Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_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: 1820295
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:656904 original size:51 final size:50
Alignment explanation
Indices: 656821--656929 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 50
656811 AGTAAAGTGT
* ** *
656821 GCCCCCTGCACCGCGTTATACGATGATTTGGCGCCACGTGGGGTATAGCAC
1 GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACAT-GGGTATAGCAC
*
656872 GCCCCCTGCACCGCGCTATACTG-TGAGCTGGCGCCACATGGGTATAGCGC
1 GCCCCCTGCACCGCGCTATAC-GATGAGCTGGCGCCACATGGGTATAGCAC
*
656922 GGCCCCTG
1 GCCCCCTG
656930 TAGCACGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 17 0.33
51 33 0.65
52 1 0.02
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (50 bp):
GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACATGGGTATAGCAC
Found at i:657041 original size:20 final size:20
Alignment explanation
Indices: 657016--657065 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
657006 ACCCTCACGT
657016 CCCCATCCTCCCTATAAATA
1 CCCCATCCTCCCTATAAATA
*
657036 CCCCATCCTCCCTATAAGTA
1 CCCCATCCTCCCTATAAATA
657056 CCCCATCCTC
1 CCCCATCCTC
657066 AATCACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (20 bp):
CCCCATCCTCCCTATAAATA
Found at i:657124 original size:12 final size:10
Alignment explanation
Indices: 657083--657123 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
657073 TTTATCACAC
657083 CAAATTCTCT
1 CAAATTCTCT
657093 CAAATTCTCT
1 CAAATTCTCT
657103 -AAATTTCTCT
1 CAAA-TTCTCT
*
657113 CAAATACTCT
1 CAAATTCTCT
657123 C
1 C
657124 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:657386 original size:110 final size:111
Alignment explanation
Indices: 657247--657454 Score: 373
Period size: 110 Copynumber: 1.9 Consensus size: 111
657237 TGGAAATCAT
*
657247 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
657312 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
*
657357 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
657422 TAATTAGTTGATTCATTTAATGCATGATTATTA
66 TAATTAGTTGATTCATTTAATGCATGATTATTA
657455 GATTTAGAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.76
111 22 0.24
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
Found at i:657966 original size:15 final size:15
Alignment explanation
Indices: 657928--657958 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
657918 CATGCATACT
657928 GAAGCTGATAGGAGG
1 GAAGCTGATAGGAGG
657943 GAAGCTGATAGGAGG
1 GAAGCTGATAGGAGG
657958 G
1 G
657959 TTGCTGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.48, T:0.13
Consensus pattern (15 bp):
GAAGCTGATAGGAGG
Found at i:660319 original size:50 final size:51
Alignment explanation
Indices: 660244--660371 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 51
660234 CCCTACGTGG
* **
660244 CGTATAGCGCGCTGCAGGGGCCGCGCTATACCC-ACGTGGCGCCAGCTCAC
1 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
*
660294 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAT
1 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
* *
660345 CATATAGCGCGGTGCAGGGGGCGCGCT
1 CGTATAGCGCGCTGCAGGGGGCGCGCT
660372 TTATTGCTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 32 0.45
51 39 0.55
ACGTcount: A:0.17, C:0.33, G:0.34, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
Found at i:662147 original size:51 final size:50
Alignment explanation
Indices: 662060--662168 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 50
662050 AGTAAAGTGT
* ** *
662060 GCCCCCTGCACCGCGTTATACGATGATTTGGTGCCACGTGGGGTATAGCAC
1 GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGT-GGGTATAGCAC
*
662111 GCCCCCTGCACCGCGCTATACTG-TGAGCTGGCGCCACGTGGGTATAGCGC
1 GCCCCCTGCACCGCGCTATAC-GATGAGCTGGCGCCACGTGGGTATAGCAC
*
662161 GGCCCCTG
1 GCCCCCTG
662169 TAGCACGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 17 0.33
51 33 0.65
52 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.31, T:0.20
Consensus pattern (50 bp):
GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGTATAGCAC
Found at i:662280 original size:20 final size:20
Alignment explanation
Indices: 662255--662304 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
662245 ACCCTCACGT
662255 CCCCATCCTCCCTATAAATA
1 CCCCATCCTCCCTATAAATA
*
662275 CCCCATCCTCCCTATAAGTA
1 CCCCATCCTCCCTATAAATA
662295 CCCCATCCTC
1 CCCCATCCTC
662305 AATCACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (20 bp):
CCCCATCCTCCCTATAAATA
Found at i:662363 original size:12 final size:10
Alignment explanation
Indices: 662322--662362 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
662312 TTTATCACAC
662322 CAAATTCTCT
1 CAAATTCTCT
662332 CAAATTCTCT
1 CAAATTCTCT
662342 -AAATTTCTCT
1 CAAA-TTCTCT
*
662352 CAAATACTCT
1 CAAATTCTCT
662362 C
1 C
662363 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:662625 original size:110 final size:111
Alignment explanation
Indices: 662486--662693 Score: 373
Period size: 110 Copynumber: 1.9 Consensus size: 111
662476 TGGAAATCAT
*
662486 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
662551 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
*
662596 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
662661 TAATTAGTTGATTCATTTAATGCATGATTATTA
66 TAATTAGTTGATTCATTTAATGCATGATTATTA
662694 GATTTAGAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.76
111 22 0.24
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTATATTAATAATTAA
Found at i:663205 original size:15 final size:15
Alignment explanation
Indices: 663167--663197 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
663157 CATGCATACT
663167 GAAGCTGATAGGAGG
1 GAAGCTGATAGGAGG
663182 GAAGCTGATAGGAGG
1 GAAGCTGATAGGAGG
663197 G
1 G
663198 TTGCTGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.48, T:0.13
Consensus pattern (15 bp):
GAAGCTGATAGGAGG
Found at i:665558 original size:50 final size:51
Alignment explanation
Indices: 665483--665610 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 51
665473 CCCTACGTGG
* **
665483 CGTATAGCGCGCTGCAGGGGCCGCGCTATACCC-ACGTGGCGCCAGCTCAC
1 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
*
665533 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAT
1 CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
* *
665584 CATATAGCGCGGTGCAGGGGGCGCGCT
1 CGTATAGCGCGCTGCAGGGGGCGCGCT
665611 TTATTGCTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 32 0.45
51 39 0.55
ACGTcount: A:0.17, C:0.33, G:0.34, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGCTGCAGGGGGCGCGCTATACCCTACGTGGCGCCAAATCAC
Found at i:680139 original size:20 final size:20
Alignment explanation
Indices: 680114--680153 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
680104 TTTTTTAAAA
680114 TATTAAAATAATT-TATTTAT
1 TATTAAAAT-ATTATATTTAT
680134 TATTAAAATATTATATTTAT
1 TATTAAAATATTATATTTAT
680154 AATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAAAATATTATATTTAT
Found at i:680204 original size:33 final size:30
Alignment explanation
Indices: 680129--680208 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 30
680119 AAATAATTTA
*
680129 TTTATT-ATTAAAATATT-ATATTTATAAT
1 TTTATTAATAAAAATATTAATATTTATAAT
680157 TTTATTAATAAAAATATTAATATTGGTAT-AT
1 TTTATTAATAAAAATATTAATATT--TATAAT
680188 TTTATTGAAATAAAAATATTA
1 TTTATT--AATAAAAATATTA
680209 TAAATTATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 6 0.13
29 10 0.22
30 5 0.11
31 8 0.18
32 3 0.07
33 13 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTATTAATAAAAATATTAATATTTATAAT
Found at i:680299 original size:23 final size:23
Alignment explanation
Indices: 680250--680300 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
680240 GTGTTATATT
**
680250 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
680273 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
680296 ATATT
1 ATATT
680301 ATTAGATCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:680531 original size:21 final size:23
Alignment explanation
Indices: 680500--680554 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
680490 ATAATATTAC
*
680500 ATTATTATAAATA-TTAATAAAT
1 ATTATTTTAAATATTTAATAAAT
*
680522 A-TATTTTAAATATTTTAATAATT
1 ATTATTTTAAATA-TTTAATAAAT
680545 ATTATTTTAA
1 ATTATTTTAA
680555 TTAAAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 1 0.04
23 9 0.32
24 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATTTTAAATATTTAATAAAT
Found at i:687920 original size:18 final size:20
Alignment explanation
Indices: 687880--687928 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
687870 GCCACCAGAT
687880 ATTTACAAAAGAAAAATTAAA
1 ATTTA-AAAAGAAAAATTAAA
687901 ATTTAAAAA-AAAAATT-AA
1 ATTTAAAAAGAAAAATTAAA
687919 ATTATAAAAA
1 ATT-TAAAAA
687929 TTATTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 4 0.15
21 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
ATTTAAAAAGAAAAATTAAA
Found at i:696559 original size:45 final size:44
Alignment explanation
Indices: 696462--696563 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 44
696452 CACATTCAAT
* * *
696462 GTGTATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTA
1 GTGTATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTA
* * ** *
696506 GTGCATCGATGCACCCCCTTAAA-ATGAAAACATCGAAGGTGATTG
1 GTGTATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAATTA
696551 GTGTATCGATGCA
1 GTGTATCGATGCA
696564 TGGGTAGTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 14 0.30
45 33 0.70
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (44 bp):
GTGTATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTA
Found at i:703855 original size:32 final size:33
Alignment explanation
Indices: 703819--703883 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
703809 TTAGAAAATT
703819 CATCACATTTTCAAAAATAATTC-AAATGAGAA
1 CATCACATTTTCAAAAATAATTCAAAATGAGAA
703851 CATCACATTTTCAAAAATAATTCAAAATGAGAA
1 CATCACATTTTCAAAAATAATTCAAAATGAGAA
703884 AGGTTACTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (33 bp):
CATCACATTTTCAAAAATAATTCAAAATGAGAA
Found at i:711130 original size:23 final size:25
Alignment explanation
Indices: 711099--711148 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
711089 CGGGACATAC
*
711099 AGTGATCCTTCG-GA-ATATTTCAT
1 AGTGATCCTTCGAGACAAATTTCAT
*
711122 AGTGGTCCTTCGAGACAAATTTCAT
1 AGTGATCCTTCGAGACAAATTTCAT
711147 AG
1 AG
711149 CCCCTAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 2 0.09
25 10 0.43
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (25 bp):
AGTGATCCTTCGAGACAAATTTCAT
Found at i:725023 original size:25 final size:25
Alignment explanation
Indices: 724974--725023 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
724964 TTTTCTAGCC
*
724974 ATTATAGTTTATGCAAGTGACGTCA
1 ATTATAGTTTATGCAAGTAACGTCA
*
724999 ATTATAGTTTATGCAAGTAATGTCA
1 ATTATAGTTTATGCAAGTAACGTCA
725024 CACATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (25 bp):
ATTATAGTTTATGCAAGTAACGTCA
Found at i:725149 original size:16 final size:16
Alignment explanation
Indices: 725130--725168 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
725120 AAAATATTAT
*
725130 AAAATTAAAACTGTCC
1 AAAATCAAAACTGTCC
*
725146 AAAATCAAAACTGTCT
1 AAAATCAAAACTGTCC
725162 AAAATCA
1 AAAATCA
725169 GTCCACAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATCAAAACTGTCC
Found at i:728250 original size:34 final size:35
Alignment explanation
Indices: 728205--728271 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
728195 AATAGGAATT
*
728205 ACAACTTCTCTCG-GTCTAAAAAAGAGAAAACAATA
1 ACAACTTCTCTCGTG-ATAAAAAAGAGAAAACAATA
*
728240 ACAA-TTCTCTCTTGATAAAAAAGAGAAAACAA
1 ACAACTTCTCTCGTGATAAAAAAGAGAAAACAA
728272 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (35 bp):
ACAACTTCTCTCGTGATAAAAAAGAGAAAACAATA
Found at i:730731 original size:73 final size:73
Alignment explanation
Indices: 730612--730757 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
730602 GGTATATGAT
730612 TACCCACCTGAGAAATTAAGCGTCTATTTATCAGACGACGGGGGATCGGATTTAACGTTTTATGC
1 TACCCACCTGAGAAATTAAGCGTCTATTTATCAGACGACGGGGGATCGGATTTAACGTTTTATGC
730677 CATGTTAG
66 CATGTTAG
730685 TACCCACCTGAGAAATTAAGCGTCTATTTATCAGACGACGGGGGATCGGATTTAACGTTTTATGC
1 TACCCACCTGAGAAATTAAGCGTCTATTTATCAGACGACGGGGGATCGGATTTAACGTTTTATGC
730750 CATGTTAG
66 CATGTTAG
730758 AGGCTGCGAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (73 bp):
TACCCACCTGAGAAATTAAGCGTCTATTTATCAGACGACGGGGGATCGGATTTAACGTTTTATGC
CATGTTAG
Found at i:736654 original size:24 final size:24
Alignment explanation
Indices: 736627--736711 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
736617 TTCTATTATA
* *
736627 ATACCTGACTTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
*
736651 ATACTTGACCTGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* *
736675 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
736699 ATACTTGACCTGG
1 ATACTTGACCTGG
736712 GTTATGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:744722 original size:3 final size:3
Alignment explanation
Indices: 744716--744757 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
744706 TTTTTTAATT
744716 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
744758 ATACAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:748429 original size:31 final size:32
Alignment explanation
Indices: 748393--748454 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
748383 ATTTTACATG
748393 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
748424 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
748455 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:750496 original size:14 final size:14
Alignment explanation
Indices: 750477--750518 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
750467 GAGAAAAGAA
750477 AAACAAAGAGAAAG
1 AAACAAAGAGAAAG
*
750491 AAACAAAGTGAAA-
1 AAACAAAGAGAAAG
*
750504 AAAAAGAAGAGAAAG
1 AAACA-AAGAGAAAG
750519 TGGACAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.02
Consensus pattern (14 bp):
AAACAAAGAGAAAG
Found at i:751698 original size:4 final size:4
Alignment explanation
Indices: 751689--751770 Score: 141
Period size: 4 Copynumber: 21.0 Consensus size: 4
751679 ATACGTCAAC
751689 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
751737 ACAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
751771 GATACATAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
4 72 0.97
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:752358 original size:156 final size:157
Alignment explanation
Indices: 752162--752456 Score: 434
Period size: 156 Copynumber: 1.9 Consensus size: 157
752152 AATTTCTTTC
* * * *
752162 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
* * * *
752227 TT-AAACAAAGTTGATCTCA-TTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCGCTTGA
65 TTAAAACAAAATTAATCTCACCTT-AGATCGTTATTTATTTCAAAACAAATTTCGTCTCACTTGA
752289 GACATTTTTCCACAAATTTTGAGAATTTT
129 GACATTTTTCCACAAATTTTGAGAATTTT
*
752318 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
* * * *
752383 TAAAACAAAATTAATCTCACCTTAGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGA
66 TAAAACAAAATTAATCTCACCTTAGATCGTTATTTATTTCAAAACAAATTTCGTCTCACTTGAGA
752448 CATTTTTCC
131 CATTTTTCC
752457 TTTGAGATCC
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
155 2 0.02
156 79 0.64
157 42 0.34
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (157 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
TAAAACAAAATTAATCTCACCTTAGATCGTTATTTATTTCAAAACAAATTTCGTCTCACTTGAGA
CATTTTTCCACAAATTTTGAGAATTTT
Found at i:752505 original size:105 final size:104
Alignment explanation
Indices: 752313--752560 Score: 338
Period size: 105 Copynumber: 2.4 Consensus size: 104
752303 AATTTTGAGA
* * *
752313 ATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* *
752378 TCACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTT
66 TCACTTAAAACAAAATTAATCTCA-CTTGAGATCG-TATTT
* ** * *
752418 CTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* * *
752483 TCACATT-AAACAAAGTTGATCTCATTTGAGATCGTATTT
66 TCAC-TTAAAACAAAATTAATCTCACTTGAGATCGTATTT
752522 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
752561 ACAAATTTTG
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 42 0.34
105 81 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (104 bp):
ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
TCACTTAAAACAAAATTAATCTCACTTGAGATCGTATTT
Found at i:752618 original size:261 final size:261
Alignment explanation
Indices: 752154--753854 Score: 3261
Period size: 261 Copynumber: 6.5 Consensus size: 261
752144 CTTGAGACAA
*
752154 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
752219 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
752284 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
752349 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
752414 G
261 G
752415 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
752480 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
752545 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
752610 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
752675 G
261 G
752676 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
752741 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
752806 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
752871 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
752936 G
261 G
752937 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
753002 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
753067 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
753132 TCCTTTGAGATACAAATTTTGAATTTGATTCACTT-AAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
753196 G
261 G
753197 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
753262 GTTTCACATTAAACAAAGTTGATCTCA-TTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
*
753326 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCATCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
753391 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
753456 G
261 G
753457 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
753522 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
753587 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
753652 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
753717 G
261 G
** * *
753718 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
* * *
753783 GTTGCACATTAAACAAAGTTGATCTCACTTGAGATCG--TTT-TCTCAAAAACAAACTTT-GTCT
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTC-AAAACAAA-TTTCGTCT
753844 CGCTTGAGACA
129 CGCTTGAGACA
753855 ATTTCTCTAA
Statistics
Matches: 1426, Mismatches: 10, Indels: 10
0.99 0.01 0.01
Matches are distributed among these distances:
258 3 0.00
259 162 0.11
260 247 0.17
261 1014 0.71
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (261 bp):
TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
G
Found at i:752733 original size:156 final size:156
Alignment explanation
Indices: 752423--752717 Score: 387
Period size: 156 Copynumber: 1.9 Consensus size: 156
752413 TGTTTCTTTC
* * * *
752423 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
752488 TTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
66 TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
** **
752553 ATTTTTCCACAAATTTTGAGAATTTT
131 ATTTTTCCACAAAGATCCAGAATTTT
* *
752579 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
752643 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCATTTGA
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCACTTGA
752707 GACATTTTTCC
128 GACATTTTTCC
752718 TTTGAGATCC
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
155 2 0.02
156 78 0.64
157 42 0.34
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (156 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
ATTTTTCCACAAAGATCCAGAATTTT
Found at i:752766 original size:105 final size:104
Alignment explanation
Indices: 752574--752821 Score: 338
Period size: 105 Copynumber: 2.4 Consensus size: 104
752564 AATTTTGAGA
* * *
752574 ATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* *
752639 TCACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTT
66 TCACTTAAAACAAAATTAATCTCA-CTTGAGATCG-TATTT
* ** * *
752679 CTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* * *
752744 TCACATT-AAACAAAGTTGATCTCATTTGAGATCGTATTT
66 TCAC-TTAAAACAAAATTAATCTCACTTGAGATCGTATTT
752783 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
752822 ACAAATTTTG
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 42 0.34
105 81 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (104 bp):
ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
TCACTTAAAACAAAATTAATCTCACTTGAGATCGTATTT
Found at i:752994 original size:156 final size:156
Alignment explanation
Indices: 752684--752978 Score: 387
Period size: 156 Copynumber: 1.9 Consensus size: 156
752674 TGTTTCTTTC
* * * *
752684 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
752749 TTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
66 TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
** **
752814 ATTTTTCCACAAATTTTGAGAATTTT
131 ATTTTTCCACAAAGATCCAGAATTTT
* *
752840 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
752904 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCATTTGA
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCACTTGA
752968 GACATTTTTCC
128 GACATTTTTCC
752979 TTTGAGATCC
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
155 2 0.02
156 78 0.64
157 42 0.34
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (156 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
ATTTTTCCACAAAGATCCAGAATTTT
Found at i:753027 original size:105 final size:104
Alignment explanation
Indices: 752835--753082 Score: 338
Period size: 105 Copynumber: 2.4 Consensus size: 104
752825 AATTTTGAGA
* * *
752835 ATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* *
752900 TCACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTT
66 TCACTTAAAACAAAATTAATCTCA-CTTGAGATCG-TATTT
* ** * *
752940 CTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* * *
753005 TCACATT-AAACAAAGTTGATCTCATTTGAGATCGTATTT
66 TCAC-TTAAAACAAAATTAATCTCACTTGAGATCGTATTT
753044 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
753083 ACAAATTTTG
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 42 0.34
105 81 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (104 bp):
ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
TCACTTAAAACAAAATTAATCTCACTTGAGATCGTATTT
Found at i:753229 original size:156 final size:156
Alignment explanation
Indices: 752945--753238 Score: 430
Period size: 156 Copynumber: 1.9 Consensus size: 156
752935 TGTTTCTTTC
* * * *
752945 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
753010 TTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
66 TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
753075 ATTTTTCCACAAATTTTGAGAATTTT
131 ATTTTTCCACAAATTTTGAGAATTTT
* *
753101 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
753165 TTAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCATTTGAG
66 TTAAACAAAATTAATCTCA-CTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCACTTGAG
753229 ACATTTTTCC
129 ACATTTTTCC
753239 TTTGAGATCC
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
155 22 0.18
156 100 0.82
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (156 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCACTTGAGAC
ATTTTTCCACAAATTTTGAGAATTTT
Found at i:753547 original size:105 final size:104
Alignment explanation
Indices: 753355--753602 Score: 329
Period size: 105 Copynumber: 2.4 Consensus size: 104
753345 AATTTTGAGA
* * * *
753355 ATTTTAAAACAAATTGCATCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* *
753420 TCACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTT
66 TCACTTAAAACAAAATTAATCTCA-CTTGAGATCG-TATTT
* ** * *
753460 CTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTT
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
* * *
753525 TCACATT-AAACAAAGTTGATCTCATTTGAGATCGTATTT
66 TCAC-TTAAAACAAAATTAATCTCACTTGAGATCGTATTT
753564 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
1 ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC
753603 ACAAATTTTG
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
104 42 0.34
105 80 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (104 bp):
ATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
TCACTTAAAACAAAATTAATCTCACTTGAGATCGTATTT
Found at i:753658 original size:781 final size:783
Alignment explanation
Indices: 752154--753854 Score: 3261
Period size: 781 Copynumber: 2.2 Consensus size: 783
752144 CTTGAGACAA
*
752154 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
752219 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
752284 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
752349 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
752414 GTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATT
261 GTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATT
752479 TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTC
326 TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTC
*
752544 GCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTT
391 GCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCATCTCGCTTGAGACATTT
752609 TTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGT
456 TTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGT
752674 TGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAAT
521 TGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAAT
752739 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCT
586 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCT
752804 CGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATT
651 CGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATT
752869 TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTG
716 TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTG
752934 TTG
781 TTG
752937 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
753002 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
753067 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
131 CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
753132 TCCTTTGAGATACAAATTTTGAATTTGATTCACTT-AAACAAAATTAATCTCACCTTAGATTGTT
196 TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
753196 GTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATT
261 GTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATT
753261 TGTTTCACATTAAACAAAGTTGATCTCA-TTGAGATCGTATTTATTTCAAAACAAATTTCGTCTC
326 TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTC
753325 GCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCATCTCGCTTGAGACATTT
391 GCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCATCTCGCTTGAGACATTT
753390 TTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGT
456 TTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGT
753455 TGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAAT
521 TGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAAT
753520 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCT
586 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCT
753585 CGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATT
651 CGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATT
753650 TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTG
716 TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTG
753715 TTG
781 TTG
** * *
753718 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
* * *
753783 GTTGCACATTAAACAAAGTTGATCTCACTTGAGATCG--TTT-TCTCAAAAACAAACTTT-GTCT
66 GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTC-AAAACAAA-TTTCGTCT
753844 CGCTTGAGACA
129 CGCTTGAGACA
753855 ATTTCTCTAA
Statistics
Matches: 907, Mismatches: 9, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
778 3 0.00
779 26 0.03
780 3 0.00
781 524 0.58
782 122 0.13
783 229 0.25
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (783 bp):
TTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTT
GTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCG
CTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATTTT
TCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGTT
GTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATT
TGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTC
GCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCATCTCGCTTGAGACATTT
TTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTGT
TGTTTCTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAAT
TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCT
CGCTTGAGACATTTTTCCACAAATTTTGAGAATTTTAAAACAAATTGCGTCTCGCTTGAGACATT
TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTTAGATTG
TTG
Found at i:753757 original size:156 final size:156
Alignment explanation
Indices: 753465--753758 Score: 423
Period size: 156 Copynumber: 1.9 Consensus size: 156
753455 TGTTTCTTTC
* * * *
753465 AAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
753530 TTAAACAAAGTTGATCTCATTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
66 TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
*
753595 ATTTTTCCACAAATTTTGAGAATTTT
131 ACTTTTCCACAAATTTTGAGAATTTT
* *
753621 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
753685 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGA
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-TATTTATTTCAAAACAAATTTCGTCTCGCTTGA
753749 GAC-CTTTTCC
128 GACACTTTTCC
753759 CTTTGAGATC
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
155 2 0.02
156 84 0.69
157 36 0.30
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (156 bp):
AAAACAAATTGCGTCTCACTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGAC
ACTTTTCCACAAATTTTGAGAATTTT
Found at i:753762 original size:105 final size:102
Alignment explanation
Indices: 753621--753859 Score: 290
Period size: 105 Copynumber: 2.3 Consensus size: 102
753611 TGAGAATTTT
* * *
753621 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATT-CAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTG-TTGCAC
*
753685 -TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
65 ATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* *
753726 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTGCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGTTGCACA
* *
753791 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
753828 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
753860 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 6 0.05
105 76 0.64
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGTTGCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:753850 original size:36 final size:34
Alignment explanation
Indices: 753805--753923 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
753795 ACAAAGTTGA
*
753805 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
753841 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
753877 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
753911 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
753924 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:753911 original size:34 final size:36
Alignment explanation
Indices: 753823--753924 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
753813 GAGATCGTTT
* *
753823 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
753858 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
753894 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
753925 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:754233 original size:26 final size:27
Alignment explanation
Indices: 754170--754266 Score: 115
Period size: 27 Copynumber: 3.5 Consensus size: 27
754160 TCTTGAGACA
* *
754170 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGA-AAAAATCTTTGAGTCT
*
754198 GTTCCTTTTGAAAAAATCTTTGAGT-T
1 GTTTCTTTTGAAAAAATCTTTGAGTCT
754224 GTTTCTTTTGAAACAAATATCTTTGAGTCT
1 GTTTCTTTTG-AA-AAA-ATCTTTGAGTCT
*
754254 ATTTCTTTTGAAA
1 GTTTCTTTTGAAA
754267 CAAAGTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.17
27 15 0.25
28 13 0.22
29 12 0.20
30 10 0.17
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (27 bp):
GTTTCTTTTGAAAAAATCTTTGAGTCT
Found at i:754261 original size:30 final size:29
Alignment explanation
Indices: 754184--754270 Score: 126
Period size: 30 Copynumber: 3.1 Consensus size: 29
754174 CTCTTGAGAT
*
754184 AAATCTTTGAGTCTGTTCCTTTTG-AA-A
1 AAATCTTTGAGTCTGTTTCTTTTGAAACA
754211 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTTCTTTTGAAACA
*
754239 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGTCTGTTTCTTTTGAAACA
754269 AA
1 AA
754271 GTTTTGTCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 10 0.19
27 14 0.26
28 3 0.06
29 10 0.19
30 17 0.31
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTTCTTTTGAAACA
Found at i:754333 original size:52 final size:51
Alignment explanation
Indices: 754262--754363 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
754252 CTATTTCTTT
754262 TGAAACAAAGTTTTGTCTCTCTTAAGACAATTTTGTG-AAAAATCTTTGAGTC
1 TGAAACAAAG--TTGTCTCTCTTAAGACAATTTTGTGAAAAAATCTTTGAGTC
* *
754314 TGAAATAAAGTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG
1 TGAAACAAAGTTGTCTCTCTTAAGACAATTTTGTG-AAAAAATCTTTGAG
754364 ATTGTTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 24 0.52
52 22 0.48
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (51 bp):
TGAAACAAAGTTGTCTCTCTTAAGACAATTTTGTGAAAAAATCTTTGAGTC
Found at i:754376 original size:30 final size:29
Alignment explanation
Indices: 754342--754419 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
754332 CTTGAGACAA
754342 TTTTGTGAAAAAAATCTTTGAGAT-TGTTTC
1 TTTTG-GAAAAAAATCTTTGAG-TCTGTTTC
*
754372 TTTTGAAACAAAAATCTTTGAGTCTGTTTC
1 TTTTGGAA-AAAAATCTTTGAGTCTGTTTC
754402 -TTTGGAAACAAAAT-TTTG
1 TTTTGGAAA-AAAATCTTTG
754420 TCTCTCTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 14 0.33
30 24 0.56
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (29 bp):
TTTTGGAAAAAAATCTTTGAGTCTGTTTC
Found at i:754448 original size:37 final size:36
Alignment explanation
Indices: 754398--754523 Score: 106
Period size: 37 Copynumber: 3.6 Consensus size: 36
754388 TTTGAGTCTG
754398 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT-A
* **
754435 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G---
1 TTTCTTTGGAAAC-AAAAT-TTTGTCTCTCTTAAGATA
754465 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* * *
754501 TTTTCTTTTGAAAAAAAACTTTG
1 -TTTCTTTGGAAACAAAATTTTG
754524 AATCTGTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
28 4 0.06
29 5 0.07
30 14 0.20
31 1 0.01
33 1 0.01
34 1 0.01
36 1 0.01
37 33 0.48
38 5 0.07
39 4 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (36 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:754476 original size:67 final size:67
Alignment explanation
Indices: 754368--754534 Score: 302
Period size: 67 Copynumber: 2.5 Consensus size: 67
754358 TTTGAGATTG
754368 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
754433 AA
66 AA
754435 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
*
754500 AT
66 AA
*
754502 TTTCTTTTGAAA-AAAAA-CTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCT
754535 CTTAAAATGA
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
65 15 0.15
66 5 0.05
67 78 0.80
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:755442 original size:28 final size:28
Alignment explanation
Indices: 755392--755445 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
755382 TCAAAATCCA
* * *
755392 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTCTCCATTGAAACAC
*
755420 ATCTTTGAGTTGGTCTCCCTTGAAAC
1 ATCTTTGAGTTGGTCTCCATTGAAAC
755446 CATTATCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (28 bp):
ATCTTTGAGTTGGTCTCCATTGAAACAC
Found at i:755534 original size:39 final size:41
Alignment explanation
Indices: 755464--755575 Score: 131
Period size: 39 Copynumber: 2.7 Consensus size: 41
755454 CTAGAGATGG
* * * *
755464 CCAGTCGTCCTCATCACGTAGGAATCATGTCATCCCT-G-A
1 CCAGTCGTCCTCATCACGTAGGAACCGTGTCAACCATAGAA
*
755503 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-TCGTCCTCATCACGTAGGAACCGTGTCAACCATAG--AA
755546 CCAGTCGTCCTCATCACGTAGGAACCGTGT
1 CCAGTCGTCCTCATCACGTAGGAACCGTGT
755576 TATCGCCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 29 0.48
40 3 0.05
42 2 0.03
43 27 0.44
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (41 bp):
CCAGTCGTCCTCATCACGTAGGAACCGTGTCAACCATAGAA
Found at i:755563 original size:43 final size:43
Alignment explanation
Indices: 755464--755666 Score: 148
Period size: 43 Copynumber: 4.6 Consensus size: 43
755454 CTAGAGATGG
* * * *
755464 CCAGTCGTCCTCATCACGTAGGAATCATGTCATCCCT-G---A
1 CCAGTCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATAA
*
755503 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-TCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATAA
* * **
755546 CCAGTCGTCCTCATCACGTAGGAACCGTGTTATCGCCCTACCTAAAGATGG
1 CCAGTCGTCCTCATCACGTAGGAACCGTG---T----CAACC-ATAGATAA
* * * * *
755597 CCAGAAC-TCTTCATCACGTAGGAGCCGTGTCACCCCTAGATAA
1 CCAG-TCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATAA
755640 CCAGTCGTCCTCATCACGTAGGAACCG
1 CCAGTCGTCCTCATCACGTAGGAACCG
755667 AGTTATCACC
Statistics
Matches: 126, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
39 29 0.23
40 3 0.02
42 3 0.02
43 52 0.41
44 3 0.02
46 1 0.01
48 1 0.01
50 4 0.03
51 29 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (43 bp):
CCAGTCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATAA
Found at i:755664 original size:94 final size:94
Alignment explanation
Indices: 755500--755722 Score: 349
Period size: 94 Copynumber: 2.4 Consensus size: 94
755490 ATGTCATCCC
* *
755500 TGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCCTCATCACGT
1 TGACCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCCTCATCACGT
* *
755565 AGGAACCGTGTTATC-GCCCTACCTAAAGA
66 AGGAACCGAGTTATCACCCCT-CCTAAAGA
* * *
755594 TGGCCAGAACTCTTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGT
1 TGACCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCCTCATCACGT
755659 AGGAACCGAGTTATCACCCCTCCTAAAGA
66 AGGAACCGAGTTATCACCCCTCCTAAAGA
* *
755688 TGACCAGAACTCTTCATCACGTATGAGTCGTGTCA
1 TGACCAGAACTCTTCATCACGTAGGAGCCGTGTCA
755723 TACCCTGACC
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
94 114 0.97
95 4 0.03
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (94 bp):
TGACCAGAACTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCCTCATCACGT
AGGAACCGAGTTATCACCCCTCCTAAAGA
Found at i:755789 original size:43 final size:42
Alignment explanation
Indices: 755685--755804 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 42
755675 CCCCTCCTAA
*
755685 AGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATACCC
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCA-ACCC
*
755728 ---TGACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACCC
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCC
* *
755766 TTAGATGACCCGAACTCTTCATCACGTATGAGCAGTGTC
1 --AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTC
755805 GTTCCCAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
38 4 0.06
40 32 0.48
43 31 0.46
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (42 bp):
AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCC
Found at i:755980 original size:3 final size:3
Alignment explanation
Indices: 755974--756021 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
755964 TATTTTAATT
755974 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
756019 TTA
1 TTA
756022 ATACAAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:759115 original size:2 final size:2
Alignment explanation
Indices: 759108--759154 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
759098 CGGCCCGATA
759108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
759150 AT AT A
1 AT AT A
759155 ATAAATTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:760068 original size:2 final size:2
Alignment explanation
Indices: 760008--760051 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
759998 AATTACAACT
760008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
760049 TA T
1 TA T
760052 TTACACATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:762656 original size:2 final size:2
Alignment explanation
Indices: 762649--762673 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
762639 TTTATCCCAA
762649 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
762674 ATTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:762974 original size:19 final size:19
Alignment explanation
Indices: 762952--762988 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
762942 AAATTTGCTT
*
762952 AGATATAGGTACTTAAATC
1 AGATATAAGTACTTAAATC
762971 AGATATAAGTACTTAAAT
1 AGATATAAGTACTTAAAT
762989 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (19 bp):
AGATATAAGTACTTAAATC
Found at i:766085 original size:8 final size:8
Alignment explanation
Indices: 766072--766139 Score: 55
Period size: 8 Copynumber: 8.0 Consensus size: 8
766062 TTTTAAATTT
766072 AAAATATA
1 AAAATATA
766080 AAAATATTCA
1 AAAATA-T-A
* *
766090 AAAAAAAA
1 AAAATATA
766098 ATAAATATA
1 A-AAATATA
*
766107 AAAATATT
1 AAAATATA
*
766115 AAATTACTA
1 AAAATA-TA
*
766124 AAAATTTA
1 AAAATATA
766132 AAAATATA
1 AAAATATA
766140 TTATTATATT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 28 0.61
9 12 0.26
10 6 0.13
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATATA
Found at i:766907 original size:37 final size:37
Alignment explanation
Indices: 766857--766944 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
766847 TCAAATTTGA
766857 AATTTAAACTTCATGACTGTGATATCACTTTCCGAAC
1 AATTTAAACTTCATGACTGTGATATCACTTTCCGAAC
766894 AATTTAAACTTCATGACTGTGATATCACTTTCCGAAC
1 AATTTAAACTTCATGACTGTGATATCACTTTCCGAAC
766931 AATTTAAACTTCAT
1 AATTTAAACTTCAT
766945 TATATAATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (37 bp):
AATTTAAACTTCATGACTGTGATATCACTTTCCGAAC
Found at i:769100 original size:31 final size:32
Alignment explanation
Indices: 769055--769118 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
769045 AGTTGAGCTC
* * * *
769055 ATATTTTAA-TTTTTTGATTCAATTCAAGTTT
1 ATATTTAAACTTTTTTAATTCAAATCAAATTT
769086 ATATTTAAACTTTTTTAATTCAAATCAAATTT
1 ATATTTAAACTTTTTTAATTCAAATCAAATTT
769118 A
1 A
769119 ATAATACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (32 bp):
ATATTTAAACTTTTTTAATTCAAATCAAATTT
Found at i:780371 original size:13 final size:13
Alignment explanation
Indices: 780340--780389 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
780330 ACTGGGTCGA
780340 GTTGAGTCAACTC
1 GTTGAGTCAACTC
** *
780353 ACTGAGCCAACTC
1 GTTGAGTCAACTC
*
780366 GTTGAGTCAACCC
1 GTTGAGTCAACTC
780379 AGTTGAGTCAA
1 -GTTGAGTCAA
780390 ATCAAACAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (13 bp):
GTTGAGTCAACTC
Found at i:780453 original size:22 final size:22
Alignment explanation
Indices: 780428--780470 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
780418 TGACCGTTGA
* *
780428 CTTTGATCAGAGTTGACTTTGG
1 CTTTGACCACAGTTGACTTTGG
*
780450 CTTTGACCACTGTTGACTTTG
1 CTTTGACCACAGTTGACTTTG
780471 ACCAAAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (22 bp):
CTTTGACCACAGTTGACTTTGG
Found at i:780504 original size:18 final size:17
Alignment explanation
Indices: 780472--780505 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
780462 TTGACTTTGA
*
780472 CCAAAAAGTCAAATTTT
1 CCAAAAAGGCAAATTTT
780489 CCAAAAAGGCATAATTT
1 CCAAAAAGGCA-AATTT
780506 ATGTTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (17 bp):
CCAAAAAGGCAAATTTT
Found at i:781520 original size:35 final size:35
Alignment explanation
Indices: 781447--781521 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
781437 CGTCACGTCC
**
781447 AGTAAGGCCCTGAGCACACAACCGAAGAACCGGTA
1 AGTAAGGCCCTGAGCACACAACCGAAGAACCGCCA
* * *
781482 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAACCGAAGAACCGCCA
781517 AGTAA
1 AGTAA
781522 TCTTCCTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.29, G:0.25, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAACCGAAGAACCGCCA
Found at i:781630 original size:24 final size:23
Alignment explanation
Indices: 781602--781688 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
781592 ATTCAATTCA
781602 AGTATCATATCAGAATCCAGGTC
1 AGTATCATATCAGAATCCAGGTC
* **
781625 ATGTATCAGATCAGAATCCATATC
1 A-GTATCATATCAGAATCCAGGTC
* * * *
781649 AATATCAAATCAGAATCTAGGCC
1 AGTATCATATCAGAATCCAGGTC
*
781672 AGGTATCATAACAGAAT
1 A-GTATCATATCAGAAT
781689 TCAAATTTGA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 18 0.36
24 32 0.64
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (23 bp):
AGTATCATATCAGAATCCAGGTC
Found at i:787108 original size:154 final size:154
Alignment explanation
Indices: 786765--787114 Score: 396
Period size: 154 Copynumber: 2.3 Consensus size: 154
786755 TCGACTGACA
* * * * * *
786765 GATGAAACCTAAACTTTCAAGTCCACACCTTTTTTTTCCTTTTGAACGTAATTTCGACATCCGTT
1 GATGAAACCCAAACTTTCAA-TCCATACC-TTTTTTACCCTTTGAACGAAAATTCGACATCCGTT
* * * * *
786830 TCATTGGGAAACGCCTCAATCTCTCCAAACTTGCATCTACAGTTGTCGACTACCATCTGCCGTCC
64 TCACTCGAAAACGCCTCAATCTCTCCAAACCTGCATCTACAATTGTCGACTACCATCTGCCGTCC
*
786895 ATTATCAATCGCCGCATCCTTCGGCC
129 ATTATCAATCGCCGCATCCGTCGGCC
* * ** * **
786921 GATGAAACTCAAACTTTCCAGTCCATATATTTTTTACCCTTTGAAC-AAAATTCGACCTTTGTTT
1 GATGAAACCCAAACTTT-CAATCCATACCTTTTTTACCCTTTGAACGAAAATTCGACATCCGTTT
* * *
786985 CACTCGAAAATGCCTCAATCTCTCCAAACCTGCATCTACAATTGTCGACTACCATTTGTCGTCCA
65 CACTCGAAAACGCCTCAATCTCTCCAAACCTGCATCTACAATTGTCGACTACCATCTGCCGTCCA
* * * * **
787050 TTGTCGATCGCTGCATCCGTCTGTT
130 TTATCAATCGCCGCATCCGTCGGCC
*
787075 GATGAAACCCAAACTTTCTAATCCATACCTTTTTGACCCT
1 GATGAAACCCAAACTTTC-AATCCATACCTTTTTTACCCT
787115 CAGAACCTTT
Statistics
Matches: 159, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
153 1 0.01
154 121 0.76
155 15 0.09
156 20 0.13
157 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (154 bp):
GATGAAACCCAAACTTTCAATCCATACCTTTTTTACCCTTTGAACGAAAATTCGACATCCGTTTC
ACTCGAAAACGCCTCAATCTCTCCAAACCTGCATCTACAATTGTCGACTACCATCTGCCGTCCAT
TATCAATCGCCGCATCCGTCGGCC
Found at i:787816 original size:96 final size:96
Alignment explanation
Indices: 787652--787844 Score: 244
Period size: 96 Copynumber: 2.0 Consensus size: 96
787642 TTGCTGATTT
** * * * * *
787652 TTGTTTCCTTTTTTTCTTCAATTCTTCATTATCATCATTCTCAAGCTATTACCGACCATCACATA
1 TTGTTTCCTTTCGTTCTTCAACTCTACACTATCATCATTCTCAAGCTATTACCAACCATCACAAA
* *
787717 TACCAACCACCGGGAAGGTAAGTA-TTCTTTC
66 TACCAAACACCGAGAAGGTAAG-ACTTCTTTC
* ** **
787748 TTGTTTCCTTTCGTTCTTCAACTCTACACTATCATCATTCTCGAGCTATTGTCAACTGTCACAAA
1 TTGTTTCCTTTCGTTCTTCAACTCTACACTATCATCATTCTCAAGCTATTACCAACCATCACAAA
787813 TACCAAACACCGAGAAGGTAAGACTTCTTTC
66 TACCAAACACCGAGAAGGTAAGACTTCTTTC
787844 T
1 T
787845 CTCTTTTGAT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 81 0.99
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.37
Consensus pattern (96 bp):
TTGTTTCCTTTCGTTCTTCAACTCTACACTATCATCATTCTCAAGCTATTACCAACCATCACAAA
TACCAAACACCGAGAAGGTAAGACTTCTTTC
Found at i:787896 original size:14 final size:14
Alignment explanation
Indices: 787877--787906 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
787867 TTGTTATGAT
*
787877 TTTAGTTTGGTTAG
1 TTTAGTTTGATTAG
787891 TTTAGTTTGATTAG
1 TTTAGTTTGATTAG
787905 TT
1 TT
787907 GAATGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
TTTAGTTTGATTAG
Found at i:804528 original size:15 final size:15
Alignment explanation
Indices: 804504--804534 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
804494 CCTTAAGCTG
804504 CAATTACAACAACAA
1 CAATTACAACAACAA
*
804519 CAATTCCAACAACAA
1 CAATTACAACAACAA
804534 C
1 C
804535 TATGAGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (15 bp):
CAATTACAACAACAA
Found at i:815882 original size:3 final size:3
Alignment explanation
Indices: 815874--815924 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
815864 GAGCGCTAAA
815874 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
815922 ATT
1 ATT
815925 TGTAGCATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:824233 original size:35 final size:35
Alignment explanation
Indices: 824187--824265 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
824177 TTAACCGATT
* *
824187 AATTCAATTAAATAAAATTTTCAATATTTAGTTAAC
1 AATT-AATTAAATAAAATTTTCAATATTCAATTAAC
*
824223 AATTAATTAAATAAATTTTTCAATATTCAATTAAC
1 AATTAATTAAATAAAATTTTCAATATTCAATTAAC
824258 AATTAATT
1 AATTAATT
824266 CGATTCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (35 bp):
AATTAATTAAATAAAATTTTCAATATTCAATTAAC
Found at i:827625 original size:133 final size:135
Alignment explanation
Indices: 827448--827716 Score: 524
Period size: 133 Copynumber: 2.0 Consensus size: 135
827438 AGCCAAGAAC
827448 ACGTTTTTCCCTTCCAAAACACCCATTTTGGCAGGAAAAGGTGGCACCACTTCCATTTTAATAAT
1 ACGTTTTTCCCTTCCAAAACACCCATTTTGGCAGGAAAAGGTGGCACCACTTCCATTTTAATAAT
827513 AGTACTCTTGAGGCTGAACTCCTTCACCAG-TGCC-TATCATGATCGGCACAAGGCTGACCGTCC
66 AGTACTCTTGAGGCTGAACTCCTTCACCAGTTGCCTTATCATGATCGGCACAAGGCTGACCGTCC
827576 AAGGG
131 AAGGG
827581 ACGTTTTTCCCTTCCAAAACACCCATTTTGGCAGGAAAAGGTGGCACCACTTCCATTTTAATAAT
1 ACGTTTTTCCCTTCCAAAACACCCATTTTGGCAGGAAAAGGTGGCACCACTTCCATTTTAATAAT
827646 AGTACTCTTGAGGCTGAACTCCTTCACCAGTTGCCTTATCATGATCGGCACAAGGCTGACCGTCC
66 AGTACTCTTGAGGCTGAACTCCTTCACCAGTTGCCTTATCATGATCGGCACAAGGCTGACCGTCC
827711 AAGGG
131 AAGGG
827716 A
1 A
827717 GAATATATAG
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
133 95 0.71
134 4 0.03
135 35 0.26
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (135 bp):
ACGTTTTTCCCTTCCAAAACACCCATTTTGGCAGGAAAAGGTGGCACCACTTCCATTTTAATAAT
AGTACTCTTGAGGCTGAACTCCTTCACCAGTTGCCTTATCATGATCGGCACAAGGCTGACCGTCC
AAGGG
Found at i:827764 original size:45 final size:45
Alignment explanation
Indices: 827700--827789 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
827690 TCGGCACAAG
827700 GCTGACCGTCCAAGGGAGAATATATAGTATACCTCATATCTTTAA
1 GCTGACCGTCCAAGGGAGAATATATAGTATACCTCATATCTTTAA
827745 GCTGACCGTCCAAGGGAGAATATATAGTATACCTCATATCTTTAA
1 GCTGACCGTCCAAGGGAGAATATATAGTATACCTCATATCTTTAA
827790 CAATCTTACC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (45 bp):
GCTGACCGTCCAAGGGAGAATATATAGTATACCTCATATCTTTAA
Found at i:830656 original size:3 final size:3
Alignment explanation
Indices: 830586--830643 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
830576 TTCATTTGAA
* *
830586 TAT TAT T-T ATAT AAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
830631 TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TA
830644 ATAAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.92
4 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:830977 original size:55 final size:55
Alignment explanation
Indices: 830913--831022 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
830903 GTCAAAGTTT
830913 CTAGAAGAGCTCTTCCAGCCGCACACGTAGCTCAACAGTGAGTCACCACTAGAAG
1 CTAGAAGAGCTCTTCCAGCCGCACACGTAGCTCAACAGTGAGTCACCACTAGAAG
830968 CTAGAAGAGCTCTTCCAGCCGCACACGTAGCTCAACAGTGAGTCACCACTAGAAG
1 CTAGAAGAGCTCTTCCAGCCGCACACGTAGCTCAACAGTGAGTCACCACTAGAAG
831023 TCTGGTGACT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (55 bp):
CTAGAAGAGCTCTTCCAGCCGCACACGTAGCTCAACAGTGAGTCACCACTAGAAG
Found at i:831359 original size:25 final size:25
Alignment explanation
Indices: 831331--831406 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
831321 TTTCGACCAC
*
831331 CGGTGACGGTGGCCAGCGGCGAGAT
1 CGGTGACGGTGGCCGGCGGCGAGAT
*
831356 CGGTGACGGTGACCGGCGGCGAGAT
1 CGGTGACGGTGGCCGGCGGCGAGAT
** *
831381 CGACGACGGTGGCCGGCGACGAGAT
1 CGGTGACGGTGGCCGGCGGCGAGAT
831406 C
1 C
831407 AGCGATGGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.17, C:0.26, G:0.46, T:0.11
Consensus pattern (25 bp):
CGGTGACGGTGGCCGGCGGCGAGAT
Found at i:831416 original size:25 final size:24
Alignment explanation
Indices: 831335--831416 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 24
831325 GACCACCGGT
* *
831335 GACGGTGGCCAGCGGCGAGATCGGT
1 GACGGTGGCCGGCGGCGAGATC-GC
*
831360 GACGGTGACCGGCGGCGAGATCGAC
1 GACGGTGGCCGGCGGCGAGATCG-C
*
831385 GACGGTGGCCGGCGACGAGATCAGC
1 GACGGTGGCCGGCGGCGAGATC-GC
*
831410 GATGGTG
1 GACGGTG
831417 ATCGACGCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.46, T:0.11
Consensus pattern (24 bp):
GACGGTGGCCGGCGGCGAGATCGC
Found at i:832130 original size:20 final size:23
Alignment explanation
Indices: 832105--832150 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 23
832095 CTATTATTAT
832105 TATTATTTA-TA-TATAAATA-A
1 TATTATTTAGTATTATAAATATA
832125 TATTATTTAGTATTATAAATATA
1 TATTATTTAGTATTATAAATATA
832148 TAT
1 TAT
832151 AGAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 8 0.35
23 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTATTTAGTATTATAAATATA
Found at i:832313 original size:22 final size:24
Alignment explanation
Indices: 832279--832322 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
832269 CATTTTCTAA
832279 TATTTTTAAATAAA-TACATATCC
1 TATTTTTAAATAAATTACATATCC
*
832302 TATTTTT-TATAAATTACATAT
1 TATTTTTAAATAAATTACATAT
832323 TAATCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTTAAATAAATTACATATCC
Found at i:833010 original size:24 final size:24
Alignment explanation
Indices: 832951--833004 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
832941 TGTTTCTTTC
* *
832951 TTTTTAAAATTTTTATATGATTATTA
1 TTTTTATAATATTTATAT-A-TATTA
832977 TTTTTATAATATTTATATATATTA
1 TTTTTATAATATTTATATATATTA
833001 TTTT
1 TTTT
833005 ATTAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 9 0.35
25 1 0.04
26 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTTATAATATTTATATATATTA
Found at i:833023 original size:24 final size:23
Alignment explanation
Indices: 832970--833026 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
832960 TTTTTATATG
832970 ATTATTATTTTTATAATATTTAT
1 ATTATTATTTTTATAATATTTAT
*
832993 ATATATTA-TTTTATTAATGTTT-T
1 AT-TATTATTTTTA-TAATATTTAT
833016 A-TATTATTTTT
1 ATTATTATTTTT
833027 CATGTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.17
22 4 0.13
23 9 0.30
24 12 0.40
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTATTATTTTTATAATATTTAT
Found at i:843692 original size:17 final size:15
Alignment explanation
Indices: 843672--843778 Score: 88
Period size: 16 Copynumber: 6.6 Consensus size: 15
843662 ATGCTTGAAG
*
843672 AAAAAATGAAATAAAA
1 AAAAAAAGAAA-AAAA
*
843688 AAAAAGAGAAAAGAAA
1 AAAAAAAGAAAA-AAA
*
843704 AATGAAAAGAAAAAAA
1 AA-AAAAAGAAAAAAA
843720 AGAGAAAAAGAAAAAAAA
1 A-A-AAAAAG-AAAAAAA
843738 GAAAAAAAGAAAAAAA
1 -AAAAAAAGAAAAAAA
* *
843754 GAAAAAAGAAGAAAAT
1 AAAAAAAGAA-AAAAA
*
843770 ATAAAAAGA
1 AAAAAAAGA
843779 GGGTCAAGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
15 10 0.13
16 36 0.48
17 20 0.27
18 8 0.11
19 1 0.01
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAAAGAAAAAAA
Found at i:843698 original size:16 final size:15
Alignment explanation
Indices: 843679--843760 Score: 80
Period size: 14 Copynumber: 5.5 Consensus size: 15
843669 AAGAAAAAAT
843679 GAAATAAAAAAAAAGA
1 GAAA-AAAAAAAAAGA
* *
843695 G-AAAAGAAAAATGA
1 GAAAAAAAAAAAAGA
*
843709 -AAAGAAAAAAAAGA
1 GAAAAAAAAAAAAGA
843723 GAAAAAGAAAAAAA-A
1 GAAAAA-AAAAAAAGA
*
843738 GAAAAAAAGAAAAAAA
1 GAAAAAAA-AAAAAGA
843754 GAAAAAA
1 GAAAAAA
843761 GAAGAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
14 21 0.38
15 18 0.33
16 16 0.29
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (15 bp):
GAAAAAAAAAAAAGA
Found at i:843699 original size:8 final size:8
Alignment explanation
Indices: 843688--843763 Score: 58
Period size: 7 Copynumber: 10.2 Consensus size: 8
843678 TGAAATAAAA
843688 AAAAAGAG
1 AAAAAGAG
843696 -AAAAGA-
1 AAAAAGAG
*
843702 AAAATGA-
1 AAAAAGAG
843709 AAAGAA-A-
1 AAA-AAGAG
843716 AAAAAGAG
1 AAAAAGAG
843724 AAAAAGA-
1 AAAAAGAG
*
843731 AAAAAAAG
1 AAAAAGAG
*
843739 AAAAAAAG
1 AAAAAGAG
*
843747 AAAAAAAG
1 AAAAAGAG
843755 AAAAA-AG
1 AAAAAGAG
843762 AA
1 AA
843764 GAAAATATAA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
6 2 0.03
7 29 0.48
8 29 0.48
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (8 bp):
AAAAAGAG
Found at i:843706 original size:23 final size:23
Alignment explanation
Indices: 843684--843768 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
843674 AAAATGAAAT
843684 AAAAAAAAAG-AGAAAAGAAAAA
1 AAAAAAAAAGAAGAAAAGAAAAA
* *
843706 TGAAAAGAAAA-AA-AAGAGAAAAA
1 --AAAAAAAAAGAAGAAAAGAAAAA
* *
843729 GAAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAGAAGAAAAGAAAAA
*
843752 AAGAAAAAAGAAGAAAA
1 AAAAAAAAAGAAGAAAA
843769 TATAAAAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 7 0.14
22 2 0.04
23 32 0.64
24 9 0.18
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (23 bp):
AAAAAAAAAGAAGAAAAGAAAAA
Found at i:843708 original size:28 final size:27
Alignment explanation
Indices: 843673--843779 Score: 105
Period size: 28 Copynumber: 3.8 Consensus size: 27
843663 TGCTTGAAGA
843673 AAAAATGAAATAAAAAAAAAGAGAAAAG
1 AAAAATGAAA-AAAAAAAAAGAGAAAAG
843701 AAAAATGAAAAGAAAAAAAAGAGAAAAAG
1 AAAAATGAAAA-AAAAAAAAGAG-AAAAG
843730 AAAAA--AAAGAAAAAAAGAA-A-AAAAG
1 AAAAATGAAA-AAAAAAA-AAGAGAAAAG
*
843755 AAAAAAGAAGAAAATATAAAAAGAG
1 AAAAATGAA-AAAA-A-AAAAAGAG
843780 GGTCAAGATG
Statistics
Matches: 68, Mismatches: 0, Indels: 20
0.77 0.00 0.23
Matches are distributed among these distances:
25 10 0.15
27 16 0.24
28 28 0.41
29 14 0.21
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (27 bp):
AAAAATGAAAAAAAAAAAAGAGAAAAG
Found at i:843711 original size:6 final size:5
Alignment explanation
Indices: 843694--843768 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
843684 AAAAAAAAAG
*
843694 AGAAA AGAAAA ATGAAA AGAAA AAAAA GAGAAAA AGAAA A-AAA AGAAA
1 AGAAA AG-AAA A-GAAA AGAAA AGAAA -AG-AAA AGAAA AGAAA AGAAA
* *
843742 AAAAGA AAAAA AGAAA A-AAGA AGAAA A
1 AGAA-A AGAAA AGAAA AGAA-A AGAAA A
843769 TATAAAAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
4 6 0.10
5 30 0.52
6 18 0.31
7 4 0.07
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (5 bp):
AGAAA
Found at i:843775 original size:23 final size:22
Alignment explanation
Indices: 843680--843778 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
843670 AGAAAAAATG
*
843680 AAATAAAAA-AAAAGAGAAAAGAA
1 AAATAAAAAGAAAA-A-AGAAGAA
* *
843703 AAATGAAAAGAAAAAA-AAGAG
1 AAATAAAAAGAAAAAAGAAGAA
* *
843724 AAA-AAGAA-AAAAAAGAAAAA
1 AAATAAAAAGAAAAAAGAAGAA
*
843744 AAGAAAAAAAGAAAAAAGAAGAA
1 AA-ATAAAAAGAAAAAAGAAGAA
843767 AATATAAAAAGA
1 AA-ATAAAAAGA
843779 GGGTCAAGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
19 6 0.10
20 8 0.13
21 8 0.13
22 5 0.08
23 30 0.49
24 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (22 bp):
AAATAAAAAGAAAAAAGAAGAA
Found at i:844149 original size:18 final size:20
Alignment explanation
Indices: 844116--844156 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
844106 TTATTCCAAG
844116 TTTATCTTTTTGAAATTCAA
1 TTTATCTTTTTGAAATTCAA
844136 TTTAT-TTTTT-AAATTCAA
1 TTTATCTTTTTGAAATTCAA
844154 TTT
1 TTT
844157 GTTTCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
19 5 0.24
20 5 0.24
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATCTTTTTGAAATTCAA
Found at i:845768 original size:124 final size:124
Alignment explanation
Indices: 845433--846340 Score: 1532
Period size: 124 Copynumber: 7.4 Consensus size: 124
845423 CATTTGATGG
* *
845433 ATCAACTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
845497 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAAATAGATCAAT
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
*
845556 ATCAATTTTTCCAGAGAAAGTTC---ATGAG-AG-A---ATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
845613 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAAC
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
*
845672 ATCAATTTTTCCAGAGAAAGTTCTTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
845737 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
*
845796 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
845861 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
* *
845920 ATCAATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
845985 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAAC
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
846044 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
846109 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
846168 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
846233 AATGAGAAGAGCTTGTTCAACCTTTTGCATGATTCTATCACAGAATGAGATAGATTAGT
66 AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
** *
846292 ATCAACATTTTT-CAGA-AGTGTTCATAATAAGAAGAACTCATCTGAAGAA
1 ATC-A-ATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
846341 TAAGGAGCAA
Statistics
Matches: 746, Mismatches: 28, Indels: 21
0.94 0.04 0.03
Matches are distributed among these distances:
116 102 0.14
119 6 0.01
120 4 0.01
121 6 0.01
123 15 0.02
124 602 0.81
125 5 0.01
126 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (124 bp):
ATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAT
Found at i:845962 original size:248 final size:248
Alignment explanation
Indices: 845330--846340 Score: 1557
Period size: 248 Copynumber: 4.2 Consensus size: 248
845320 ATTACCATTG
* * *
845330 CCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAG
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG-AAGTTCATAATGAGAAG
* * ** *** *
845394 AACTTGTTCAACCTTTTGC-TCA-AAT-TCATC---ATTTGATGGATC-A-A-C---TTTTCCAG
65 AGCTTGTTCAACCTTTTGCATGACTCTATCA-CAGAAGGAGATAGATCAACATCAATTTTTCCAG
*
845447 AG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAGCTT
129 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
* *
845511 GTTCAACCTTTTGCATGACTCTATCATAGAAGGAAATAGATCAATATCAATTTTT
194 GTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTT
845566 CCAGAGAAAGTTC---ATGAG-AG-A---ATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
*
845623 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAACATCAATTTTTCCAGAG
66 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
*
845688 AAAGTTCTTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
845753 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTT
196 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTT
845806 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
* *
845871 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTTCAGAG
66 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
*
845936 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAGCTTGT
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
* *
846001 TCAACCTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATCAATTTTT
196 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTT
*
846054 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
846119 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
66 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
846184 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
131 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
* * * *
846249 TCAACCTTTTGCATGATTCTATCACAGAATGAGATAGATTAGTATCAACATTTTT
196 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATC-A-ATTTTT
** *
846304 -CAGA-AGTGTTCATAATAAGAAGAACTCATCTGAAGAA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
846341 TAAGGAGCAA
Statistics
Matches: 717, Mismatches: 34, Indels: 36
0.91 0.04 0.05
Matches are distributed among these distances:
228 49 0.07
229 4 0.01
230 2 0.00
231 4 0.01
232 2 0.00
233 12 0.02
234 1 0.00
235 1 0.00
236 14 0.02
239 10 0.01
240 126 0.18
243 5 0.01
244 2 0.00
245 1 0.00
248 473 0.66
249 5 0.01
250 6 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (248 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTT
Found at i:846126 original size:372 final size:371
Alignment explanation
Indices: 845330--846340 Score: 1571
Period size: 372 Copynumber: 2.8 Consensus size: 371
845320 ATTACCATTG
* *
845330 CCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAG
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAG
* * ** *** *
845394 AACTTGTTCAACCTTTTGC-TCA-AAT-TCATC---ATTTGATGGATC-AA-C---TTTTCCAGA
65 AGCTTGTTCAACCTTTTGCATGACTCTATCA-CAGAAGGAGATAGATCAAATCAATTTTTCCAGA
*
845448 G-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTG
129 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTG
* * *
845512 TTCAACCTTTTGCATGACTCTATCATAGAAGGAAATAGATCAATATCAATTTTTCCAGAGAAAGT
194 TTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTTCAGAGAAAGT
845577 TC---ATGAG-AG-A---ATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
259 TCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
* *
845634 CTTTTGCATGACTCTATCACAGAAGGAGATATATCAACATCAATTTTT
324 CTTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATCAATTTTT
*
845682 CCAGAGAAAGTTCTTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
845747 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTCCAGAG
66 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA-ATCAATTTTTCCAGAG
*
845812 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
130 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
845877 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTTCAGAGAAAGTT
195 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTTCAGAGAAAGTT
* *
845942 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAGCTTGTTCAACC
260 CATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC
846007 TTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATCAATTTTT
325 TTTTGCATGACTCTATCACAGAAGAAGATAGATCAACATCAATTTTT
846054 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
846119 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATCAATTTTTCCAGAG
66 GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAA-ATCAATTTTTCCAGAG
846184 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
130 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
* * * * * **
846249 TCAACCTTTTGCATGATTCTATCACAGAATGAGATAGATTAGTATCAACATTTTTCAGA-AGTGT
195 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAA-TTTTTTCAGAGAAAGT
*
846313 TCATAATAAGAAGAACTCATCTGAAGAA
259 TCATAATGAGAAGAACTCATCTGAAGAA
846341 TAAGGAGCAA
Statistics
Matches: 605, Mismatches: 31, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
352 76 0.13
353 4 0.01
354 2 0.00
355 3 0.00
357 8 0.01
358 1 0.00
359 1 0.00
360 1 0.00
363 10 0.02
364 125 0.21
367 5 0.01
368 2 0.00
369 1 0.00
372 357 0.59
373 9 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (371 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
GCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAAATCAATTTTTCCAGAGA
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
CAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAATATCAATTTTTTCAGAGAAAGTTC
ATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
TTTGCATGACTCTATCACAGAAGAAGATAGATCAACATCAATTTTT
Found at i:846604 original size:3 final size:3
Alignment explanation
Indices: 846598--846630 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
846588 TATTATTTAT
*
846598 ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
846631 TTATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:846614 original size:12 final size:12
Alignment explanation
Indices: 846597--846634 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
846587 ATATTATTTA
846597 TATAATAATAAT
1 TATAATAATAAT
846609 TATAATAATAAT
1 TATAATAATAAT
*
846621 AATAATAAT-AT
1 TATAATAATAAT
846632 TAT
1 TAT
846635 TATTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAATAATAAT
Found at i:847905 original size:29 final size:26
Alignment explanation
Indices: 847855--847911 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
847845 TTTAATCATA
*
847855 TATTACTTTTATATATTTATATATAC
1 TATTACTATTATATATTTATATATAC
847881 TATTACTATTATTATATTTATATATA-
1 TATTACTATTA-TATATTTATATATAC
847907 TATTA
1 TATTA
847912 AATATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTACTATTATATATTTATATATAC
Found at i:848088 original size:70 final size:70
Alignment explanation
Indices: 848008--848144 Score: 274
Period size: 70 Copynumber: 2.0 Consensus size: 70
847998 TTAATCATAT
848008 TTTAATATATATTGATATTAATAAAGGACATTCTTAAAGCAACTGGATGTCCATTTTTTGATATT
1 TTTAATATATATTGATATTAATAAAGGACATTCTTAAAGCAACTGGATGTCCATTTTTTGATATT
848073 TTATA
66 TTATA
848078 TTTAATATATATTGATATTAATAAAGGACATTCTTAAAGCAACTGGATGTCCATTTTTTGATATT
1 TTTAATATATATTGATATTAATAAAGGACATTCTTAAAGCAACTGGATGTCCATTTTTTGATATT
848143 TT
66 TT
848145 TAAATAAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (70 bp):
TTTAATATATATTGATATTAATAAAGGACATTCTTAAAGCAACTGGATGTCCATTTTTTGATATT
TTATA
Found at i:850850 original size:14 final size:14
Alignment explanation
Indices: 850833--850873 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
850823 GTTTAGCTAT
850833 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
850847 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
*
850861 GTTCATTTATGTT
1 GTTCGTTTATGTT
850874 TAACCCAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.56
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:851965 original size:16 final size:16
Alignment explanation
Indices: 851946--851990 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
851936 TGGTATCCAA
851946 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
851962 CGTTTATG-TCTGTGTT
1 CGTTTATGTTC-GTGTT
851978 CGTTTATGTTCGT
1 CGTTTATGTTCGT
851991 TTATTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:855941 original size:18 final size:18
Alignment explanation
Indices: 855920--855954 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
855910 TTACCTTTAG
*
855920 GAATAAGATTATTAAAAA
1 GAATAAAATTATTAAAAA
855938 GAATAAAATTATTAAAA
1 GAATAAAATTATTAAAA
855955 TATAATATTA
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:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
GAATAAAATTATTAAAAA
Found at i:856493 original size:3 final size:3
Alignment explanation
Indices: 856485--856544 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
856475 TTAACTCTTA
* * *
856485 TAT TAT TAT TAT TAT TAT TAT TAAG T-T TAT AAT CT-T TGT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT -TAT TAT -TAT TAT
856531 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
856545 AGTTTATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 2 0.04
3 41 0.87
4 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:862787 original size:22 final size:22
Alignment explanation
Indices: 862756--862806 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
862746 CAATTGAGGA
*
862756 CACAAACCCTCCACGAACCATT
1 CACAAGCCCTCCACGAACCATT
862778 CACAAGCCCTCCACGAACCATT
1 CACAAGCCCTCCACGAACCATT
862800 CACAAGC
1 CACAAGC
862807 TTCATTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.45, G:0.08, T:0.12
Consensus pattern (22 bp):
CACAAGCCCTCCACGAACCATT
Found at i:866434 original size:23 final size:23
Alignment explanation
Indices: 866408--866451 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
866398 AATAAAACAA
* *
866408 TTTATAAATACATAAGTAAAATT
1 TTTAAAAATACATAAATAAAATT
*
866431 TTTAAAAATTCATAAATAAAA
1 TTTAAAAATACATAAATAAAA
866452 CAGATATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TTTAAAAATACATAAATAAAATT
Found at i:867326 original size:31 final size:31
Alignment explanation
Indices: 867291--867388 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
867281 CCGAGGCCTT
867291 AAGATCTTTCTTGGGTAGGCCCCGTGACCCC
1 AAGATCTTTCTTGGGTAGGCCCCGTGACCCC
* *
867322 AAGATCTCTCTTGGGTAGGCCCCGTGGCCCC
1 AAGATCTTTCTTGGGTAGGCCCCGTGACCCC
* * * * *
867353 GAGTAACTTTCATAGGTAGGCTCTCG-GACCCC
1 AAG-ATCTTTCTTGGGTAGGC-CCCGTGACCCC
867385 AAGA
1 AAGA
867389 CATTCCCTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 32 0.58
32 20 0.36
33 3 0.05
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (31 bp):
AAGATCTTTCTTGGGTAGGCCCCGTGACCCC
Found at i:869868 original size:22 final size:22
Alignment explanation
Indices: 869826--869869 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
869816 CCATTGAGCA
* *
869826 TTGACCGGTCTGACTGATGACT
1 TTGACCGGTCAGACAGATGACT
*
869848 TTGACCGGTCAGACAGTTGACT
1 TTGACCGGTCAGACAGATGACT
869870 GTTAACTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (22 bp):
TTGACCGGTCAGACAGATGACT
Found at i:870438 original size:25 final size:25
Alignment explanation
Indices: 870409--870462 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
870399 GTATCTTCAA
870409 AGACCTAGAATTAAGTGAATGACTC
1 AGACCTAGAATTAAGTGAATGACTC
870434 AGACCTAGAATTAAGTGAATGACTC
1 AGACCTAGAATTAAGTGAATGACTC
870459 AGAC
1 AGAC
870463 AAGTCTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (25 bp):
AGACCTAGAATTAAGTGAATGACTC
Found at i:871699 original size:32 final size:31
Alignment explanation
Indices: 871617--871700 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 31
871607 AAGGTGACCT
** * * *
871617 TTGGGTAGGCTCTAAGGTCCTGAGAACTCTC
1 TTGGGTAGGCTCTCGGGCCCCGAGAACTATC
*
871648 TTGGGTAGGC-CCCGTGGCCCCGAGTAACTATC
1 TTGGGTAGGCTCTCG-GGCCCCGAG-AACTATC
871680 TTGGGTAGGCTCTCGGGCCCC
1 TTGGGTAGGCTCTCGGGCCCC
871701 AAGACATTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
30 1 0.02
31 17 0.40
32 22 0.51
33 3 0.07
ACGTcount: A:0.14, C:0.29, G:0.32, T:0.25
Consensus pattern (31 bp):
TTGGGTAGGCTCTCGGGCCCCGAGAACTATC
Found at i:873786 original size:31 final size:31
Alignment explanation
Indices: 873729--873833 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
873719 GGGCCTGAGA
*
873729 GCCTACCCAAGAAGGTTAT-TCGGGGCCACGGG
1 GCCTACCCAAGAAAG--ATCTCGGGGCCACGGG
* *
873761 GCCTACCCTAGAAAGATCTCGGGGCCGA-AGG
1 GCCTACCCAAGAAAGATCTCGGGGCC-ACGGG
* * * *
873792 GACTACCCAAGAAAGATCTCAGGGCCTCGGA
1 GCCTACCCAAGAAAGATCTCGGGGCCACGGG
873823 GCCTACCCAAG
1 GCCTACCCAAG
873834 GGTCACCTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.03
31 44 0.73
32 14 0.23
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.13
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCGGGGCCACGGG
Found at i:876257 original size:14 final size:14
Alignment explanation
Indices: 876238--876271 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
876228 AGTCAACAGG
* *
876238 TTGACTCGGACGAC
1 TTGACTCAGACGAA
876252 TTGACTCAGACGAA
1 TTGACTCAGACGAA
876266 TTGACT
1 TTGACT
876272 TAGTCCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (14 bp):
TTGACTCAGACGAA
Found at i:879793 original size:21 final size:22
Alignment explanation
Indices: 879767--879808 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
879757 CCAGGACAAG
*
879767 GAGTATCGGTAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
*
879788 GAGTATTGATACTTCCTTTAA
1 GAGTATCGATACTTCCTTTAA
879809 AATGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:879878 original size:20 final size:20
Alignment explanation
Indices: 879853--879901 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
879843 GGCTTGACCA
879853 GTATCGATATTATGCTCATG
1 GTATCGATATTATGCTCATG
879873 GTATCGATATTATGCTCATG
1 GTATCGATATTATGCTCATG
879893 GTATCGATA
1 GTATCGATA
879902 CTACTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATATTATGCTCATG
Found at i:883700 original size:24 final size:23
Alignment explanation
Indices: 883683--883760 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
883673 AATCCAATTA
883683 AAGTATCAGATCAAAATCCAGGTC
1 AAGTATC-GATCAAAATCCAGGTC
883707 AAGTATTCGATCAAAATCCAGGTC
1 AAGTA-TCGATCAAAATCCAGGTC
* *
883731 AAGTATCCGATCAGAATCCATGTC
1 AAGTAT-CGATCAAAATCCAGGTC
*
883755 AGGTAT
1 AAGTAT
883761 TATAATAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 1 0.02
24 46 0.94
25 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (23 bp):
AAGTATCGATCAAAATCCAGGTC
Found at i:888395 original size:24 final size:24
Alignment explanation
Indices: 888368--888455 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
888358 AATCAAACAT
* *
888368 AATCCAAGTAAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
888392 AATCCAGGTCAAGTATTCA-ATCAA
1 AATCCAGGTCAAGTA-TCAGATCAA
* *
888416 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
*
888440 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
888456 TATAATAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 2 0.04
24 52 0.91
25 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:894246 original size:16 final size:17
Alignment explanation
Indices: 894225--894257 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
894215 CGAAAAACAT
894225 AAAAA-TATGACTTTTC
1 AAAAATTATGACTTTTC
*
894241 AAAAATTTTGACTTTTC
1 AAAAATTATGACTTTTC
894258 GATCAAAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AAAAATTATGACTTTTC
Found at i:895003 original size:3 final size:3
Alignment explanation
Indices: 894995--895056 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
894985 CCTAATTGTA
894995 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
895043 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
895057 ATAATTATAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:895300 original size:2 final size:2
Alignment explanation
Indices: 895293--895319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
895283 CTAGAATTGT
895293 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
895320 TTAGTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:899660 original size:19 final size:19
Alignment explanation
Indices: 899638--899683 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
899628 AATTATTATC
* *
899638 TATTATTTTTTTGGTATAA
1 TATTATTATATTGGTATAA
* *
899657 TATTATTATATTGTTATAC
1 TATTATTATATTGGTATAA
899676 TATTATTA
1 TATTATTA
899684 ATAATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
TATTATTATATTGGTATAA
Found at i:901973 original size:34 final size:36
Alignment explanation
Indices: 901917--901994 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 36
901907 TAAAATTATC
* *
901917 TTTATTTTTGTTTTAACTTATTAAATAT-TTTT-TT
1 TTTAATTTTGTCTTAACTTATTAAATATATTTTGTT
901951 TTTAATTTTGTCTTAA-TCTATTAAATATATTTTGTT
1 TTTAATTTTGTCTTAACT-TATTAAATATATTTTGTT
901987 TTT-ATTTT
1 TTTAATTTT
901995 ATTGTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 1 0.03
34 24 0.62
35 9 0.23
36 5 0.13
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (36 bp):
TTTAATTTTGTCTTAACTTATTAAATATATTTTGTT
Found at i:902107 original size:30 final size:32
Alignment explanation
Indices: 902072--902136 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
902062 ATATATTTAA
*
902072 ATATTTTACTATTATTTT-AA-TATAAAATAT
1 ATATTTTACTATTATTTTAAATTAAAAAATAT
*
902102 ATATTTTACTCTTATTTTAAATTAAAAAATAT
1 ATATTTTACTATTATTTTAAATTAAAAAATAT
902134 ATA
1 ATA
902137 ATATTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 17 0.55
31 2 0.06
32 12 0.39
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATTTTACTATTATTTTAAATTAAAAAATAT
Done.