explanation
Indices: 681879--681940 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
681869 TGAGATTAAA
**
681879 AAAAATCTAAGAAATTAAAATGGATAAAAAT
1 AAAAATCTAAGAAATTAAAAAAGATAAAAAT
**
681910 AAAAATCTAAGAAATTAAAAAATTTAAAAAT
1 AAAAATCTAAGAAATTAAAAAAGATAAAAAT
681941 TAAGAAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.24
Consensus pattern (31 bp):
AAAAATCTAAGAAATTAAAAAAGATAAAAAT
Found at i:681939 original size:58 final size:56
Alignment explanation
Indices: 681821--681964 Score: 132
Period size: 58 Copynumber: 2.5 Consensus size: 56
681811 TCAACATATG
** * ** *
681821 AAAAAATTAAGAAATTAAAATGGATAAAAATAAATTTTGCTATAACTATGAGATTAA
1 AAAAAATTAAGAAATTAAAATGGATAAAAATAAATAATGCTAAAACTAAAAAATT-A
*
681878 AAAAAATCTAAGAAATTAAAATGGATAAAAATAAA-AAT-CTAAGAAATTAAAAAATT-
1 AAAAAAT-TAAGAAATTAAAATGGATAAAAATAAATAATGCT-A-AAACTAAAAAATTA
* **
681934 TAAAAATTAAGAAACTTAAAATTTATAAAAA
1 AAAAAATTAAGAAA-TTAAAATGGATAAAAA
681965 AATATTAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
55 7 0.10
56 22 0.30
57 9 0.12
58 35 0.48
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (56 bp):
AAAAAATTAAGAAATTAAAATGGATAAAAATAAATAATGCTAAAACTAAAAAATTA
Found at i:681962 original size:25 final size:26
Alignment explanation
Indices: 681908--681964 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
681898 ATGGATAAAA
681908 ATAAAAATCTAAGAAATTAAAAAATT
1 ATAAAAATCTAAGAAATTAAAAAATT
*
681934 -TAAAAAT-TAAGAAACTT-AAAATTT
1 ATAAAAATCTAAGAAA-TTAAAAAATT
681958 ATAAAAA
1 ATAAAAA
681965 AATATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
ATAAAAATCTAAGAAATTAAAAAATT
Found at i:683946 original size:10 final size:10
Alignment explanation
Indices: 683931--683986 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
683921 CAATTTTTTA
683931 AAAAATCAAT
1 AAAAATCAAT
683941 AAAAATACAAT
1 AAAAAT-CAAT
683952 AAAAAT-AATT
1 AAAAATCAA-T
* *
683962 AAAAGTGAAT
1 AAAAATCAAT
*
683972 AAAATTCAAT
1 AAAAATCAAT
683982 AAAAA
1 AAAAA
683987 GAATGTAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 25 0.64
11 12 0.31
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:684502 original size:338 final size:324
Alignment explanation
Indices: 684060--684724 Score: 942
Period size: 326 Copynumber: 2.0 Consensus size: 324
684050 ATATAAAATC
*
684060 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCGACTGTTGTTAAAATAATAATTAAT
1 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTTAAAATAATAATTAAT
* * * *
684125 GAATAATAATTCATTTAATCCCTTAATTGTAGTTAAAAGTTTATTTTAATATTTTTTATATTTTT
66 GAATAATAATTCATTTAATCCCTCAATTATAATTAAAAG------TT--TA-TTTTGATATTTTT
* * *
684190 AAACAATTAATTTTAAAAGTTAATAAA-TTTTTCAAAATATATTAAATTTATAATTTTTTAAATT
122 AAACAATTAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATAATTTTTTAAATT
* *
684254 ATAAAATATTTATCATCATCTTTATCAGTATCATTTTGTAATA-ATATACTACTTATAAAACTTT
187 ATAAAATATTTATCATCATC---ATC---ATCATTTTGTAAAAGAAATACTACTTATAAAACTTT
* * *
684318 TAT-AAATTATTCATATTTTAAAATATTTACCCTCAAAGTTTTCATATACTA-ATTAAACGTATT
246 TATAAAATTATTAATATTTTAAAATACTTACCCTCAAAATTTT-ATATACTAGATTAAACGTATT
684381 GTGTAATTTCATGCA
310 GTGTAATTTCATGCA
684396 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTTAAAAAATAATAATTA
1 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTT--AAAATAATAATTA
*
684461 ATGAATAATAATTCATTTGATCCCTCAATTATAATTAAAAGTTTATTTTGATATTTTTAAACAAT
64 ATGAATAATAATTCATTTAATCCCTCAATTATAATTAAAAGTTTATTTTGATATTTTTAAACAAT
*
684526 TAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATACTTTTTTAAATTATAAAAT
129 TAATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATAATTTTTTAAATTATAAAAT
* * *
684591 GTTTATCATCATCATCATCATTTTGTAAAAGAAATATTAGTTATAAAACTTTTATAAAATTATTA
194 ATTTATCATCATCATCATCATTTTGTAAAAGAAATACTACTTATAAAACTTTTATAAAATTATTA
* * * *
684656 ATATTTTAAAATACTTACCTTTAAAATTTTTTATACTAGATTATACGTATTGTGTAATTTCATGC
259 ATATTTTAAAATACTTACCCTCAAAATTTTATATACTAGATTAAACGTATTGTGTAATTTCATGC
684721 A
324 A
684722 AAA
1 AAA
684725 TTAAAATTTG
Statistics
Matches: 301, Mismatches: 22, Indels: 22
0.87 0.06 0.06
Matches are distributed among these distances:
324 13 0.04
325 28 0.09
326 63 0.21
327 3 0.01
329 38 0.13
330 55 0.18
332 2 0.01
336 49 0.16
338 50 0.17
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (324 bp):
AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTTAAAATAATAATTAAT
GAATAATAATTCATTTAATCCCTCAATTATAATTAAAAGTTTATTTTGATATTTTTAAACAATTA
ATTTTAAAAGTCAATAAATTTTTTAAAAATATATAAAATTTATAATTTTTTAAATTATAAAATAT
TTATCATCATCATCATCATTTTGTAAAAGAAATACTACTTATAAAACTTTTATAAAATTATTAAT
ATTTTAAAATACTTACCCTCAAAATTTTATATACTAGATTAAACGTATTGTGTAATTTCATGCA
Found at i:685897 original size:25 final size:26
Alignment explanation
Indices: 685841--685897 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
685831 TAATTTTTAT
* *
685841 TTTAAAAAAACCTAAATTTTTTTAAA
1 TTTAAAAAAACCTAAATCTTTTAAAA
685867 TCTTAAAAAAATCC-AAA-CTTTTAAAA
1 T-TTAAAAAAA-CCTAAATCTTTTAAAA
685893 TTTAA
1 TTTAA
685898 TTTTAATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.15
26 9 0.33
27 12 0.44
28 2 0.07
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTAAAAAAACCTAAATCTTTTAAAA
Found at i:686601 original size:22 final size:21
Alignment explanation
Indices: 686552--686601 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
686542 ATATGTGTTT
686552 ATTTTTT-TATTATATTTTTA
1 ATTTTTTATATTATATTTTTA
* *
686572 AGTGTTTATCATTATATTTTTA
1 ATTTTTTAT-ATTATATTTTTA
686594 ATTTTTTA
1 ATTTTTTA
686602 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.21
21 1 0.04
22 18 0.75
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (21 bp):
ATTTTTTATATTATATTTTTA
Found at i:686642 original size:23 final size:23
Alignment explanation
Indices: 686591--686642 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
686581 CATTATATTT
* * *
686591 TTAATTTTTTAATAATAAAAATA
1 TTAATTTTTAAAAAATAAAAAGA
*
686614 TT-ATTTTTAAAAAATAAAAAGC
1 TTAATTTTTAAAAAATAAAAAGA
686636 TTAATTT
1 TTAATTT
686643 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAATTTTTAAAAAATAAAAAGA
Found at i:699430 original size:20 final size:20
Alignment explanation
Indices: 699405--699456 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
699395 AAGGTGTTAC
*
699405 AATATCGGTATTGTTCAT-AT
1 AATATCGGTACTG-TCATAAT
*
699425 AATATCGATACTGTCATAAT
1 AATATCGGTACTGTCATAAT
*
699445 ATTATCGGTACT
1 AATATCGGTACT
699457 TTATATGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
AATATCGGTACTGTCATAAT
Found at i:699611 original size:15 final size:14
Alignment explanation
Indices: 699561--699616 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
699551 AAAATATTAT
*
699561 AAAACATGGTTCAAA
1 AAAACATAGTT-AAA
*
699576 TAATACA-AGTTAAA
1 -AAAACATAGTTAAA
699590 AAAACATAGTTAAA
1 AAAACATAGTTAAA
699604 AAAGACATAGTTA
1 AAA-ACATAGTTA
699617 CAATACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 5 0.14
14 13 0.37
15 12 0.34
16 5 0.14
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (14 bp):
AAAACATAGTTAAA
Found at i:699615 original size:29 final size:29
Alignment explanation
Indices: 699561--699616 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
699551 AAAATATTAT
* * *
699561 AAAACATGGTTCAAATAATACAAGTTAAA
1 AAAACATAGTTCAAAAAAGACAAGTTAAA
699590 AAAACATAGTT-AAAAAAGACATAGTTA
1 AAAACATAGTTCAAAAAAGACA-AGTTA
699617 CAATACAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (29 bp):
AAAACATAGTTCAAAAAAGACAAGTTAAA
Found at i:703004 original size:20 final size:20
Alignment explanation
Indices: 702975--703026 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
702965 TAATTCAATC
* *
702975 GGTATTGATACCGAAGGGGTA
1 GGTATCGATACCGAA-GGGAA
*
702996 -GTATCGATACTGAAGGGAA
1 GGTATCGATACCGAAGGGAA
703015 GGTATCGATACC
1 GGTATCGATACC
703027 ATTTCAAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (20 bp):
GGTATCGATACCGAAGGGAA
Found at i:703102 original size:22 final size:19
Alignment explanation
Indices: 703052--703121 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
703042 GCAAAAATGA
703052 TATCGATACCATAGTAGAG
1 TATCGATACCATAGTAGAG
*
703071 TATCGGTACCATAGTATAGTAG
1 TATCGATACCATAG--TAG-AG
* * *
703093 TATCAATACCATGGTAGGGG
1 TATCGATACCATAGTA-GAG
703113 TATCGATAC
1 TATCGATAC
703122 TATGGATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.32
20 11 0.27
21 4 0.10
22 13 0.32
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (19 bp):
TATCGATACCATAGTAGAG
Found at i:703640 original size:34 final size:35
Alignment explanation
Indices: 703582--703648 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
703572 CCATAGCTGA
*
703582 AATGTATATAGGTGCATTATTGGCAT-AAAGGAAT
1 AATGCATATAGGTGCATTATTGGCATGAAAGGAAT
* *
703616 AATGCATATGGGTGGATTATTGGCATGAAAGGA
1 AATGCATATAGGTGCATTATTGGCATGAAAGGA
703649 TGCCATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (35 bp):
AATGCATATAGGTGCATTATTGGCATGAAAGGAAT
Found at i:703676 original size:26 final size:26
Alignment explanation
Indices: 703638--703983 Score: 315
Period size: 26 Copynumber: 14.5 Consensus size: 26
703628 TGGATTATTG
703638 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703664 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
*
703684 GCATGAAAGGATGCCACAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
703710 GCATGAAA-GATGTCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
703735 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
*
703755 GCATGAAAGGATGCCATAAATAAAAG
1 GCATGAAAGGATGCCATAAATAAAAT
703781 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
703807 GCATGAAAGGATGACATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703833 GCATGAAAAGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703853 GCATGAAAGGATTCTATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703879 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
703899 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703925 GCATGAAA-GATG-GAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
* *
703944 GCATGAAAGGATGCTATAGATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
703970 GCATGAAAGGATGC
1 GCATGAAAGGATGC
703984 ATTAAGGCAT
Statistics
Matches: 262, Mismatches: 26, Indels: 64
0.74 0.07 0.18
Matches are distributed among these distances:
19 10 0.04
20 60 0.23
21 13 0.05
22 4 0.02
24 7 0.03
25 38 0.15
26 130 0.50
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAAATAAAAT
Found at i:703689 original size:46 final size:49
Alignment explanation
Indices: 703637--703824 Score: 198
Period size: 46 Copynumber: 3.9 Consensus size: 49
703627 GTGGATTATT
*
703637 GGCATGAAAGGATGCCATAAATAAAATGCATGAAATGATG-CAT-T-AA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCATATAAA
* *
703683 GGCATGAAAGGATGCCACAAATAAAATGCATGAAA-GATGTCATAAATAAAA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCAT--AT-AAA
* *
703734 TGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAAATAAAA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCAT--AT-AAA
*
703780 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGACATA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCATA
703825 AATAAAATGC
Statistics
Matches: 121, Mismatches: 8, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
45 14 0.12
46 65 0.54
47 4 0.03
49 1 0.01
50 4 0.03
51 15 0.12
52 18 0.15
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (49 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCATATAAA
Found at i:703860 original size:46 final size:46
Alignment explanation
Indices: 703710--704058 Score: 476
Period size: 46 Copynumber: 7.6 Consensus size: 46
703700 CAAATAAAAT
*
703710 GCATGAAA-GATGTCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
* *
703755 GCATGAAAGGATGCCATAAATAAAAGGCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATG-CAT---T--AAG
* *
703807 GCATGAAAGGATGACATAAATAAAATGCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
* * *
703853 GCATGAAAGGATTCTATAAATAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
*
703899 GCATGAAAGGATGCCATAAATAAAATGCATGAAA-GATGGATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
* *
703944 GCATGAAAGGATGCTATAGATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
* * *
703990 GCATGAAAAGATG---T-AATAAAGTGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
704032 GCATGAAAGGATGCCATAAATAAAATG
1 GCATGAAAGGATGCCATAAATAAAATG
704059 AAATTTAACG
Statistics
Matches: 269, Mismatches: 23, Indels: 23
0.85 0.07 0.07
Matches are distributed among these distances:
42 37 0.14
43 1 0.00
45 51 0.19
46 134 0.50
47 3 0.01
48 1 0.00
50 1 0.00
51 3 0.01
52 38 0.14
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
Found at i:703929 original size:72 final size:72
Alignment explanation
Indices: 703637--704056 Score: 420
Period size: 71 Copynumber: 6.0 Consensus size: 72
703627 GTGGATTATT
* *
703637 GGCATGAAAGGATGCCATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCACA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
703702 AATAAAA
66 AATAAAA
* *
703709 TGCATGAAA-GATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
703773 AATAAAA
66 AATAAAA
* *
703780 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGACATAAATAAAATGCATGAAAAGAT
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGAT
703845 G-CAT---T--AA
60 GCCATAAATAAAA
* * *
703852 GGCATGAAAGGATTCTATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
703917 AATAAAA
66 AATAAAA
* * * *
703924 TGCATGAAA-GATG-GAT---T--AAGGCATGAAAGGATGCTATAGATAAAATGCATGAAAGGAT
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGC-AT---T--AAGGCATGAAAGGAT
703982 G-CAT---T--AA
60 GCCATAAATAAAA
* * *
703989 GGCATGAAAAGATG---T-AATAAAGTGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATA
1 GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
704050 AATAAAA
66 AATAAAA
704057 TGAAATTTAA
Statistics
Matches: 294, Mismatches: 24, Indels: 64
0.77 0.06 0.17
Matches are distributed among these distances:
62 15 0.05
63 3 0.01
64 2 0.01
65 25 0.09
66 22 0.07
67 7 0.02
68 17 0.06
69 1 0.00
70 6 0.02
71 88 0.30
72 86 0.29
73 3 0.01
74 1 0.00
76 1 0.00
77 3 0.01
78 14 0.05
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (72 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
AATAAAA
Found at i:704015 original size:22 final size:21
Alignment explanation
Indices: 703963--704044 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 21
703953 GATGCTATAG
* * *
703963 ATAAAATGCATGAAAGGATGC
1 ATAAAGTGCATGAAAAGATGA
*
703984 ATTAAG-GCATGAAAAGATGTA
1 ATAAAGTGCATGAAAAGATG-A
* *
704005 ATAAAGTGCATGAAATGATGC
1 ATAAAGTGCATGAAAAGATGA
* *
704026 ATTAAG-GCATGAAAGGATG
1 ATAAAGTGCATGAAAAGATG
704045 CCATAAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 24 0.48
21 14 0.28
22 12 0.24
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (21 bp):
ATAAAGTGCATGAAAAGATGA
Found at i:704111 original size:133 final size:135
Alignment explanation
Indices: 703710--704060 Score: 413
Period size: 144 Copynumber: 2.5 Consensus size: 135
703700 CAAATAAAAT
*
703710 GCATG-AAAGATGTCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAAGAT-T-ATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAA
* * * * * *
703774 ATAAAAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGACATAA-ATAAAATGCATG
64 ATAAAATGAATGAAA-GATG----AATTAAGA--CATGAAAGAATG-CAAAAGATAAAATGCATG
*
703838 AAAAGATGCATTAAG
121 AAAGGATGCATTAAG
*
703853 GCATGAAAGGATTCTATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAAGA-T-TATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAA
* * * * * *
703918 ATAAAATGCATGAAAGATGGATTAAGGCATGAAAGGATGCTATAGATAAAATGCATGAAAGGATG
64 ATAAAATGAATGAAAGATGAATTAAGACATGAAAGAATGCAAAAGATAAAATGCATGAAAGGATG
703983 CATTAAG
129 CATTAAG
* *
703990 GCATGAAAAGA-TGT-AATAAAGTGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAAT
1 GCATGAAAAGATTATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAAT
704053 AAAATGAA
66 AAAATGAA
704061 ATTTAACGAA
Statistics
Matches: 189, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
133 55 0.29
134 2 0.01
136 2 0.01
137 48 0.25
139 4 0.02
143 9 0.05
144 67 0.35
145 2 0.01
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (135 bp):
GCATGAAAAGATTATAAATAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAAT
AAAATGAATGAAAGATGAATTAAGACATGAAAGAATGCAAAAGATAAAATGCATGAAAGGATGCA
TTAAG
Found at i:706188 original size:13 final size:13
Alignment explanation
Indices: 706172--706197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
706162 TATGTGATTT
706172 TTAAAAAATTAAA
1 TTAAAAAATTAAA
706185 TTAAAAAATTAAA
1 TTAAAAAATTAAA
706198 AAATAGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAAATTAAA
Found at i:720429 original size:17 final size:17
Alignment explanation
Indices: 720407--720448 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
720397 AGAAAACTAT
720407 TCAGGCAATTACTAATG
1 TCAGGCAATTACTAATG
720424 TCAGGCAATTACTAATG
1 TCAGGCAATTACTAATG
720441 TCATGGCA
1 TCA-GGCA
720449 TATGTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (17 bp):
TCAGGCAATTACTAATG
Found at i:733634 original size:30 final size:30
Alignment explanation
Indices: 733600--733681 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
733590 GTAATTAATG
* * *
733600 TTTAGCCCTTTTAGTTTCTGTTAATACTAT
1 TTTAGCCCTTTAACTTTCTATTAATACTAT
* **
733630 TTTAGTCCTTTAACTTTCTATTTTTACTAT
1 TTTAGCCCTTTAACTTTCTATTAATACTAT
** * *
733660 TTTAATCCTTTAAATGTCTATT
1 TTTAGCCCTTTAACTTTCTATT
733682 TTTGTTATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTAGCCCTTTAACTTTCTATTAATACTAT
Found at i:733682 original size:30 final size:30
Alignment explanation
Indices: 733624--733730 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
733614 TTTCTGTTAA
* *
733624 TACTATTTTAGTCCTTTAACTTTCTATTTT
1 TACTATTTTAGTCCTTTAAATGTCTATTTT
*
733654 TACTATTTTAATCCTTTAAATGTCTATTTT
1 TACTATTTTAGTCCTTTAAATGTCTATTTT
** * * *
733684 TGTTATTTTAGTCCTATAAAT-TTTGTTTTT
1 TACTATTTTAGTCCTTTAAATGTCT-ATTTT
*
733714 TGCTA-TTTAGTCCTTTA
1 TACTATTTTAGTCCTTTA
733731 TTTTACTAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 13 0.20
30 52 0.80
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.59
Consensus pattern (30 bp):
TACTATTTTAGTCCTTTAAATGTCTATTTT
Found at i:735604 original size:17 final size:20
Alignment explanation
Indices: 735567--735604 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
735557 ACACTCCCTC
735567 TCTTTGAGACCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
735587 TCTTTG-GA-CTTG-AACAT
1 TCTTTGAGACCTTGAAACAT
735604 T
1 T
735605 GCATTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 2 0.11
20 6 0.33
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:738221 original size:79 final size:79
Alignment explanation
Indices: 738103--738263 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
738093 AACAATTTTG
738103 TCTCTCAAGACAGTTTCTTTTAAAAACAATCTTTGAGTCTGTTTCTCTGAAAATAAATTTTGTCT
1 TCTCTCAAGACAGTTTCTTTTAAAAACAATCTTTGAGTCTGTTTCTCTGAAAATAAATTTTGTCT
738168 CTATTGAGACAATT
66 CTATTGAGACAATT
738182 TCTCTCAAGACAGTTTCTTTTAAAAACAATCTTTGAGTCTGTTTCTCTGAAAATAAATTTTGTCT
1 TCTCTCAAGACAGTTTCTTTTAAAAACAATCTTTGAGTCTGTTTCTCTGAAAATAAATTTTGTCT
738247 CTATTGAGACAATT
66 CTATTGAGACAATT
738261 TCT
1 TCT
738264 TTTGAGAAAC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (79 bp):
TCTCTCAAGACAGTTTCTTTTAAAAACAATCTTTGAGTCTGTTTCTCTGAAAATAAATTTTGTCT
CTATTGAGACAATT
Found at i:738365 original size:34 final size:30
Alignment explanation
Indices: 738276--738366 Score: 83
Period size: 34 Copynumber: 2.8 Consensus size: 30
738266 TGAGAAACAA
*
738276 AATCTTTGAGTATATTTCTTTTGAAACAAAAC
1 AATCTTTGAG--TATTTCCTTTGAAACAAAAC
* *
738308 AATCTTTGCGTATGTTCCCTTGAAACAAAAC
1 AATCTTTGAGTAT-TTCCTTTGAAACAAAAC
*
738339 ACCTATCTTTGAGTCGTTTCCTTTGAAA
1 A---ATCTTTGAGT-ATTTCCTTTGAAA
738367 TGAAATTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 3 0.06
31 16 0.33
32 9 0.19
34 19 0.40
35 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (30 bp):
AATCTTTGAGTATTTCCTTTGAAACAAAAC
Found at i:738684 original size:40 final size:41
Alignment explanation
Indices: 738625--738813 Score: 127
Period size: 40 Copynumber: 4.5 Consensus size: 41
738615 GACCAGACCT
738625 TCATCACGTAGGAGA-CGTGTCA-CCCT-GATAACGATCGTCC
1 TCATCACGTAGGA-ACCGTGTCATCCCTAGATAACGA-CGTCC
* * * *
738665 TCATCACGTAGGAACCGTGTTATCATTTCTTAAAGATGACCTATCGTCC
1 TCATCACGTAGGAACCGTG---TCA-TCCCT--AGAT-AACGA-CGTCC
** ** *
738714 TCATCACGTAGGAACCGTGTCATCCCCCGACCA-GACCTCC
1 TCATCACGTAGGAACCGTGTCATCCCTAGATAACGACGTCC
* * * *
738754 TCATCACGTAAGAGCCGTGTCACCCCTAGATAACCA-GTCC
1 TCATCACGTAGGAACCGTGTCATCCCTAGATAACGACGTCC
*
738794 TCATCGCGTAGGAACCGTGT
1 TCATCACGTAGGAACCGTGT
738814 TTCGCCCTTC
Statistics
Matches: 113, Mismatches: 25, Indels: 22
0.71 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 67 0.59
41 2 0.02
43 5 0.04
45 4 0.04
46 3 0.03
48 3 0.03
49 28 0.25
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (41 bp):
TCATCACGTAGGAACCGTGTCATCCCTAGATAACGACGTCC
Found at i:738725 original size:127 final size:125
Alignment explanation
Indices: 738439--738821 Score: 374
Period size: 127 Copynumber: 3.0 Consensus size: 125
738429 AAACCATTAT
* * * *
738439 CCTAAAGATGGCATGTCA-TCCTCATCGCGTAGGAA-CGTGTCATCCCCGACTAGACCTCCTCAT
1 CCTAAAGAAGCCATG-CAGTCCTCATCACGTAGGAACCGTGTCATCCCCGACCAGACCT-CTCAT
* * * *
738502 CACGTAGGAGTCATGTCAACCTCAGATAACCTACGTCCTCATCACGTA-GAATCCGTGTTATCGT
64 CACGTAGGAGACGTGTC-ACC-CTGATAACAT-CGTCCTCATCACGTAGGAA-CCGTGTTATCGT
738566 C
125 C
* * * *
738567 CCTAAAGAAGGCATGCATTCCTTATCA-GTAGGAACCGTATCATCCCCAGACCAGACCT-TCATC
1 CCTAAAGAAGCCATGCAGTCCTCATCACGTAGGAACCGTGTCATCCCC-GACCAGACCTCTCATC
* *
738630 ACGTAGGAGACGTGTCACCCTGATAACGATCGTCCTCATCACGTAGGAACCGTGTTATCATTT
65 ACGTAGGAGACGTGTCACCCTGATAAC-ATCGTCCTCATCACGTAGGAACCGTGTTATC-GTC
* *
738693 CTTAAAGATGACCTAT-C-GTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTC
1 CCTAAAGAAG-CC-ATGCAGTCCTCATCACGTAGGAACCGTGTCAT-CCCCGACCAGACCT-CTC
* * *
738756 ATCACGTAAGAGCCGTGTCACCCCTAGATAAC--CAGTCCTCATCGCGTAGGAACCGTGTT-TCG
62 ATCACGTAGGAGACGTGTCA-CCCT-GATAACATC-GTCCTCATCACGTAGGAACCGTGTTATCG
738818 -C
124 TC
738819 CCT
1 CCT
738822 TCATAAAGAT
Statistics
Matches: 217, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
125 32 0.15
126 26 0.12
127 55 0.25
128 41 0.19
129 53 0.24
130 4 0.02
131 6 0.03
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (125 bp):
CCTAAAGAAGCCATGCAGTCCTCATCACGTAGGAACCGTGTCATCCCCGACCAGACCTCTCATCA
CGTAGGAGACGTGTCACCCTGATAACATCGTCCTCATCACGTAGGAACCGTGTTATCGTC
Found at i:746957 original size:29 final size:29
Alignment explanation
Indices: 746898--747008 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
746888 GTAATTAATG
* * * ** *
746898 TTTAGCCCTTTTAGTTTCTATTAATACTA
1 TTTAGTCCTTTAAATTTCTATTTTTATTA
*
746927 TTTAGTCCTTTAACTTTCTATTTTTATTA
1 TTTAGTCCTTTAAATTTCTATTTTTATTA
*
746956 TTTTAATCCTTTAAATTTCTATTTTT-TGT-
1 -TTTAGTCCTTTAAATTTCTATTTTTAT-TA
* *
746985 TTTAGTCCTATAAATTTCTGTTTT
1 TTTAGTCCTTTAAATTTCTATTTT
747009 GCTATTGTCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 21 0.30
29 24 0.35
30 24 0.35
ACGTcount: A:0.22, C:0.14, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTAGTCCTTTAAATTTCTATTTTTATTA
Found at i:746998 original size:28 final size:29
Alignment explanation
Indices: 746927--747008 Score: 103
Period size: 28 Copynumber: 2.8 Consensus size: 29
746917 ATTAATACTA
*
746927 TTTAGTCCTTTAACTTTCTATTTTTATTAT
1 TTTAGTCCTTTAAATTTCTA-TTTTATTAT
* *
746957 TTTAATCCTTTAAATTTCTATTTT-TTGT
1 TTTAGTCCTTTAAATTTCTATTTTATTAT
* *
746985 TTTAGTCCTATAAATTTCTGTTTT
1 TTTAGTCCTTTAAATTTCTATTTT
747009 GCTATTGTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 24 0.52
29 4 0.09
30 18 0.39
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTAGTCCTTTAAATTTCTATTTTATTAT
Found at i:750920 original size:26 final size:26
Alignment explanation
Indices: 750861--750920 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
750851 TAAATATAAT
* *
750861 CTTTAAAAATAATTAAATTATTTTTTG
1 CTTT-AAAATAATTAAATTATTGTTTC
* * *
750888 GTATAAAATAATTAAATTGTTGTTTC
1 CTTTAAAATAATTAAATTATTGTTTC
750914 CTTTAAA
1 CTTTAAA
750921 TTTCTTTCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (26 bp):
CTTTAAAATAATTAAATTATTGTTTC
Found at i:754355 original size:106 final size:106
Alignment explanation
Indices: 754170--754383 Score: 401
Period size: 106 Copynumber: 2.0 Consensus size: 106
754160 TAAGTTGAAA
754170 TATTATCGAGGCTTGCCAAGCCATGCTTAAATATACTTAGATTCTAATTTGAATATTGATCTTTT
1 TATTATCGAGGCTTGCCAAGCCATGCTTAAATATACTTAGATTCTAATTTGAATATTGATCTTTT
*
754235 AATTTTATCAATCAAATCATTTAACTATTTAATTCGACATT
66 AATTTTATCAATCAAATCATTTAACTATTTAAATCGACATT
* *
754276 TATTATCGATGCTTGCCAAGCCATGCTTAAATATAGTTAGATTCTAATTTGAATATTGATCTTTT
1 TATTATCGAGGCTTGCCAAGCCATGCTTAAATATACTTAGATTCTAATTTGAATATTGATCTTTT
754341 AATTTTATCAATCAAATCATTTAACTATTTAAATCGACATT
66 AATTTTATCAATCAAATCATTTAACTATTTAAATCGACATT
754382 TA
1 TA
754384 AACTCTAATT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (106 bp):
TATTATCGAGGCTTGCCAAGCCATGCTTAAATATACTTAGATTCTAATTTGAATATTGATCTTTT
AATTTTATCAATCAAATCATTTAACTATTTAAATCGACATT
Found at i:754580 original size:39 final size:39
Alignment explanation
Indices: 754537--754664 Score: 129
Period size: 39 Copynumber: 3.3 Consensus size: 39
754527 GAATGCTTGG
* * *
754537 CGTTTTCAGGCTAAATTTAAAGACTCCAGGAGTGTACGA
1 CGTTTTCAGGCTCAATATAAAGACTCCAGGAGTGCACGA
*
754576 CGTTTTCAGGC-CAATGGATAAA-ACTCCAGGAGTGCACGG
1 CGTTTTCAGGCTCAAT--ATAAAGACTCCAGGAGTGCACGA
* * *
754615 CGTCTTCAGG-TCAATGTATAAGACTCCAAGAGTGCACGA
1 CGTTTTCAGGCTCAATATA-AAGACTCCAGGAGTGCACGA
754654 CGTCTTT-AGGC
1 CGT-TTTCAGGC
754665 CATGCAGTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
37 2 0.03
38 5 0.07
39 60 0.82
40 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
CGTTTTCAGGCTCAATATAAAGACTCCAGGAGTGCACGA
Found at i:755302 original size:26 final size:25
Alignment explanation
Indices: 755267--755325 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
755257 TAAGATAATT
755267 AAAAA-AATATAATTATAATGACGAA
1 AAAAATAATATAATTATAATGAC-AA
*
755292 AAAAATAATATTATTATAATGACAA
1 AAAAATAATATAATTATAATGACAA
755317 AAATAATAA
1 AAA-AATAA
755326 CTTTAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.27
Consensus pattern (25 bp):
AAAAATAATATAATTATAATGACAA
Found at i:755593 original size:43 final size:44
Alignment explanation
Indices: 755531--755648 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 44
755521 GATCAACATT
*
755531 TGATTTAGTATTTCTAGTAAAAATGTTAAAAATGT-TAA-AATAG
1 TGATTTAGTATTTCTAGTAAAAATGTTAAAAAT-TAAAATAATAG
* *
755574 TGATTTAGTATTTCCAGT--AAATGTTAAAATATTAAAATAATAT
1 TGATTTAGTATTTCTAGTAAAAATGTTAAAA-ATTAAAATAATAG
* *
755617 TGATTTAGTATTTGTGGTAAAAATGTTAAAAA
1 TGATTTAGTATTTCTAGTAAAAATGTTAAAAA
755649 CAATTATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
41 12 0.19
42 4 0.06
43 36 0.56
44 1 0.02
45 11 0.17
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (44 bp):
TGATTTAGTATTTCTAGTAAAAATGTTAAAAATTAAAATAATAG
Found at i:755705 original size:16 final size:16
Alignment explanation
Indices: 755676--755714 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
755666 ATAATAATAA
755676 TAATAATAACTTTAATC
1 TAAT-ATAACTTTAATC
*
755693 TAATATAATTTTAATC
1 TAATATAACTTTAATC
755709 TAATAT
1 TAATAT
755715 GTCACAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAACTTTAATC
Found at i:758357 original size:27 final size:27
Alignment explanation
Indices: 758327--758386 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
758317 TGTTGATGTT
*
758327 ATATTTGAATGAATGTGATTAATACCA
1 ATATTTGAATGAATGTGATTAAAACCA
*
758354 ATATTTGAATGAATGTGATTAAAATCA
1 ATATTTGAATGAATGTGATTAAAACCA
758381 ATATTT
1 ATATTT
758387 CTATGTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (27 bp):
ATATTTGAATGAATGTGATTAAAACCA
Found at i:758362 original size:23 final size:23
Alignment explanation
Indices: 758336--758409 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
758326 TATATTTGAA
*
758336 TGAATGTGATTAATACCAATATTT
1 TGAATGTGATTAATATCAATA-TT
*
758360 GAATGAATGTGATTAAAATCAATATT
1 ---TGAATGTGATTAATATCAATATT
** *
758386 TCTATGTGAATAATATCAATATT
1 TGAATGTGATTAATATCAATATT
758409 T
1 T
758410 TATTTAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 20 0.49
26 2 0.05
27 19 0.46
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (23 bp):
TGAATGTGATTAATATCAATATT
Found at i:760785 original size:96 final size:94
Alignment explanation
Indices: 760684--760918 Score: 241
Period size: 96 Copynumber: 2.5 Consensus size: 94
760674 AAATTACACG
*
760684 AAAATTTAAATTAAACTTACAAAACCATTCAAATACAACTTAA-CAATCAAAAT-AAA-TAGTCT
1 AAAATTTAAACTAAACTTAC-AAACCATTCAAATACAACTTAATCAAT-AAAATAAAATTAGTCT
760746 AATTAATTTATATT--TACAATAAAAAAATAAAACA-
64 AA-T-ATTTATATTACT-CAAT--AAAAATAAAA-AT
** * **
760780 AAAATTTAAACTAAACTTATCAAACCACTT-AAATATTATTTAATCTGTAAAATAAAATTAGTCT
1 AAAATTTAAACTAAACTTA-CAAACCA-TTCAAATACAACTTAATCAATAAAATAAAATTAGTCT
760844 AATATTTATATTACTCAATAAAAATAAAAAT
64 AATATTTATATTACTCAATAAAAATAAAAAT
* * *
760875 ATAATTTAAACTAAACTTACTAAACTACTCAAATACAACTTAAT
1 AAAATTTAAACTAAACTTAC-AAACCATTCAAATACAACTTAAT
760919 ATGTAAAATC
Statistics
Matches: 117, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
94 3 0.03
95 44 0.38
96 48 0.41
97 13 0.11
98 9 0.08
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (94 bp):
AAAATTTAAACTAAACTTACAAACCATTCAAATACAACTTAATCAATAAAATAAAATTAGTCTAA
TATTTATATTACTCAATAAAAATAAAAAT
Found at i:760909 original size:306 final size:309
Alignment explanation
Indices: 760415--761109 Score: 933
Period size: 306 Copynumber: 2.2 Consensus size: 309
760405 AAAATCTGTA
* *
760415 AAATCAAAATAAATAGTCTAATGAATTTATATTTACAATAAAAACAAAAAACAAACAATAAAATT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTACAAT--AAA-AAAATA-AAACAATAAAATT
* * *
760480 TAAACTAAACTTACCAATCACTCAAATACGATTTAATCTGTAAATAAAATAATTATTCTAATAAT
62 TAAACTAAACTTACAAACCACTCAAATACGATTTAATCTGTAAATAAAATAATTAGTCTAATAAT
*
760545 TTATATTACTCAATAAATAAAAATAAAATTTAAACTAAACTTACCAAATTACTCAAATACAACTT
127 TTATATTACTCAATAAATAAAAATAAAATTTAAACTAAACTTACCAAACTACTCAAATACAACTT
*
760610 AATATGTAAAATCAAAATAAATAGT-CTAATATATAATTTAAATTTAAAAATAAAAATTATACT-
192 AATATGTAAAATCAAAATAAATAGTAATAAT-TATAATTTAAA-TTAAAAAT-AAAATTATACTA
* *
760673 AAAATTACACGAAAATTTAAATTAAACTTACAAAACCATTCAAATACAACTT-A-A-
254 AAAATTACACGAAAA-TTAAATTAAACTTACAAAACAACTCAAATACAACTTAATAT
*
760727 CAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAAAATAAAAC-A-AAAATTTAAA
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAAAATAAAACAATAAAATTTAAA
* ** *
760790 CTAAACTTATCAAACCACTTAAATATTATTTAATCTGTAAA-ATAA-AATTAGTCTAAT-ATTTA
66 CTAAACTTA-CAAACCACTCAAATACGATTTAATCTGTAAATAAAATAATTAGTCTAATAATTTA
* *
760852 TATTACTCAATAAAAATAAAAATATAATTTAAACTAAACTTACTAAACTACTCAAATACAACTTA
130 TATTACTCAAT--AAATAAAAATAAAATTTAAACTAAACTTACCAAACTACTCAAATACAACTTA
*
760917 ATATGTAAAATCAAAATAAATAGTAATAATTATAATTTAAATTAAAAATAAAATTATTCTAAAAA
193 ATATGTAAAATCAAAATAAATAGTAATAATTATAATTTAAATTAAAAATAAAATTATACTAAAAA
* * *
760982 TTACACGAAAATTAAATTAAACTTACCAAACAACTCCAATACAATTTAATATGT
258 TTACACGAAAATTAAATTAAACTTACAAAACAACTCAAATACAACTTAATA--T
* * * * *
761036 AAATCAAAATAAATAATATAATTAATTTATATTTCAAAAAAAATTAAAAATGAAACAATAAAATT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTT--ACAATAA--AAAAATAAAACAATAAAATT
*
761101 TATACTAAA
62 TAAACTAAA
761110 TTTCAAATCG
Statistics
Matches: 340, Mismatches: 27, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
304 57 0.17
305 35 0.10
306 107 0.31
307 31 0.09
308 4 0.01
309 36 0.11
310 3 0.01
311 5 0.01
312 37 0.11
313 10 0.03
314 1 0.00
315 14 0.04
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (309 bp):
AAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAAAATAAAACAATAAAATTTAAA
CTAAACTTACAAACCACTCAAATACGATTTAATCTGTAAATAAAATAATTAGTCTAATAATTTAT
ATTACTCAATAAATAAAAATAAAATTTAAACTAAACTTACCAAACTACTCAAATACAACTTAATA
TGTAAAATCAAAATAAATAGTAATAATTATAATTTAAATTAAAAATAAAATTATACTAAAAATTA
CACGAAAATTAAATTAAACTTACAAAACAACTCAAATACAACTTAATAT
Found at i:764336 original size:2 final size:2
Alignment explanation
Indices: 764329--764363 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
764319 ATCCTATCTC
*
764329 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
764364 ACTTTCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:766198 original size:39 final size:39
Alignment explanation
Indices: 766113--766221 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 39
766103 TTTTATAATA
*
766113 ATCAAATTATTTCACTCTAATATTCTAAATTCTTAATTT
1 ATCAAATTATTTCACTCTAACATTCTAAATTCTTAATTT
* *
766152 CTTAAATT-TTGTCAC-CATAACATTCTAAAATT-TTAATTT
1 ATCAAATTATT-TCACTC-TAACATTCT-AAATTCTTAATTT
* * *
766191 ATCAAATTATTTCACTTTAAAATTTTAAATT
1 ATCAAATTATTTCACTCTAACATTCTAAATT
766222 ATTTTTTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
38 8 0.14
39 42 0.74
40 7 0.12
ACGTcount: A:0.38, C:0.14, G:0.01, T:0.48
Consensus pattern (39 bp):
ATCAAATTATTTCACTCTAACATTCTAAATTCTTAATTT
Found at i:769197 original size:2 final size:2
Alignment explanation
Indices: 769190--769214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
769180 TCTCTTTCTT
769190 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
769215 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:770986 original size:25 final size:25
Alignment explanation
Indices: 770958--771006 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
770948 AAATTAAATA
*
770958 GGGATAGACGCATGATTTTATATTT
1 GGGACAGACGCATGATTTTATATTT
*
770983 GGGACGGACGCATGATTTTATATT
1 GGGACAGACGCATGATTTTATATT
771007 AAGAGAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (25 bp):
GGGACAGACGCATGATTTTATATTT
Found at i:773238 original size:97 final size:91
Alignment explanation
Indices: 773125--773364 Score: 232
Period size: 100 Copynumber: 2.5 Consensus size: 91
773115 AAATTACACG
* * *
773125 AAAAATTAAATTAAACTTACAAAACCATTCAAATACAACTTAACAATCAAAATAAATAGTCTAAT
1 AAAATTTAAACTAAACTTAC-AAACCATTCAAATACAACTTAA-AATAAAAATAAATAGTCTAAT
773190 AAATTTATATTTAC-AATAAAAAATAAAACAAT
64 -AATTTATA-TTACTAAT-AAAAAT-AAA-AAT
*
773222 AAAATTTAAACTAAACTTATCAAACCACTT-AAATACTATTTAATCTGTAAAATAAAAATAATTA
1 AAAATTTAAACTAAACTTA-CAAACCA-TTCAAATAC-----AA-CT-TAAAATAAAAATAAATA
*
773286 GTCTAATATTTTATATTACTTAATAAAAATAAAAAT
57 GTCTAATAATTTATATTAC-TAATAAAAATAAAAAT
* * *
773322 ATAATTTAAACTAAACTTACTAAACTACTCAAATACAACTTAA
1 AAAATTTAAACTAAACTTAC-AAACCATTCAAATACAACTTAA
773365 TATGTAAAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
93 3 0.02
94 2 0.02
95 2 0.02
97 29 0.24
98 3 0.02
99 2 0.02
100 32 0.26
101 7 0.06
102 15 0.12
103 24 0.20
104 3 0.02
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (91 bp):
AAAATTTAAACTAAACTTACAAACCATTCAAATACAACTTAAAATAAAAATAAATAGTCTAATAA
TTTATATTACTAATAAAAATAAAAAT
Found at i:773365 original size:100 final size:104
Alignment explanation
Indices: 773169--773388 Score: 285
Period size: 100 Copynumber: 2.2 Consensus size: 104
773159 ACAACTTAAC
773169 AATC-AAAATAAATAGTCTAATAAATTTATATTTACAATAAAAAATAAAACAATAAAATTTAAAC
1 AATCAAAAATAAATAGTCTAATAAATTTATATTTACAATAAAAAATAAAACAATAAAATTTAAAC
* * * *
773233 TAAACTTATCAAACCACTTAAATACTATTTAATCTGTAA
66 TAAACTTATCAAACCACTCAAATACAACTTAATATGTAA
* * *
773272 AAT-AAAAATAATTAGTCTAAT-ATTTTATA-TTACTTAAT-AAAAAT-AAA-AATATAATTTAA
1 AATCAAAAATAAATAGTCTAATAAATTTATATTTAC--AATAAAAAATAAAACAATAAAATTTAA
*
773331 ACTAAACTTA-CTAAACTACTCAAATACAACTTAATATGTAA
64 ACTAAACTTATC-AAACCACTCAAATACAACTTAATATGTAA
773372 AATCAAAAATAAATAGT
1 AATCAAAAATAAATAGT
773389 ATTTTTATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
99 1 0.01
100 48 0.47
101 19 0.18
102 13 0.13
103 22 0.21
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (104 bp):
AATCAAAAATAAATAGTCTAATAAATTTATATTTACAATAAAAAATAAAACAATAAAATTTAAAC
TAAACTTATCAAACCACTCAAATACAACTTAATATGTAA
Found at i:779056 original size:32 final size:34
Alignment explanation
Indices: 779020--779089 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
779010 CCTTACAAAC
* *
779020 TCCCTAG-TTTTTC-CGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATT
* *
779052 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATT
779086 TCCC
1 TCCC
779090 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACATT
Found at i:784054 original size:21 final size:20
Alignment explanation
Indices: 784030--784087 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 20
784020 CTCATTTCTA
784030 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
784051 TGTA-CTGATACATTTCTTGAATG
1 TGTATC-GATACA---CTTGAATG
784074 TGTATCGATACACT
1 TGTATCGATACACT
784088 CACATGTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
20 3 0.09
21 10 0.31
23 16 0.50
24 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:789869 original size:21 final size:22
Alignment explanation
Indices: 789845--789889 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
789835 TTAGGCTTAA
**
789845 AAGTGGTTCTAAAT-TGTTTCT
1 AAGTGGTTAGAAATATGTTTCT
*
789866 AAGTGTTTAGAAATATGTTTCT
1 AAGTGGTTAGAAATATGTTTCT
789888 AA
1 AA
789890 TCACTTTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (22 bp):
AAGTGGTTAGAAATATGTTTCT
Found at i:791819 original size:32 final size:32
Alignment explanation
Indices: 791778--791890 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
791768 TCAGTGTTGT
*
791778 ATTCAGATAATGCACAAAAAAGTCATTATTGC
1 ATTCAGATAATGCACAAAAAAGTCATTATTAC
* * *
791810 ATTCAGATAATGCACAATAAAG-CTAGTATTAT
1 ATTCAGATAATGCACAAAAAAGTC-ATTATTAC
* * *
791842 ATTCAGATAATGCACAACATAGTCGTTATTAC
1 ATTCAGATAATGCACAAAAAAGTCATTATTAC
*
791874 ATTCATATAATGCACAA
1 ATTCAGATAATGCACAA
791891 GAGCGTCATT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.01
32 67 0.97
33 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (32 bp):
ATTCAGATAATGCACAAAAAAGTCATTATTAC
Found at i:793294 original size:84 final size:84
Alignment explanation
Indices: 793137--793296 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
793127 ATTTATTGTA
* * * *
793137 ATTAAAATATATATTCATATGATAAAACCTAATCTCAGTTGAAATAAATTTATATATTTAAAATA
1 ATTAAAATATATATTCATATGATAAAACCTAATCTAAATTGAAATAAATTAATATATTTAAAAGA
*
793202 AATATAATTATCAAACTCT
66 AAGATAATTATCAAACTCT
* * * * *
793221 ATTAAAATATATATTTATTTGATATAA-CTCAATCTAAATTGAGATAAATTAATATATTTAAAGG
1 ATTAAAATATATATTCATATGATAAAACCT-AATCTAAATTGAAATAAATTAATATATTTAAAAG
*
793285 AAAGGTAATTAT
65 AAAGATAATTAT
793297 TTGGGTAAAC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 2 0.03
84 62 0.97
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (84 bp):
ATTAAAATATATATTCATATGATAAAACCTAATCTAAATTGAAATAAATTAATATATTTAAAAGA
AAGATAATTATCAAACTCT
Found at i:793835 original size:2 final size:2
Alignment explanation
Indices: 793824--793883 Score: 60
Period size: 2 Copynumber: 32.0 Consensus size: 2
793814 AAACAATAAC
793824 TA TA -A TA TA TA TA TA TA TA TA TA T- TA TCA T- TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
793862 -A TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA
793884 ATTTGAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
1 6 0.12
2 40 0.80
3 4 0.08
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:794035 original size:19 final size:19
Alignment explanation
Indices: 794008--794044 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
793998 ATGACCAACA
*
794008 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
794027 AAATTGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
794045 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:794177 original size:20 final size:20
Alignment explanation
Indices: 794152--794201 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
794142 AATTTGGAAA
*
794152 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
794172 ATCGCAACACGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
794192 GTCGCAACGC
1 ATCGCAACGC
794202 TGAATTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:795046 original size:24 final size:24
Alignment explanation
Indices: 795019--795072 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
795009 GTATTCGAAA
795019 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
795043 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
795067 TTTGAT
1 TTTGAT
795073 GATGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:795288 original size:14 final size:14
Alignment explanation
Indices: 795269--795295 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
795259 GAAGATGAAA
795269 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
795283 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
795296 TGCCACAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:796911 original size:19 final size:19
Alignment explanation
Indices: 796889--796956 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
796879 ATCGCAACGA
796889 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
796908 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
796927 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
796941 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
796957 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:797032 original size:20 final size:20
Alignment explanation
Indices: 796975--797032 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
796965 TCGCATTGCG
* *
796975 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
*
796995 ATTTCCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
797015 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
797033 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:798099 original size:24 final size:24
Alignment explanation
Indices: 798072--798125 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
798062 GTATTCGAAA
* *
798072 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
798096 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
798120 TTTGAT
1 TTTGAT
798126 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:798317 original size:12 final size:12
Alignment explanation
Indices: 798300--798324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
798290 ATATAATCCT
798300 GAAGAAGAAAAA
1 GAAGAAGAAAAA
798312 GAAGAAGAAAAA
1 GAAGAAGAAAAA
798324 G
1 G
798325 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:800577 original size:21 final size:21
Alignment explanation
Indices: 800517--800631 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 21
800507 ATGAATCGGG
* * *
800517 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGAAGGGGC
* *
800538 CTCTTCAACGAT-GACAGGGGC
1 CTCTTGAACGGTGGA-AGGGGC
*
800559 CTCTTGAACGGTGGAAGGGGA
1 CTCTTGAACGGTGGAAGGGGC
*
800580 CTCTTG-AGGGAT-GATAGGGGC
1 CTCTTGAACGG-TGGA-AGGGGC
* *
800601 CTCTTGAACGATAGG-AGAGGC
1 CTCTTGAACGGT-GGAAGGGGC
800622 CTCTTGAACG
1 CTCTTGAACG
800632 ATAACAGGTG
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
20 6 0.08
21 63 0.85
22 4 0.05
23 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGAAGGGGC
Found at i:800584 original size:42 final size:42
Alignment explanation
Indices: 800517--800610 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
800507 ATGAATCGGG
* *
800517 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGAAGGGACCTCTTCAACGATGACAGGGGC
* ** *
800559 CTCTTGAACGGTGGAAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGAA-GGGACCTCTTCAACGATGACAGGGGC
800601 CTCTTGAACG
1 CTCTTGAACG
800611 ATAGGAGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGAAGGGACCTCTTCAACGATGACAGGGGC
Found at i:800626 original size:42 final size:42
Alignment explanation
Indices: 800547--800628 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
800537 CCTCTTCAAC
* *
800547 GATGACAGGGGCCTCTTGAACGGTGGAAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGAAGAGGACTCTTGAGG
* *
800589 GATGATAGGGGCCTCTTGAACGATAGG-AGAGGCCTCTTGA
1 GATGACAGGGGCCTCTTGAACGAT-GGAAGAGGACTCTTGA
800629 ACGATAACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGAAGAGGACTCTTGAGG
Found at i:801146 original size:20 final size:20
Alignment explanation
Indices: 801121--801164 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
801111 AATAGTTTCT
801121 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
801141 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
801161 GAAA
1 GAAA
801165 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:801174 original size:20 final size:20
Alignment explanation
Indices: 801151--801199 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
801141 GAAACTTAAA
801151 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
801171 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
801191 ATCGCAACG
1 ATCGCAACG
801200 GGATAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:801232 original size:19 final size:19
Alignment explanation
Indices: 801204--801261 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
801194 GCAACGGGAT
801204 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATAAA
* **
801223 AATTGCAATGCGAAACCAA
1 AATCGCAATGCGAAATAAA
*
801242 AATCGCAACGCGAAACTAAA
1 AATCGCAATGCGAAA-TAAA
801262 TTCGCGTTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 29 0.94
20 2 0.06
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATAAA
Found at i:801266 original size:19 final size:19
Alignment explanation
Indices: 801222--801266 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
801212 TGCGAAATAA
*
801222 AAATT-GCAATGCGAAACC
1 AAATTCGCAACGCGAAACC
* *
801240 AAAATCGCAACGCGAAACT
1 AAATTCGCAACGCGAAACC
801259 AAATTCGC
1 AAATTCGC
801267 GTTGCGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (19 bp):
AAATTCGCAACGCGAAACC
Found at i:801291 original size:20 final size:20
Alignment explanation
Indices: 801262--801299 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
801252 CGAAACTAAA
*
801262 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
801282 TTCGCATTGCGATTTTCA
1 TTCGCATTGCGATTTTCA
801300 CGTTGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:801328 original size:33 final size:34
Alignment explanation
Indices: 801266--801341 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
801256 ACTAAATTCG
* *
801266 CGTTGCGATTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTACGATTATCA
* *
801300 CGTTGCGATTTTTATTTT-GCATTACGATTATCC
1 CGTTGCGATTTTCATTTTCGCATTACGATTATCA
801333 CGTTGCGAT
1 CGTTGCGAT
801342 AGTCAAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTACGATTATCA
Found at i:801358 original size:20 final size:20
Alignment explanation
Indices: 801333--801401 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
801323 ACGATTATCC
*
801333 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
*
801353 CGTTGCGATAATC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
801373 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
801393 CGTTGCGAT
1 CGTTGCGAT
801402 TTTTAAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 35 0.85
21 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:801576 original size:11 final size:11
Alignment explanation
Indices: 801560--801607 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
801550 AATTTACTAA
801560 GAAATCTAAGT
1 GAAATCTAAGT
801571 GAAATCTAAGT
1 GAAATCTAAGT
*
801582 GAAAT-TACGT
1 GAAATCTAAGT
801592 GTAAATC-AAGT
1 G-AAATCTAAGT
*
801603 TAAAT
1 GAAAT
801608 ATATATGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (11 bp):
GAAATCTAAGT
Found at i:803409 original size:59 final size:60
Alignment explanation
Indices: 803316--803438 Score: 212
Period size: 59 Copynumber: 2.1 Consensus size: 60
803306 GAAACTTAAA
*
803316 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGAAAAGCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
* *
803376 ATCGCAACGCG-AAATGAAAAGCGCAACACGAAAATGACTATCGCAACTCGAATTTGACT
1 ATCGCAACACGAAAATGAAAAGCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
803435 ATCG
1 ATCG
803439 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 50 0.83
60 10 0.17
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (60 bp):
ATCGCAACACGAAAATGAAAAGCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
Found at i:803433 original size:20 final size:20
Alignment explanation
Indices: 803316--803438 Score: 131
Period size: 20 Copynumber: 6.2 Consensus size: 20
803306 GAAACTTAAA
**
803316 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
803336 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
803356 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
* **
803376 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
*
803395 AGCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
803415 ATCGCAACTCGAATTTGACT
1 ATCGCAACACGAAAATGACT
803435 ATCG
1 ATCG
803439 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
19 13 0.15
20 72 0.85
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:803877 original size:20 final size:20
Alignment explanation
Indices: 803854--803938 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
803844 TATCGCAACA
803854 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
**
803874 CGATTATGT-ATTATCGCGTTG
1 CGA-TA-GTCAGAATCGCGTTG
803895 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
*
803915 CGATAGTCAAAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
803935 CGAT
1 CGAT
803939 TTACATATTC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.04
20 38 0.67
21 15 0.26
22 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:803884 original size:41 final size:41
Alignment explanation
Indices: 803823--803918 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
803813 GCGCTTTGAA
* *
803823 AATCGCATTGCGATTTTGTATTATCGCAACACGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCGCAACACGATAGTCAG
****
803864 AATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCGCAACACGATAGTCAG
803905 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
803919 AGTCAAAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
AATCGCGTTGCGATTATGTATTATCGCAACACGATAGTCAG
Found at i:804020 original size:41 final size:41
Alignment explanation
Indices: 803913--804028 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
803903 AGAATCGCGT
** * * *
803913 TGCGATAGTCAAAATCGCGTTGCG-ATTTACATATTCACAT
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCACAA
** *** *
803953 TGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCGCAA
1 TGCGATAGTC-AAAATCGCGTTGCGAATTTGGAAAATCACAA
*
803995 TGCGATAGTCAAAATCGCGTTGCGAATCTGGAAA
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAA
804029 CTGATTTGCG
Statistics
Matches: 57, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
40 8 0.14
41 31 0.54
42 18 0.32
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (41 bp):
TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCACAA
Found at i:804069 original size:19 final size:19
Alignment explanation
Indices: 804045--804081 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
804035 TGCGATACTG
* *
804045 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCAATTTA
804064 GAGATCGCATTGCAATTT
1 GAGATCGCATTGCAATTT
804082 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCAATTTA
Found at i:805110 original size:2 final size:2
Alignment explanation
Indices: 805105--805149 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
805095 TTTTAATGAT
805105 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
805147 TA T
1 TA T
805150 GAAATCATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:805215 original size:23 final size:22
Alignment explanation
Indices: 805162--805216 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
805152 AATCATTAAA
*
805162 AATAATTTAATATTCAAATTAT
1 AATAATATAATATTCAAATTAT
805184 AATATATATAATATT-ATAATTAAT
1 AATA-ATATAATATTCA-AATT-AT
*
805208 GATAATATA
1 AATAATATA
805217 TATAGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 18 0.64
24 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATAATATAATATTCAAATTAT
Found at i:805225 original size:19 final size:18
Alignment explanation
Indices: 805179--805226 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
805169 TAATATTCAA
805179 ATTATAA-TATAT-ATAAT
1 ATTATAATTA-ATGATAAT
805196 ATTATAATTAATGATAAT
1 ATTATAATTAATGATAAT
*
805214 ATATATAGTTAAT
1 AT-TATAATTAAT
805227 ATTCAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
ATTATAATTAATGATAAT
Found at i:805239 original size:27 final size:27
Alignment explanation
Indices: 805163--805246 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 27
805153 ATCATTAAAA
805163 ATAATTTAATATTCAAATTATAATATAT
1 ATAA-TTAATATTCAAATTATAATATAT
* *
805191 ATAATATTATAATT--AATGATAATATAT
1 ATAAT-TAAT-ATTCAAATTATAATATAT
*
805218 ATAGTTAATATTCAAATTATAATCATAT
1 ATAATTAATATTCAAATTATAAT-ATAT
805246 A
1 A
805247 GAAATGACCA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 25 0.54
28 12 0.26
29 3 0.07
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
ATAATTAATATTCAAATTATAATATAT
Found at i:807422 original size:20 final size:21
Alignment explanation
Indices: 807397--807448 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
807387 TTTTCCCAAT
*
807397 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
807417 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
807438 TCGCAATGCGA
1 TCGCAATGCGA
807449 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:807462 original size:20 final size:20
Alignment explanation
Indices: 807437--807550 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
807427 AATTGGGAAA
807437 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
807457 ATCGCAAAGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
807477 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
*
807498 ATCGC-ATCGAGATACTGACT
1 ATCGCAAT-GCGATACTGACT
* * *
807518 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
807538 TTCGCAACGCGAT
1 ATCGCAATGCGAT
807551 TTACATAGCG
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.03
20 61 0.79
21 12 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:807499 original size:61 final size:61
Alignment explanation
Indices: 807434--807550 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
807424 GCGAATTGGG
* * *
807434 AAAATCGCAAT-GCGATACTGACTATCGCAAAGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGC-ATCGAGATACTGACTATCGCAAAGCGATACTGACTATCGCAACGCGATAATAC
* * * *
807495 AAAATCGCATCGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCATCGAGATACTGACTATCGCAAAGCGATACTGACTATCGCAACGCGAT
807551 TTACATAGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 2 0.04
61 46 0.96
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCATCGAGATACTGACTATCGCAAAGCGATACTGACTATCGCAACGCGATAATAC
Found at i:808126 original size:19 final size:19
Alignment explanation
Indices: 808104--808148 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
808094 GCAACGAGAT
*
808104 AATCGCAACGCAAAATAAA
1 AATCGCAACGCAAAACAAA
* *
808123 AATCGCAACGCGAAACCAA
1 AATCGCAACGCAAAACAAA
808142 AATCGCA
1 AATCGCA
808149 TTGTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.27, G:0.13, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCAAAACAAA
Found at i:808166 original size:19 final size:19
Alignment explanation
Indices: 808153--808295 Score: 170
Period size: 20 Copynumber: 7.6 Consensus size: 19
808143 ATCGCATTGT
808153 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
808172 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
*
808191 GATTTTTATTTCGCGGTTGC
1 GATTTTCATTTCGC-GTTGC
808211 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
*
808230 GA--TTC---TCTCGTTGC
1 GATTTTCATTTCGCGTTGC
**
808244 GATAGTCATTTCCGCGTTGC
1 GATTTTCATTT-CGCGTTGC
* *
808264 GATTCTCATTATCTCGTTGC
1 GATTTTCATT-TCGCGTTGC
808284 GATTTTCATTTC
1 GATTTTCATTTC
808296 AACCAAAAGA
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.09
16 2 0.02
17 3 0.03
19 42 0.39
20 49 0.46
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
GATTTTCATTTCGCGTTGC
Found at i:808219 original size:39 final size:38
Alignment explanation
Indices: 808144--808295 Score: 170
Period size: 39 Copynumber: 4.1 Consensus size: 38
808134 GAAACCAAAA
* *
808144 TCGCATTGTGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
808182 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* **
808221 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
808254 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
808294 TC
1 TC
808296 AACCAAAAGA
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
33 14 0.15
34 13 0.14
36 2 0.02
37 2 0.02
38 20 0.21
39 27 0.28
40 18 0.19
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:808253 original size:33 final size:34
Alignment explanation
Indices: 808206--808270 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
808196 TTATTTCGCG
**
808206 GTTGCGATTTTCATTT-CGCGTTGCGATTCTCTC
1 GTTGCGATAGTCATTTCCGCGTTGCGATTCTCTC
808239 GTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 GTTGCGATAGTCATTTCCGCGTTGCGATTCTC
808271 ATTATCTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.48
34 15 0.52
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.42
Consensus pattern (34 bp):
GTTGCGATAGTCATTTCCGCGTTGCGATTCTCTC
Found at i:810356 original size:42 final size:42
Alignment explanation
Indices: 810296--810418 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
810286 GCCCGACTCG
* * *
810296 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
810338 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
810380 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
810419 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:810376 original size:21 final size:21
Alignment explanation
Indices: 810352--810418 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
810342 TCATTCCTCG
810352 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
810373 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
810394 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
810415 AGAG
1 AGAG
810419 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:811796 original size:14 final size:14
Alignment explanation
Indices: 811777--811812 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
811767 ATTGTTTAAT
811777 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
811791 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
811805 TGATTTGT
1 TGATTTGT
811813 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:812013 original size:19 final size:19
Alignment explanation
Indices: 811991--812141 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
811981 CGAAATTAAA
811991 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
812010 TTCGCATTGCG--TTTC--
1 TTCGCGTTGCGATTTTCAT
* *
812025 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
812043 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
812057 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
812076 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
812091 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
812109 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
812128 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
812142 GGATATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 27 0.28
16 7 0.07
17 7 0.07
19 44 0.46
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:812037 original size:33 final size:32
Alignment explanation
Indices: 811995--812121 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
811985 ATTAAATTCG
*
811995 CGTTGCGATTTTCATTTCGCATTGCGTTTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
812028 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
812061 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
812094 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
812122 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 80 0.94
35 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:812084 original size:66 final size:66
Alignment explanation
Indices: 811988--812120 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
811978 ACGCGAAATT
* *
811988 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGTTTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
812053 G
66 G
*
812054 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
812119 G
66 G
812120 A
1 A
812121 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:814430 original size:12 final size:12
Alignment explanation
Indices: 814413--814437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
814403 TCTTCGGGGA
814413 CTTTTTCTTCTT
1 CTTTTTCTTCTT
814425 CTTTTTCTTCTT
1 CTTTTTCTTCTT
814437 C
1 C
814438 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:814646 original size:24 final size:24
Alignment explanation
Indices: 814612--814665 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
814602 CTGAAACATC
* *
814612 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
814636 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
814660 ATCAAA
1 ATCAAA
814666 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Done.