Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 41
Found at i:675201 original size:21 final size:22
Alignment explanation
Indices: 675177--675234 Score: 91
Period size: 21 Copynumber: 2.6 Consensus size: 22
675167 TTTTGTATTA
*
675177 TCGCGTTGCGATTTTCCAAA-T
1 TCGCATTGCGATTTTCCAAATT
675198 TCGCATTGCGATTTTCCAAATTT
1 TCGCATTGCGATTTTCCAAA-TT
675221 TCGCATTGCGATTT
1 TCGCATTGCGATTT
675235 ACTTATTCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 19 0.56
23 15 0.44
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCAAATT
Found at i:675227 original size:23 final size:21
Alignment explanation
Indices: 675177--675251 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
675167 TTTTGTATTA
*
675177 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
675198 TCGCATTGCGATTTTCCAAATTT
1 TCGCATTGCGATTTTCCAAA--T
* **
675221 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
675241 TCGCATTGCGA
1 TCGCATTGCGA
675252 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 12 0.25
21 19 0.40
22 5 0.10
23 12 0.25
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:675293 original size:21 final size:22
Alignment explanation
Indices: 675241--675293 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
675231 ATTTACTTAT
675241 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
675262 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
675283 TCGCATTGCGA
1 TCGCATTGCGA
675294 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:677329 original size:36 final size:35
Alignment explanation
Indices: 677285--677355 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
677275 AACATCTACC
*
677285 AAACTTTACTAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
677320 AAACATTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
677356 TTGGTTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:677354 original size:21 final size:21
Alignment explanation
Indices: 677295--677354 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
677285 AAACTTTACT
677295 AAACTTTGAAAAACATTTTTC
1 AAACTTTGAAAAACATTTTTC
**
677316 AAA----G--AAACATTTACC
1 AAACTTTGAAAAACATTTTTC
677331 AAACTTTGAAAAACATTTTTC
1 AAACTTTGAAAAACATTTTTC
677352 AAA
1 AAA
677355 GTTGGTTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 12 0.41
17 1 0.03
19 1 0.03
21 15 0.52
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
AAACTTTGAAAAACATTTTTC
Found at i:688261 original size:13 final size:13
Alignment explanation
Indices: 688243--688267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
688233 TCATAACCCG
688243 ACCTGACCCGTTT
1 ACCTGACCCGTTT
688256 ACCTGACCCGTT
1 ACCTGACCCGTT
688268 GACCCAACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.16, T:0.28
Consensus pattern (13 bp):
ACCTGACCCGTTT
Found at i:690771 original size:24 final size:24
Alignment explanation
Indices: 690744--690859 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
690734 TTCGATTTGA
690744 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
690768 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
690792 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
690816 ATTCTGATCTGATACTTGATC-TGG
1 ATTCTGATCTGATACTTGA-CATGG
* *
690840 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
690860 CTGATTTATG
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:690837 original size:12 final size:12
Alignment explanation
Indices: 690796--690864 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
690786 ACATAGATTC
690796 TGATCTGATACT
1 TGATCTGATACT
*
690808 TGA-CTTGGATTC-
1 TGATC-T-GATACT
690820 TGATCTGATACT
1 TGATCTGATACT
*
690832 TGATCTGGAT-TT
1 TGATCT-GATACT
*
690844 TGATATGATACT
1 TGATCTGATACT
*
690856 TGACCTGAT
1 TGATCTGAT
690865 TTATGTTTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
11 8 0.18
12 28 0.64
13 8 0.18
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (12 bp):
TGATCTGATACT
Found at i:695460 original size:36 final size:36
Alignment explanation
Indices: 695393--695462 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
695383 GAGCTCAAAA
* *
695393 ATGGACCTGTGCCTGTGGTAGCTGCCGTATCATAAG
1 ATGGACCTGTGCCGGTGGTAGCAGCCGTATCATAAG
695429 ATGGACCTGTGCCGGTGGTAGCAG-CGCTATCATA
1 ATGGACCTGTGCCGGTGGTAGCAGCCG-TATCATA
695463 TCCAGCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (36 bp):
ATGGACCTGTGCCGGTGGTAGCAGCCGTATCATAAG
Found at i:695547 original size:39 final size:39
Alignment explanation
Indices: 695485--695590 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
695475 TGGTACATTT
* * * * *
695485 TGCTGAAAACTGTTTGGGCGAGAATATGGGGATGCATTC
1 TGCTGAAAACTGCTCGAGCGAGAATATGGAGATGCATCC
* * ** *
695524 TGCTTAAAACTGCTGGATTGAGAATACGGAGATGCATCC
1 TGCTGAAAACTGCTCGAGCGAGAATATGGAGATGCATCC
695563 TGCTGAAAACTGCTCGAGCGAGAATATG
1 TGCTGAAAACTGCTCGAGCGAGAATATG
695591 ACTTCGGGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (39 bp):
TGCTGAAAACTGCTCGAGCGAGAATATGGAGATGCATCC
Found at i:699677 original size:22 final size:21
Alignment explanation
Indices: 699652--699701 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
699642 TTTTTTTATC
* * *
699652 AAATATAGATTATTTTAATTAA
1 AAATATAAAATATTTTAA-GAA
699674 AAATA-AAAATATTTTAAGAA
1 AAATATAAAATATTTTAAGAA
699694 AAATATAA
1 AAATATAA
699702 TACAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATATAAAATATTTTAAGAA
Found at i:704099 original size:40 final size:40
Alignment explanation
Indices: 704054--704146 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
704044 TAATTACTAA
* * *
704054 AAATTTCAAGTTATTCAAG-TTATAGTTTATAATTAAACTC
1 AAATTTAAAATTATTCAAGCTT-TAGTTTATAACTAAACTC
* *
704094 AAATTTAAAATTATTCGAGCTTTATTTTATAACTAAACTC
1 AAATTTAAAATTATTCAAGCTTTAGTTTATAACTAAACTC
704134 AAATTTGAAAATT
1 AAATTT-AAAATT
704147 TTAGAGTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 38 0.83
41 8 0.17
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (40 bp):
AAATTTAAAATTATTCAAGCTTTAGTTTATAACTAAACTC
Found at i:704163 original size:41 final size:40
Alignment explanation
Indices: 704079--704161 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
704069 CAAGTTATAG
* * **
704079 TTTATAATTAAACTCAAATTTAAAATTATTCGAGCTTTAT
1 TTTATAACTAAACTCAAATTTAAAATTATTAGAGCAATAT
704119 TTTATAACTAAACTCAAATTTGAAAATT-TTAGAGTCAA-AT
1 TTTATAACTAAACTCAAATTT-AAAATTATTAGAG-CAATAT
704159 TTT
1 TTT
704162 TAGCATCGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 30 0.81
41 7 0.19
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (40 bp):
TTTATAACTAAACTCAAATTTAAAATTATTAGAGCAATAT
Found at i:707661 original size:15 final size:15
Alignment explanation
Indices: 707641--707673 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
707631 TTAGTTGGGT
*
707641 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
707656 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
707671 GGG
1 GGG
707674 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.70, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:714436 original size:6 final size:6
Alignment explanation
Indices: 714425--714480 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
714415 AGACACGCAT
714425 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
714473 GACCAC GA
1 GACCAC GA
714481 GACGGACGGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:716181 original size:22 final size:22
Alignment explanation
Indices: 716153--716196 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
716143 TTAATTGGAG
* *
716153 TATGATAAAATCTGATTCTATA
1 TATGATAAAAGCTGATCCTATA
716175 TATGATAAAAGCTGATCCTATA
1 TATGATAAAAGCTGATCCTATA
716197 ACCGTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
TATGATAAAAGCTGATCCTATA
Found at i:716305 original size:28 final size:28
Alignment explanation
Indices: 716235--716305 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
716225 CTCTACATTT
* * *
716235 ATATTATGT-TGTTGAGTTAGTGCTTGAA
1 ATATTATGTCT-TCGAGTTAGCGCATGAA
* *
716263 ATATTATATCGTCGAGTTAGCGCATGAA
1 ATATTATGTCTTCGAGTTAGCGCATGAA
716291 ATATTATGTCTTCGA
1 ATATTATGTCTTCGA
716306 ACAACTGTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (28 bp):
ATATTATGTCTTCGAGTTAGCGCATGAA
Found at i:719667 original size:19 final size:19
Alignment explanation
Indices: 719643--719681 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
719633 CTATAACCTC
719643 TCTACGAAAGGAAAATCCA
1 TCTACGAAAGGAAAATCCA
*
719662 TCTACGAAGGGAAAATCCA
1 TCTACGAAAGGAAAATCCA
719681 T
1 T
719682 AAGCGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (19 bp):
TCTACGAAAGGAAAATCCA
Found at i:721307 original size:23 final size:22
Alignment explanation
Indices: 721258--721308 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
721248 TTTTATAAAT
*
721258 ATTATATTTTAATTAATTTACA
1 ATTATATTTTAACTAATTTACA
* *
721280 TTTATATTTTTAACTAATTTATA
1 ATTATA-TTTTAACTAATTTACA
721303 ATTATA
1 ATTATA
721309 CGTTTATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATATTTTAACTAATTTACA
Found at i:721314 original size:23 final size:23
Alignment explanation
Indices: 721265--721327 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
721255 AATATTATAT
* * **
721265 TTTAATTAATTTACATTTATATT
1 TTTAATTAATTTATAATTATACG
*
721288 TTTAACTAATTTATAATTATACG
1 TTTAATTAATTTATAATTATACG
*
721311 TTT-ATTACTTTATAATT
1 TTTAATTAATTTATAATT
721328 TAAAATTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAATTAATTTATAATTATACG
Found at i:723479 original size:18 final size:18
Alignment explanation
Indices: 723456--723494 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
723446 CATATATCAT
723456 GTTATCATATTATTTCAC
1 GTTATCATATTATTTCAC
723474 GTTATCATATTATTTCAC
1 GTTATCATATTATTTCAC
723492 GTT
1 GTT
723495 GGAGTTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (18 bp):
GTTATCATATTATTTCAC
Found at i:729646 original size:17 final size:17
Alignment explanation
Indices: 729610--729654 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
729600 ATACAATCAG
729610 ATAATTTATAAATTTATT
1 ATAATTT-TAAATTTATT
729628 ATAATTTTAAATATT-TT
1 ATAATTTTAAAT-TTATT
*
729645 ATATTTTTAA
1 ATAATTTTAA
729655 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTTTAAATTTATT
Found at i:731789 original size:15 final size:15
Alignment explanation
Indices: 731771--731813 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
731761 CCTAAATCAT
731771 TTAACCCTAACAAAC
1 TTAACCCTAACAAAC
*
731786 TTAACCCTAA-AACC
1 TTAACCCTAACAAAC
*
731800 ATAACCCT-ACAAAC
1 TTAACCCTAACAAAC
731814 CCCAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 13 0.54
15 10 0.42
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
TTAACCCTAACAAAC
Found at i:731814 original size:15 final size:15
Alignment explanation
Indices: 731772--731814 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
731762 CTAAATCATT
*
731772 TAACCCTAACAAA-CT
1 TAACCCT-ACAAACCA
731787 TAACCCTA-AAACCA
1 TAACCCTACAAACCA
731801 TAACCCTACAAACC
1 TAACCCTACAAACC
731815 CCAAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 10 0.40
15 12 0.48
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (15 bp):
TAACCCTACAAACCA
Found at i:732953 original size:26 final size:25
Alignment explanation
Indices: 732923--732981 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
732913 ATACGTTTTG
732923 ATATTTAAATGATAA-AAAATATAAA
1 ATATTTAAAT-ATAATAAAATATAAA
* * *
732948 ATTATTTATATATAATTAAATTTAAA
1 A-TATTTAAATATAATAAAATATAAA
732974 ATATTTAA
1 ATATTTAA
732982 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATTTAAATATAATAAAATATAAA
Found at i:732977 original size:19 final size:19
Alignment explanation
Indices: 732955--732992 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
732945 AAAATTATTT
732955 ATATATAATTAAATTTAAA
1 ATATATAATTAAATTTAAA
* *
732974 ATATTTAATTTAATTTAAA
1 ATATATAATTAAATTTAAA
732993 TTAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATATAATTAAATTTAAA
Found at i:733713 original size:20 final size:20
Alignment explanation
Indices: 733688--733759 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
733678 TTTTCCCAAT
733688 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
733708 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
733728 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
733749 TCGCAATGCGA
1 TCGCAATGCGA
733760 TACTGACAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:733772 original size:20 final size:20
Alignment explanation
Indices: 733747--733842 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
733737 GAATTGGGAA
*
733747 AATCGCAATGCGATACTGAC
1 AATCGCAACGCGATACTGAC
* * * *
733767 AATCGCAATGCGATAATAAAA
1 AATCGCAACGCGATACT-GAC
* *
733788 AATCGCAACGAGATACTTAC
1 AATCGCAACGCGATACTGAC
** *
733808 TTTCGCAACGCAATACTGAC
1 AATCGCAACGCGATACTGAC
**
733828 TTTCGCAACGCGATA
1 AATCGCAACGCGATA
733843 ATACATAATC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (20 bp):
AATCGCAACGCGATACTGAC
Found at i:734059 original size:22 final size:22
Alignment explanation
Indices: 734031--734074 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
734021 CACTCTCTCA
734031 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
734053 CCCATCTCCGGCGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
734075 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:734363 original size:20 final size:20
Alignment explanation
Indices: 734338--734375 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
734328 CGATTCTCTC
734338 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
734358 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
734376 AAAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:735715 original size:18 final size:18
Alignment explanation
Indices: 735694--735738 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
735684 TCCACTTCGG
*
735694 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
735712 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
735730 GAGCCATCA
1 GAGCCATCA
735739 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:736265 original size:19 final size:20
Alignment explanation
Indices: 736222--736277 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
736212 TGCAACACGA
736222 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
736242 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
736261 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
736278 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:736285 original size:14 final size:14
Alignment explanation
Indices: 736266--736323 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
736256 ATGCGAAATG
736266 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
736280 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
736296 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
736312 AAAATCGCAACG
1 AAAATCGCAACG
736324 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:736308 original size:32 final size:33
Alignment explanation
Indices: 736250--736340 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
736240 GGAAATGGCT
736250 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
736283 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
736315 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
736341 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:736334 original size:19 final size:19
Alignment explanation
Indices: 736250--736345 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
736240 GGAAATGGCT
736250 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
736269 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
736283 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
736301 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
736315 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
736334 ATCGCAATGCGA
1 ATCGCAATGCGA
736346 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:736386 original size:19 final size:19
Alignment explanation
Indices: 736371--736474 Score: 111
Period size: 19 Copynumber: 5.4 Consensus size: 19
736361 GCGATTTTGT
736371 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
736389 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
736408 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
736428 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
736447 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
736467 TGTTGCGA
1 CGTTGCGA
736475 AAGTAAACTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 8 0.11
19 36 0.49
20 29 0.40
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:736432 original size:39 final size:38
Alignment explanation
Indices: 736382--736455 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
736372 GTTGCGATTT
**
736382 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
736420 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
736456 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:738483 original size:14 final size:17
Alignment explanation
Indices: 738474--738536 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 17
738464 ATCGCAACGA
738474 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
738493 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
738512 GAAAATCGCAA-CG-A-
1 GAAAATCGCAAGCGAAT
738526 GAAAATCGCAA
1 GAAAATCGCAA
738537 ATGCGATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
17 2 0.05
19 30 0.68
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (17 bp):
GAAAATCGCAAGCGAAT
Found at i:738529 original size:19 final size:19
Alignment explanation
Indices: 738474--738522 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
738464 ATCGCAACGA
738474 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
738493 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
738512 GAAAATCGCAA
1 GAAAATCGCAA
738523 CGAGAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:738618 original size:20 final size:20
Alignment explanation
Indices: 738561--738618 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
738551 TCGCATTGCG
* *
738561 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
738581 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
738601 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
738619 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:739729 original size:24 final size:24
Alignment explanation
Indices: 739678--739731 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
739668 GTATTCGAAA
* *
739678 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATATTGGTCAATACACAGAC
* *
739702 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACAGAC
739726 TTTGAT
1 TTTGAT
739732 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACAGAC
Found at i:739921 original size:12 final size:12
Alignment explanation
Indices: 739904--739928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
739894 TCATAATCCT
739904 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739916 GAAGAAGAAAAA
1 GAAGAAGAAAAA
739928 G
1 G
739929 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:742264 original size:33 final size:33
Alignment explanation
Indices: 742222--742348 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
742212 GGAAATTACT
742222 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
742255 ATCGCAATGCGAAATGAAAATTGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
742287 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
742321 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
742349 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:742329 original size:66 final size:66
Alignment explanation
Indices: 742223--742355 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
742213 GAAATTACTA
* *
742223 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
742288 T
66 T
*
742289 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
742354 T
66 T
742355 T
1 T
742356 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:742370 original size:19 final size:20
Alignment explanation
Indices: 742348--742390 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
742338 AAATCGCAAC
742348 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
742367 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
742387 GCGA
1 GCGA
742391 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:742375 original size:14 final size:14
Alignment explanation
Indices: 742376--742409 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
742366 TGCGATTTTC
742376 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
742390 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
742404 ATTTTC
1 ATTTTC
742410 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:742550 original size:14 final size:14
Alignment explanation
Indices: 742531--742567 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
742521 CATCAATTAA
742531 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
742545 ACAAATCACCTTTT
1 ACAAATCAACTTTT
742559 ACAAATCAA
1 ACAAATCAA
742568 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:743991 original size:21 final size:21
Alignment explanation
Indices: 743925--743991 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
743915 GTGAATCGGG
*
743925 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
743945 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
743967 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
743988 CTCT
1 CTCT
743992 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:746080 original size:20 final size:19
Alignment explanation
Indices: 746049--746228 Score: 128
Period size: 19 Copynumber: 9.8 Consensus size: 19
746039 TCTTTTGGTT
746049 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
746068 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
746089 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
746108 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
746122 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
746138 -CTA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
746155 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
746175 GAAATAAAAATCGCAACGT
1 GAAATGAAAATCGCAACGA
*
746194 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
746213 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
746229 TGCGATTTTG
Statistics
Matches: 128, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 4 0.03
17 4 0.03
18 1 0.01
19 52 0.41
20 47 0.37
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:746131 original size:33 final size:33
Alignment explanation
Indices: 746074--746171 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
746064 ACGAGATAAT
746074 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
746108 GAGAATCGCAACGCGAAATGACTATCGCGACTA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
746141 GACAATCGCAACGCGAAATGAAAATCGCAAC
1 GAGAATCGCAACGCGAAATGACTATCGCAAC
746172 CGCGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:746166 original size:19 final size:19
Alignment explanation
Indices: 746144--746233 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
746134 GCGACTAGAC
746144 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
746163 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
*
746183 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAATGAA
746202 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
746221 AATCGCAATGCGA
1 AATCGCAACGCGA
746234 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 47 0.72
20 18 0.28
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:746176 original size:39 final size:37
Alignment explanation
Indices: 746144--746233 Score: 126
Period size: 39 Copynumber: 2.4 Consensus size: 37
746134 GCGACTAGAC
746144 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCG-AATAAA
* *
746183 AATCGCAACGTGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCG-AATAAA
*
746221 AATCGCAATGCGA
1 AATCGCAACGCGA
746234 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (37 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAATAAA
Found at i:746262 original size:19 final size:19
Alignment explanation
Indices: 746229--746309 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 19
746219 AAAATCGCAA
**
746229 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
746248 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
* *
746267 TACGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
746281 TGCGATAGTTATTTTCGCGT
1 TGCGATTTTTA-TTTCGCGT
746301 TGCGATTTT
1 TGCGATTTT
746310 CATTCTCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.19
16 3 0.06
17 3 0.06
19 21 0.44
20 12 0.25
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:746876 original size:21 final size:21
Alignment explanation
Indices: 746843--746902 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
746833 TGCGAAAGTA
* * *
746843 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
746864 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
746884 AGTATCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
746903 CCCAATTCGC
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:750728 original size:6 final size:6
Alignment explanation
Indices: 750717--750747 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
750707 GCTAAAAAGC
750717 TCACTT TCACTT TCACTT TCACTT TCACTT T
1 TCACTT TCACTT TCACTT TCACTT TCACTT T
750748 GGTTGTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TCACTT
Found at i:770667 original size:16 final size:16
Alignment explanation
Indices: 770646--770678 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
770636 ATTTGATGTT
*
770646 ATTTAAATTAAAAATA
1 ATTTAAAATAAAAATA
770662 ATTTAAAATAAAAATA
1 ATTTAAAATAAAAATA
770678 A
1 A
770679 CATCATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTAAAATAAAAATA
Found at i:772868 original size:60 final size:60
Alignment explanation
Indices: 772760--772914 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 60
772750 TGGTCTTTAT
* * * * **
772760 ACTTTTGAATATTTCAATTTCATCCCTAAA-TCATACCTATCATACTAAATTAGTCCTTAA
1 ACTTTTGAACATCTCAATTTCAACCCCAAACT-ATACCTATCATACTAAATTAGTCCCCAA
* *
772820 ACTTTTGAACATGTCAATTTCAACCCCAAACTATGACCT-TCATTCTAAATTAGTCCCCAA
1 ACTTTTGAACATCTCAATTTCAACCCCAAACTAT-ACCTATCATACTAAATTAGTCCCCAA
* *
772880 ACTTTTTGAACATCACAATTTC-ATCCCAAACTATA
1 AC-TTTTGAACATCTCAATTTCAACCCCAAACTATA
772915 TGTATATACT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
59 1 0.01
60 59 0.72
61 22 0.27
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (60 bp):
ACTTTTGAACATCTCAATTTCAACCCCAAACTATACCTATCATACTAAATTAGTCCCCAA
Found at i:773313 original size:16 final size:16
Alignment explanation
Indices: 773295--773394 Score: 80
Period size: 18 Copynumber: 5.9 Consensus size: 16
773285 TTGTAATTAA
*
773295 ATAATATATTATATAA
1 ATAATATATTATATAT
*
773311 ATAGGGA-ATAATAT-TAT
1 ATA---ATATATTATATAT
773328 AT-ATATATATATATAT
1 ATAATATAT-TATATAT
773344 ATATATATATATATATAT
1 ATA-ATATAT-TATATAT
773362 ATATATATATATATATAT
1 ATA-ATATAT-TATATAT
773380 ATATATATATTATAT
1 ATA-ATATATTATAT
773395 CTACCTCACA
Statistics
Matches: 73, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
13 1 0.01
14 3 0.04
15 3 0.04
16 8 0.11
17 9 0.12
18 48 0.66
19 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAATATATTATATAT
Found at i:773332 original size:2 final size:2
Alignment explanation
Indices: 773321--773394 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
773311 ATAGGGAATA
773321 AT AT -T 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
773362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
773395 CTACCTCACA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 68 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:785873 original size:87 final size:86
Alignment explanation
Indices: 785740--786083 Score: 485
Period size: 87 Copynumber: 4.0 Consensus size: 86
785730 TGGTTTTATT
* *
785740 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGGATATCCAATATAGCTAAGTATCCTAA
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTCCAATATAGCTAAGTATCCTAA
785805 AAAAATGCATCAAATTTTCTCG
66 AAAAATGCATC-AATTTTCTCG
* * *
785827 TTTGAATAAATGGATTGTTAAAAGAATGGTCTTGATTGTATTTCCAATATAACCAAGTATCCTAA
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTCCAATATAGCTAAGTATCCTAA
785892 AAAAATGCATCAATTTTTCTCG
66 AAAAATGCATCAA-TTTTCTCG
* *
785914 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTCCAATATAGCTAAGTATACTCA
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTCCAATATAGCTAAGTATCCTAA
* * *
785979 AAGAGTGCATCAATTTTGCTCA
66 AAAAATGCATCAATTTT-CTCG
* * *
786001 TTTGAATAAATGGATTGTTAAAAGAATGGTCTTGATTGT-TTGCTTAATAT-GACTTAAGTATCC
1 TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTC-CAATATAG-C-TAAGTATCC
* *
786064 TCAAAGAATGCATCAATTTT
63 TAAAAAAATGCATCAATTTT
786084 GCATTGCATT
Statistics
Matches: 234, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
86 10 0.04
87 197 0.84
88 27 0.12
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (86 bp):
TTTGAATAAATGGATTGTTAAAAGAATGGCCTTGATTGTATTTCCAATATAGCTAAGTATCCTAA
AAAAATGCATCAATTTTCTCG
Found at i:788076 original size:23 final size:22
Alignment explanation
Indices: 788048--788125 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
788038 ATTTATCTTT
*
788048 TAAA-TTTTATAAAAAAATTATA
1 TAAATTTTTAT-AAAAAAGTATA
*
788070 TATAATTTTTATTAAAAAGTATA
1 TA-AATTTTTATAAAAAAGTATA
** *
788093 TAAATTTAAAATAATAAAGTA-A
1 TAAATTT-TTATAAAAAAGTATA
*
788115 TATATTTTTAT
1 TAAATTTTTAT
788126 TCTTTTTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 22 0.50
24 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
TAAATTTTTATAAAAAAGTATA
Found at i:788098 original size:22 final size:22
Alignment explanation
Indices: 788060--788126 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
788050 AATTTTATAA
*
788060 AAAAATTATATATAATTTTTATT
1 AAAAAGTATATA-AATTTTTATT
** *
788083 AAAAAGTATATAAATTTAAAAT
1 AAAAAGTATATAAATTTTTATT
*
788105 AATAAAGTA-ATATATTTTTATT
1 AA-AAAGTATATAAATTTTTATT
788127 CTTTTTTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
AAAAAGTATATAAATTTTTATT
Found at i:793685 original size:148 final size:148
Alignment explanation
Indices: 793447--793736 Score: 472
Period size: 148 Copynumber: 2.0 Consensus size: 148
793437 AAACTATTTA
* * * *
793447 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
1 AATTAGAATAAAATAATACTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
***** *
793512 AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAATTTTTTTGAGTCAACT
66 AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTCAACT
793577 ATTTTATAAACTAAACTG
131 ATTTTATAAACTAAACTG
793595 AATTAGAATAAAATAATACTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
1 AATTAGAATAAAATAATACTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* *
793660 AATTCAATTCAATTCGACTTTATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTCAACT
66 AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTCAACT
793725 ATTTTATAAACT
131 ATTTTATAAACT
793737 GAATTGAGTA
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
148 130 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (148 bp):
AATTAGAATAAAATAATACTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTCAACT
ATTTTATAAACTAAACTG
Found at i:793965 original size:35 final size:35
Alignment explanation
Indices: 793919--793995 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
793909 GTTGAGTATG
*
793919 TAATTAAAGTATTTTGAAGTTTGAGGTTTAGAATA
1 TAATTGAAGTATTTTGAAGTTTGAGGTTTAGAATA
* * * *
793954 TAATTGAAGTATTTTGGATTTTGGGGTTTAGAATG
1 TAATTGAAGTATTTTGAAGTTTGAGGTTTAGAATA
793989 TAATTGA
1 TAATTGA
793996 TGATTGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.44
Consensus pattern (35 bp):
TAATTGAAGTATTTTGAAGTTTGAGGTTTAGAATA
Found at i:795007 original size:13 final size:13
Alignment explanation
Indices: 794991--795015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794981 ATTATAATTA
794991 ATTATTAGTTATT
1 ATTATTAGTTATT
795004 ATTATTAGTTAT
1 ATTATTAGTTAT
795016 GCATGTGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
ATTATTAGTTATT
Found at i:795040 original size:2 final size:2
Alignment explanation
Indices: 795033--795072 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
795023 TCTATCTATC
795033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
795073 TATTTGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:798398 original size:17 final size:17
Alignment explanation
Indices: 798378--798416 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
798368 GAAAGTCAAC
798378 GGTCAACGGTCGGGCCG
1 GGTCAACGGTCGGGCCG
*
798395 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGCCG
798412 GGTCA
1 GGTCA
798417 GACCGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.46, T:0.15
Consensus pattern (17 bp):
GGTCAACGGTCGGGCCG
Found at i:798442 original size:10 final size:10
Alignment explanation
Indices: 798414--798461 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
798404 TCGGGTCGGG
798414 TCAGACCGG-
1 TCAGACCGGT
*
798423 TCAAACCGGT
1 TCAGACCGGT
798433 TCAGACCGG-
1 TCAGACCGGT
*
798442 TCAAACCGGT
1 TCAGACCGGT
798452 TCAGACCGGT
1 TCAGACCGGT
798462 CAAACTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:798479 original size:38 final size:38
Alignment explanation
Indices: 798412--798510 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
798402 GGTCGGGTCG
798412 GGTCAGACCGGTCAAACCGGTTCAGACCGG-TCAAACC
1 GGTCAGACCGGTCAAACCGGTTCAGACCGGATCAAACC
* *
798449 GGTTCAGACCGGTCAAACTGGTTC-GAACCGGATGAAACC
1 GG-TCAGACCGGTCAAACCGGTTCAG-ACCGGATCAAACC
* *
798488 GGTCAAACCGGTCAGAATCGGTT
1 GGTCAGACCGGTCA-AACCGGTT
798511 GAAAACTGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 3 0.06
38 36 0.68
39 14 0.26
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.17
Consensus pattern (38 bp):
GGTCAGACCGGTCAAACCGGTTCAGACCGGATCAAACC
Found at i:798489 original size:10 final size:9
Alignment explanation
Indices: 798412--798501 Score: 90
Period size: 9 Copynumber: 9.6 Consensus size: 9
798402 GGTCGGGTCG
*
798412 GGTCAGACC
1 GGTCAAACC
798421 GGTCAAACC
1 GGTCAAACC
*
798430 GGTTCAGACC
1 GG-TCAAACC
798440 GGTCAAACC
1 GGTCAAACC
*
798449 GGTTCAGACC
1 GG-TCAAACC
*
798459 GGTCAAACT
1 GGTCAAACC
*
798468 GGTTCGAACC
1 GG-TCAAACC
*
798478 GGATGAAACC
1 GG-TCAAACC
798488 GGTCAAACC
1 GGTCAAACC
798497 GGTCA
1 GGTCA
798502 GAATCGGTTG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
9 36 0.55
10 30 0.45
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:798509 original size:19 final size:19
Alignment explanation
Indices: 798414--798501 Score: 117
Period size: 19 Copynumber: 4.6 Consensus size: 19
798404 TCGGGTCGGG
798414 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
798433 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
798452 TCAGACCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
*
798471 TC-GAACCGGATGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
798490 TCAAACCGGTCA
1 TCAGACCGGTCA
798502 GAATCGGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
18 3 0.05
19 51 0.84
20 7 0.11
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:798513 original size:29 final size:29
Alignment explanation
Indices: 798412--798529 Score: 100
Period size: 29 Copynumber: 4.1 Consensus size: 29
798402 GGTCGGGTCG
* *
798412 GGTCAG-ACCGG-TCAAACCGGTTCAGACC
1 GGTCAGAACCGGTTGAAACCGG-TCAAACC
* * *
798440 GGTCA-AACCGGTTCAGACCGGTCAAACT
1 GGTCAGAACCGGTTGAAACCGGTCAAACC
*
798468 GGTTC-GAACCGGATGAAACCGGTCAAACC
1 GG-TCAGAACCGGTTGAAACCGGTCAAACC
* * *
798497 GGTCAGAATCGGTTGAAAACTGGTTAAACC
1 GGTCAGAACCGGTTG-AAACCGGTCAAACC
798527 GGT
1 GGT
798530 TTCCAGCAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
28 19 0.26
29 39 0.53
30 15 0.21
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (29 bp):
GGTCAGAACCGGTTGAAACCGGTCAAACC
Found at i:798530 original size:9 final size:9
Alignment explanation
Indices: 798418--798530 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
798408 GTCGGGTCAG
*
798418 ACCGGTCAA
1 ACCGGTTAA
*
798427 ACCGGTTCAG
1 ACCGGTT-AA
*
798437 ACCGGTCAA
1 ACCGGTTAA
*
798446 ACCGGTTCAG
1 ACCGGTT-AA
*
798456 ACCGGTCAA
1 ACCGGTTAA
* *
798465 ACTGGTTCGA
1 ACCGGTT-AA
*
798475 ACCGGATGAA
1 ACCGG-TTAA
*
798485 ACCGGTCAA
1 ACCGGTTAA
*
798494 ACCGGTCAGA
1 ACCGGTTA-A
*
798504 ATCGGTTGAAA
1 ACCGGTT--AA
*
798515 ACTGGTTAA
1 ACCGGTTAA
798524 ACCGGTT
1 ACCGGTT
798531 TCCAGCAGCC
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
9 38 0.49
10 31 0.40
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.19
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:800639 original size:2 final size:2
Alignment explanation
Indices: 800632--800674 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
800622 TTTATTTATT
800632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
800673 TA
1 TA
800675 ATCTGCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:800742 original size:40 final size:40
Alignment explanation
Indices: 800686--800784 Score: 123
Period size: 38 Copynumber: 2.5 Consensus size: 40
800676 TCTGCAAATG
* * **
800686 TTTTTGAAATACATATAATATATATAGTTTTGAAAATATT
1 TTTTTGAAATATATATAATATATATAGTTTTGAAAAAAAC
*
800726 TTTTTGAAATATATAT-A-ATATATAGTTTTTAAAAAAAC
1 TTTTTGAAATATATATAATATATATAGTTTTGAAAAAAAC
*
800764 ATTTTGAAA-ATATATAATATA
1 TTTTTGAAATATATATAATATA
800785 GGGTTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 6 0.12
38 26 0.51
39 4 0.08
40 15 0.29
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (40 bp):
TTTTTGAAATATATATAATATATATAGTTTTGAAAAAAAC
Found at i:800802 original size:34 final size:34
Alignment explanation
Indices: 800727--801047 Score: 234
Period size: 36 Copynumber: 8.8 Consensus size: 34
800717 GAAAATATTT
800727 TTTTGAAATATATATAATATATAGTTTTTAAAAAAACA
1 TTTTGAAA-ATATATAATATATAGTTTTT---AAAACA
**
800765 TTTTGAAAATATATAATATAGGGTTTTTAAAACA
1 TTTTGAAAATATATAATATATAGTTTTTAAAACA
* *
800799 TTTTGAAAACCTATATAATATATAGTTTTGAAATCA
1 TTTTGAAAA--TATATAATATATAGTTTTTAAAACA
** *
800835 TTTAAAAAATATATAATATATAGTTTTTTAAAAAAA
1 TTTTGAAAATATATAATATATAG-TTTTT-AAAACA
* *
800871 TATTATGAAAAACTTATATAATATATAGTTTTAAAAACTTT
1 T-TT-TG-AAAA--TATATAATATATAGTTTTTAAAAC--A
* * *
800912 TTTTGAAAAATTATATAATATATAATTTTAAAAAATA
1 TTTTG-AAAA-TATATAATATATAGTTTT-TAAAACA
* *
800949 TTTTTTGAAAACT-TAT-ATA-ATATTTTTTAAATCA
1 --TTTTGAAAA-TATATAATATATAGTTTTTAAAACA
* *
800983 TTTTTGAAAACTATATAATATATAGTTTTGAAAACT
1 -TTTTGAAAA-TATATAATATATAGTTTTTAAAACA
*
801019 TTTTAAAAAAAATATATAATATATAGTTT
1 TTTT---GAAAATATATAATATATAGTTT
801048 AAAGATGTTT
Statistics
Matches: 234, Mismatches: 29, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
33 12 0.05
34 36 0.15
35 18 0.08
36 47 0.20
37 40 0.17
38 35 0.15
39 25 0.11
40 6 0.03
41 15 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (34 bp):
TTTTGAAAATATATAATATATAGTTTTTAAAACA
Found at i:800966 original size:32 final size:32
Alignment explanation
Indices: 800930--801003 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
800920 AATTATATAA
800930 TATATAAT-TTTAAAAAAT-ATTTTTTGAAAAC
1 TATATAATATTTAAAAAATCA-TTTTTGAAAAC
***
800961 TTATATAATATTTTTTAAATCATTTTTGAAAAC
1 -TATATAATATTTAAAAAATCATTTTTGAAAAC
800994 TATATAATAT
1 TATATAATAT
801004 ATAGTTTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 18 0.49
33 18 0.49
34 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (32 bp):
TATATAATATTTAAAAAATCATTTTTGAAAAC
Found at i:801059 original size:37 final size:34
Alignment explanation
Indices: 800989--801084 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
800979 ATCATTTTTG
*
800989 AAAACTATATAATATATAGTTTTGAAAACTTTTTAAA
1 AAAAATATATAATATATAG-TTT-AAAACTTTTT-AA
* *
801026 AAAAATATATAATATATAGTTTAAAGATGTTTTTAG
1 AAAAATATATAATATATAGTTTAAA-A-CTTTTTAA
*
801062 AAATATATAT-ATCATATAGTTTA
1 AAAAATATATAAT-ATATAGTTTA
801085 TATTATATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
35 5 0.10
36 24 0.46
37 23 0.44
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (34 bp):
AAAAATATATAATATATAGTTTAAAACTTTTTAA
Found at i:801098 original size:3 final size:3
Alignment explanation
Indices: 801085--801143 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
801075 ATATAGTTTA
*
801085 TAT TA- TAT TAT TAT TAG TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
801131 TAT T-T TAGT TAT T
1 TAT TAT TA-T TAT T
801144 TATTTATTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:802383 original size:17 final size:19
Alignment explanation
Indices: 802345--802392 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
802335 TTTCCGTTTT
*
802345 TTTTTTCT-TTTTTACTAG
1 TTTTTTCTATTTTAACTAG
802363 TTTTTTCTATTTTAAC-A-
1 TTTTTTCTATTTTAACTAG
*
802380 TTTTTTTTATTTT
1 TTTTTTCTATTTT
802393 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 12 0.44
18 9 0.33
19 6 0.22
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCTATTTTAACTAG
Found at i:802384 original size:18 final size:19
Alignment explanation
Indices: 802344--802406 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 19
802334 ATTTCCGTTT
*
802344 TTTTTTTCT-TTTTTACTA
1 TTTTTTTCTATTTTAACTA
*
802362 GTTTTTTCTATTTTAAC-A
1 TTTTTTTCTATTTTAACTA
***
802380 TTTTTTT-TATTTTTTTTA
1 TTTTTTTCTATTTTAACTA
802398 TTTTTTTCT
1 TTTTTTTCT
802407 TCATATTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 6 0.17
18 23 0.64
19 7 0.19
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTCTATTTTAACTA
Found at i:802418 original size:23 final size:22
Alignment explanation
Indices: 802390--802451 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
802380 TTTTTTTTAT
*
802390 TTTTTTTATTTTTTTCTTCATA
1 TTTTTTTATTTTTTTCTTAATA
*
802412 TTGTTTTTA-TTTTAT-TTAATA
1 TT-TTTTTATTTTTTTCTTAATA
802433 TTTTTCTTATTTTTTTCTT
1 TTTTT-TTATTTTTTTCTT
802452 TTATTTCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 12 0.36
23 8 0.24
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTTTTTCTTAATA
Found at i:802531 original size:20 final size:20
Alignment explanation
Indices: 802503--802540 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
802493 TTTTTGTTTT
*
802503 TTTATTCAAATTTTTATTTGA
1 TTTATTC-AATGTTTATTTGA
802524 TTTA-TCAATGTTTATTT
1 TTTATTCAATGTTTATTT
802541 TTATTTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.62
20 2 0.12
21 4 0.25
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATTCAATGTTTATTTGA
Found at i:808193 original size:6 final size:6
Alignment explanation
Indices: 808175--808204 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
808165 AAAACTACTT
*
808175 CTGCCA CTACCA CTGCCA CTGCCA CTGCCA
1 CTGCCA CTGCCA CTGCCA CTGCCA CTGCCA
808205 TTGTTACTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.50, G:0.13, T:0.17
Consensus pattern (6 bp):
CTGCCA
Found at i:816748 original size:31 final size:31
Alignment explanation
Indices: 816686--816748 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
816676 ACAAATTTTC
* * *
816686 TATTAGTAAGATTATAAATGGATCCTCCAAT
1 TATTACTAAGATTATAAATAGATCCTACAAT
816717 TATTACTAAGATTATAAATAGATCAC-ACAAT
1 TATTACTAAGATTATAAATAGATC-CTACAAT
816748 T
1 T
816749 TTAAAATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.35
Consensus pattern (31 bp):
TATTACTAAGATTATAAATAGATCCTACAAT
Found at i:818168 original size:29 final size:29
Alignment explanation
Indices: 818068--818170 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
818058 TCATTTTAAA
* * *
818068 TTCATCTCCAAACCTTTAAATATTTCAAT
1 TTCATCCCCAAACTTTTGAATATTTCAAT
* * * *
818097 TTCATCCCTAAA-TTATGACTATCATTCTAAA
1 TTCATCCCCAAACTTTTGAATAT--TTC-AAT
* *
818128 TTGATCCTCAAACTTTTGAATATTTCAAT
1 TTCATCCCCAAACTTTTGAATATTTCAAT
818157 TTCATCCCCAAACT
1 TTCATCCCCAAACT
818171 ATGACATTCA
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
28 6 0.11
29 24 0.44
30 6 0.11
31 11 0.20
32 8 0.15
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
TTCATCCCCAAACTTTTGAATATTTCAAT
Found at i:818201 original size:60 final size:60
Alignment explanation
Indices: 818041--818225 Score: 184
Period size: 60 Copynumber: 3.1 Consensus size: 60
818031 TGCATCATAT
* * * * * * *
818041 ATCCTCAAAGTATGAC-CTCATTTTAAATTCAT-CTCCAAACCTTTAAATATTTCAATTTC
1 ATCCCCAAACTATGACTATCATTCTAAATTGATCCT-CAAACTTTTGAATATTTCAATTTC
* *
818100 ATCCCTAAATTATGACTATCATTCTAAATTGATCCTCAAACTTTTGAATATTTCAATTTC
1 ATCCCCAAACTATGACTATCATTCTAAATTGATCCTCAAACTTTTGAATATTTCAATTTC
*
818160 ATCCCCAAACTATGAC-ATTCATTCTAAATT-AGTCC-CTAAACTTTTTGAACA-TTCTAATTTC
1 ATCCCCAAACTATGACTA-TCATTCTAAATTGA-TCCTC-AAAC-TTTTGAATATTTC-AATTTC
818221 ATCCC
1 ATCCC
818226 AATCTATACG
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
59 16 0.15
60 71 0.66
61 21 0.19
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (60 bp):
ATCCCCAAACTATGACTATCATTCTAAATTGATCCTCAAACTTTTGAATATTTCAATTTC
Found at i:818499 original size:59 final size:60
Alignment explanation
Indices: 818347--818517 Score: 195
Period size: 60 Copynumber: 2.9 Consensus size: 60
818337 TTTGCATGAA
* * * *
818347 TTTAGAGATGGAATTGAAATATTCAAAAGTTT-AGGGAATAATTTAGAAAGAAAGTCATAG
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGG-CTAATTTAGAATGAAAGTCATAG
* * *
818407 TTTAGGGATGAAATT-AGAATGTTCAAAAGTTTAAGGGCTAATTTAGAATGAGATTCATAG
1 TTTAGGGATGAAATTGA-AATATTCAAAAGTTTAAGGGCTAATTTAGAATGAAAGTCATAG
* * * * *
818467 TTT-GGGATGAAATTGAAATCTTAAAAAGTTTAAAGACTAATTTAAAATGAA
1 TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGGCTAATTTAGAATGAA
818518 GAATATAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
59 41 0.43
60 50 0.53
61 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.32
Consensus pattern (60 bp):
TTTAGGGATGAAATTGAAATATTCAAAAGTTTAAGGGCTAATTTAGAATGAAAGTCATAG
Found at i:823946 original size:19 final size:20
Alignment explanation
Indices: 823908--823947 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
823898 AAATTAATAG
*
823908 AATTTTATTTGGTATGGTTA
1 AATTTTATTTAGTATGGTTA
*
823928 AATTTT-TTTAGTTTGGTTA
1 AATTTTATTTAGTATGGTTA
823947 A
1 A
823948 TAAATTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (20 bp):
AATTTTATTTAGTATGGTTA
Found at i:824476 original size:121 final size:121
Alignment explanation
Indices: 824257--824488 Score: 446
Period size: 121 Copynumber: 1.9 Consensus size: 121
824247 TATCATGCGG
*
824257 ACCCTAATCTAATAAAAACCTTGAAACTCGAAAAAGAATTTACAATCACCGACAACCTCCTTATT
1 ACCCTAATATAATAAAAACCTTGAAACTCGAAAAAGAATTTACAATCACCGACAACCTCCTTATT
824322 TCCACCAAAAGAAGCAGCATGTGTGTGCATGTATGTCAGATCACCAAAAGAAGCTT
66 TCCACCAAAAGAAGCAGCATGTGTGTGCATGTATGTCAGATCACCAAAAGAAGCTT
824378 ACCCTAATATAATAAAAACCTTGAAACTCGAAAAAGAATTTACAATCACCGACAACCTCCTTATT
1 ACCCTAATATAATAAAAACCTTGAAACTCGAAAAAGAATTTACAATCACCGACAACCTCCTTATT
*
824443 TCCACCAAAAGAAGCAGCATGTGTGTGCCTGTATGTCAGATCACCA
66 TCCACCAAAAGAAGCAGCATGTGTGTGCATGTATGTCAGATCACCA
824489 TCTCCGACAA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 109 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (121 bp):
ACCCTAATATAATAAAAACCTTGAAACTCGAAAAAGAATTTACAATCACCGACAACCTCCTTATT
TCCACCAAAAGAAGCAGCATGTGTGTGCATGTATGTCAGATCACCAAAAGAAGCTT
Found at i:827832 original size:13 final size:15
Alignment explanation
Indices: 827805--827835 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
827795 GTCATAAATT
827805 TATTTTTTATAATAA
1 TATTTTTTATAATAA
827820 TATTTTTTTATAATAA
1 TA-TTTTTTATAATAA
827836 AAAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 2 0.13
16 13 0.87
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTTTTATAATAA
Found at i:827996 original size:26 final size:26
Alignment explanation
Indices: 827966--828015 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
827956 AGGTAATACT
827966 TTTTTAAAAATATATAAA-ATTTATAA
1 TTTTTAAAAATATA-AAATATTTATAA
* *
827992 TTTTTTAAATTATAAAATATTTAT
1 TTTTTAAAAATATAAAATATTTAT
828016 CATCATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTTAAAAATATAAAATATTTATAA
Found at i:828431 original size:337 final size:335
Alignment explanation
Indices: 827864--828686 Score: 1166
Period size: 337 Copynumber: 2.5 Consensus size: 335
827854 TATATTTTTA
* *
827864 AAAAATTATTGAATAATAATTTATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTTATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
*
827929 TTCTAT-TTTTT-AACAATTAATTTTAAAAGGTAATACTTTTTTAAAAATATATAAAATTTATAA
66 TT-TATATTTTTAAACAATTAATTTTAAAAGGTAATA-TTTTTTAAAAATATATGAAATTTATAA
* * *
827992 TTTTTTAAATTAT-AAAA--TA-T-TTATCATCATCTTCTTGTAAAAGAGATATTAATTATAAAA
129 TTTTTAAAATTATAAAAATTTATTATTATCATCATCTTCTTGTAAAAGAAATACTAATTATAAAA
* * *
828052 TTTTTATAAAATTATTCATATTTTAAAATAATTACCCTCAAAGTTTTTATATACTAGATTATATA
194 TTTTTATAAAATTATTCATATTTTAAAATAATTAACCTCAAAGTTTTCATATACTAGATTATACA
* * * ** * * * *
828117 TATTATGTAATTTTAATG-CAAAATTTAATTAATTTTATTAAAAATGAATAAACATTATTAATTG
259 TATTATATAAATTTAATGAAAAAATCAAAATAATTTAATAAAAAATGAATAAACATTATTAAATG
* *
828181 TTGTTAAAAATT
324 TTATTAAAAAAT
* *
828193 AAAAGTTAATGAACAATAATTTATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTTATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
* *
828258 TTTATATTTTTAAATAAATAATTTTAAAAGGTAATATTTTTTAAAAAAATATATGAAATTTATAA
66 TTTATATTTTTAAACAATTAATTTTAAAAGGTAATATTTTTT--AAAAATATATGAAATTTATAA
*
828323 TTTTTAAAATTATAAAATATTTATTATTATCATCATCATT-TTGTAAAAGAAATACTAGTTATAA
129 TTTTTAAAATTATAAAA-ATTTATTATTATCATCATC-TTCTTGTAAAAGAAATACTAATTATAA
* * * *
828387 ATTTTTTATAAAATTATTCATATTTTAAAATACTTAATCTCAAAGTTTTCCTATACTAGATTATA
192 AATTTTTATAAAATTATTCATATTTTAAAATAATTAACCTCAAAGTTTTCATATACTAGATTATA
*
828452 CATATTGTATAAATTTAATGAAAAAATCAAAATAATTTAATAAAAAATGAATAAACATTATTAAA
257 CATATTATATAAATTTAATGAAAAAATCAAAATAATTTAATAAAAAATGAATAAACATTATTAAA
828517 TGTTATTAAAAAAT
322 TGTTATTAAAAAAT
* * * *
828531 AAAAATTAATGAATACTAATTCATTTAATCCCTTAATTGTAATTAAAAGTTTGTTTTAATATTTT
1 AAAAATTAATGAATAATAATTTATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATA-TTT
* *
828596 TTTTATATTTTTAAACAATTAA-TTTAAAA--AAATAATTTTTTCAAAATATATGAAATTTATAA
65 TTTTATATTTTTAAACAATTAATTTTAAAAGGTAAT-ATTTTTTAAAAATATATGAAATTTATAA
828658 TTTTTAAAATTATAAAAATTTATTATTAT
129 TTTTTAAAATTATAAAAATTTATTATTAT
828687 AAAAAATAAA
Statistics
Matches: 440, Mismatches: 40, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
328 3 0.01
329 74 0.17
330 22 0.05
331 32 0.07
332 3 0.01
333 1 0.00
334 12 0.03
335 39 0.09
336 4 0.01
337 114 0.26
338 113 0.26
339 23 0.05
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (335 bp):
AAAAATTAATGAATAATAATTTATTTAATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
TTTATATTTTTAAACAATTAATTTTAAAAGGTAATATTTTTTAAAAATATATGAAATTTATAATT
TTTAAAATTATAAAAATTTATTATTATCATCATCTTCTTGTAAAAGAAATACTAATTATAAAATT
TTTATAAAATTATTCATATTTTAAAATAATTAACCTCAAAGTTTTCATATACTAGATTATACATA
TTATATAAATTTAATGAAAAAATCAAAATAATTTAATAAAAAATGAATAAACATTATTAAATGTT
ATTAAAAAAT
Found at i:828667 original size:25 final size:27
Alignment explanation
Indices: 828627--828680 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
828617 ATTTAAAAAA
*
828627 ATAATTTTTTCAAAA-TATATGAAATTT
1 ATAATTTTTTCAAAATTATA-AAAATTT
828654 ATAA-TTTTT-AAAATTATAAAAATTT
1 ATAATTTTTTCAAAATTATAAAAATTT
828679 AT
1 AT
828681 TATTATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 9 0.36
27 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATAATTTTTTCAAAATTATAAAAATTT
Found at i:836670 original size:2 final size:2
Alignment explanation
Indices: 836663--836690 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
836653 CCATAGTATT
836663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
836691 AAAAGGTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:844315 original size:3 final size:3
Alignment explanation
Indices: 844309--844341 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
844299 ACATTATTAT
844309 TAA TAA TAA -AA TAA TAA T-A TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
844342 TCCTGGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:844325 original size:11 final size:11
Alignment explanation
Indices: 844309--844339 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
844299 ACATTATTAT
844309 TAATAATAAAA
1 TAATAATAAAA
*
844320 TAATAATATAA
1 TAATAATAAAA
844331 TAATAATAA
1 TAATAATAA
844340 TATCCTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:847590 original size:11 final size:11
Alignment explanation
Indices: 847574--847613 Score: 71
Period size: 11 Copynumber: 3.5 Consensus size: 11
847564 TCCTACTTGA
847574 CATTTTCTTAC
1 CATTTTCTTAC
847585 CATTTTCTTAC
1 CATTTTCTTAC
847596 CATTTTTCTTAC
1 CA-TTTTCTTAC
847608 CATTTT
1 CATTTT
847614 TACTTGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.57
Consensus pattern (11 bp):
CATTTTCTTAC
Found at i:847625 original size:13 final size:12
Alignment explanation
Indices: 847576--847614 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
847566 CTACTTGACA
847576 TTTTCTTACCA-
1 TTTTCTTACCAT
847587 TTTTCTTACCAT
1 TTTTCTTACCAT
847599 TTTTCTTACCAT
1 TTTTCTTACCAT
847611 TTTT
1 TTTT
847615 ACTTGACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTCTTACCAT
Found at i:859143 original size:12 final size:13
Alignment explanation
Indices: 859118--859146 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
859108 ATATATTTAA
859118 TTTATTTAAGTAT
1 TTTATTTAAGTAT
859131 TTTATTTAA-TAT
1 TTTATTTAAGTAT
859143 TTTA
1 TTTA
859147 GTAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
TTTATTTAAGTAT
Found at i:859350 original size:111 final size:109
Alignment explanation
Indices: 859210--859429 Score: 377
Period size: 111 Copynumber: 2.0 Consensus size: 109
859200 TGGAAATCAT
*
859210 ATATCTCTACACTTTGCTGATACCGTAACATTTTAACGTTTTAATTAAATTCAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACCGTAACATTTTAACGTTTTAATTAAATTCAAATTATTAGTAA
859275 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATT-GTTGATTTA-TTAATGCATGATTATTAGATTAAGAATTAA
* * * *
859321 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACCGTAACATTTTAACGTTTTAATTAAATTCAAATTATTAGTAA
859386 TAATTGTTGATTTATTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTGTTGATTTATTAATGCATGATTATTAGATTAAGAATTAA
859430 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
109 30 0.29
110 9 0.09
111 65 0.62
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (109 bp):
ATATCTCGACACTTTGCTGATACCGTAACATTTTAACGTTTTAATTAAATTCAAATTATTAGTAA
TAATTGTTGATTTATTAATGCATGATTATTAGATTAAGAATTAA
Found at i:861533 original size:26 final size:24
Alignment explanation
Indices: 861461--861533 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
861451 TTATATTTGT
861461 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
* *
861486 ATTT-TTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
861509 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
861534 GTTGAACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 12 0.32
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:864696 original size:21 final size:21
Alignment explanation
Indices: 864654--864696 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
864644 TTTCTGGGCT
* *
864654 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
864675 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
864696 A
1 A
864697 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:865246 original size:2 final size:2
Alignment explanation
Indices: 865239--865270 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
865229 CATGTTACAG
865239 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
865271 GAGTGGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:865909 original size:30 final size:30
Alignment explanation
Indices: 865855--866099 Score: 456
Period size: 30 Copynumber: 8.2 Consensus size: 30
865845 TTCGGACCTA
865855 GGATAGTTACCGAGGATC-TTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
*
865884 GAATAGTTACCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
865914 GGATAGTTACCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
865944 GGATAGTTACCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
865974 GGATAGTTACCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
866004 GGATAGTTACCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
*
866034 GGATAGTTATCGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
*
866064 GGATAGTTACTGAGGATCTTTATGACCTCT
1 GGATAGTTACCGAGGATCTTTATGACCTCT
866094 GGATAG
1 GGATAG
866100 GTCTTTCGGA
Statistics
Matches: 210, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
29 17 0.08
30 193 0.92
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
GGATAGTTACCGAGGATCTTTATGACCTCT
Found at i:870110 original size:14 final size:13
Alignment explanation
Indices: 870084--870147 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 13
870074 ATATGATTTC
870084 ATAAGAATATGAA
1 ATAAGAATATGAA
870097 ATAAGAAGTATGAA
1 ATAAGAA-TATGAA
* *
870111 A-ATGACATA--AG
1 ATAAGA-ATATGAA
870122 A-AAGAATATGAA
1 ATAAGAATATGAA
870134 ATATAGAATATGAA
1 ATA-AGAATATGAA
870148 TATGAAATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 2 0.05
13 13 0.32
14 18 0.44
ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22
Consensus pattern (13 bp):
ATAAGAATATGAA
Found at i:870150 original size:20 final size:19
Alignment explanation
Indices: 870088--870155 Score: 86
Period size: 20 Copynumber: 3.6 Consensus size: 19
870078 GATTTCATAA
870088 GAATATGAAATAAGAAGTAT
1 GAATATGAAATAAGAA-TAT
* *
870108 GAAAATGACATAAGAA-A-
1 GAATATGAAATAAGAATAT
870125 GAATATGAAATATAGAATAT
1 GAATATGAAATA-AGAATAT
870145 GAATATGAAAT
1 GAATATGAAAT
870156 CATATGAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.24
18 5 0.12
19 1 0.02
20 25 0.61
ACGTcount: A:0.57, C:0.01, G:0.18, T:0.24
Consensus pattern (19 bp):
GAATATGAAATAAGAATAT
Found at i:870330 original size:4 final size:4
Alignment explanation
Indices: 870321--870349 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
870311 AAATGATGAC
870321 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
870350 ATGGTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:870633 original size:30 final size:30
Alignment explanation
Indices: 870599--870851 Score: 479
Period size: 30 Copynumber: 8.4 Consensus size: 30
870589 GGTTTTTCGG
*
870599 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
870629 GACCTCTGAATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870659 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870689 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870719 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870749 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870779 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
870809 GACCTCTGGATAGTTACTGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
870839 GACCTCTGGATAG
1 GACCTCTGGATAG
870852 GTCTTTCAGA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 219 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:882832 original size:2 final size:2
Alignment explanation
Indices: 882825--882860 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
882815 TTACATTTCG
882825 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
882861 ACCATTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:888323 original size:64 final size:65
Alignment explanation
Indices: 888236--888359 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 65
888226 TAGTTGTTCT
* * *
888236 TGTTCTTCAATTATAATTTGATTT-GC-TGTTAAGAAGTTGCTGAGATTGTTG-TTATAATTGTT
1 TGTTATTCAATTATAATTGGATTTACCAT-TTAA-AAGTTGCTGAGATTGTTGTTTATAATTGTT
888298 TC
64 TC
**
888300 TGTTATTCAATTATGCTTGGATTTACCATTTAAAAGTTGCTGAGATTGTTGTTTATAATT
1 TGTTATTCAATTATAATTGGATTTACCATTTAAAAGTTGCTGAGATTGTTGTTTATAATT
888360 TTTACAGTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 38 0.73
65 13 0.25
66 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (65 bp):
TGTTATTCAATTATAATTGGATTTACCATTTAAAAGTTGCTGAGATTGTTGTTTATAATTGTTTC
Found at i:898460 original size:24 final size:24
Alignment explanation
Indices: 898431--898497 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
898421 CGATTTCTAT
*
898431 TAAAAAAATTATCTTAATTAATTC
1 TAAAAATATTATCTTAATTAATTC
*
898455 TAAAAATATTATCTCT-CTTAAATTC
1 TAAAAATATTATCT-TAATT-AATTC
898480 TAAAAATA-T-TCTTAATTA
1 TAAAAATATTATCTTAATTA
898498 TACTGGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 2 0.05
23 5 0.14
24 16 0.43
25 14 0.38
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATATTATCTTAATTAATTC
Found at i:900104 original size:22 final size:22
Alignment explanation
Indices: 900076--900119 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
900066 TTAGAGTTGC
900076 CTGGCTGCTGATTGAATTTTTT
1 CTGGCTGCTGATTGAATTTTTT
900098 CTGGCTGCTGATTGAATTTTTT
1 CTGGCTGCTGATTGAATTTTTT
900120 TTCTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (22 bp):
CTGGCTGCTGATTGAATTTTTT
Found at i:912443 original size:19 final size:18
Alignment explanation
Indices: 912402--912444 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
912392 CCAAAAATTT
*
912402 ATTATATAAAATATAAAA
1 ATTATATAAAACATAAAA
* *
912420 ATTATTTAAAACATGAAA
1 ATTATATAAAACATAAAA
912438 ATT-TATA
1 ATTATATA
912445 GTCTTATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATTATATAAAACATAAAA
Found at i:912661 original size:26 final size:30
Alignment explanation
Indices: 912632--912700 Score: 74
Period size: 32 Copynumber: 2.4 Consensus size: 30
912622 TTTTTAAATA
912632 ATTTAATTTT-TAG-T-TTTAGA-TTTTAT
1 ATTTAATTTTATAGTTGTTTAGATTTTTAT
*
912658 ATTTATATTTTAATAGTTGTTTATATTTTTAT
1 ATTTA-ATTTT-ATAGTTGTTTAGATTTTTAT
*
912690 ATTTAAATTTA
1 ATTTAATTTTA
912701 AATACTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 5 0.14
27 5 0.14
29 3 0.09
30 2 0.06
31 9 0.26
32 11 0.31
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (30 bp):
ATTTAATTTTATAGTTGTTTAGATTTTTAT
Found at i:913363 original size:20 final size:22
Alignment explanation
Indices: 913328--913377 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
913318 TGTAAATTTA
* *
913328 AATTTAAGAGTATATTGATA-T
1 AATTTAAGAATATATTAATATT
913349 AATTTAA-AATATATTAATATT
1 AATTTAAGAATATATTAATATT
913370 AA-TTAAGA
1 AATTTAAGA
913378 TTATGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (22 bp):
AATTTAAGAATATATTAATATT
Found at i:931241 original size:21 final size:22
Alignment explanation
Indices: 931200--931243 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
931190 CTGAACTTAA
*
931200 TAATTTTAATTAAGTTATTATT
1 TAATTTTAATTAAGATATTATT
931222 TAATTTT-ATTAATGAT-TTATT
1 TAATTTTAATTAA-GATATTATT
931243 T
1 T
931244 TATATTAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TAATTTTAATTAAGATATTATT
Found at i:931565 original size:21 final size:21
Alignment explanation
Indices: 931541--931658 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
931531 TATCGTAAAT
931541 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
931562 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
931582 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
931603 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
931623 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
931644 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
931659 CTACAGTTGT
Statistics
Matches: 71, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 28 0.39
21 43 0.61
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:931590 original size:20 final size:20
Alignment explanation
Indices: 931562--931634 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
931552 TAGTTGAAAA
*
931562 TCGCGTTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
* ** **
931582 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGAT-TTTCCATT
*
931603 TCGCGTTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
931623 TCGCATTGCGAT
1 TCGCATTGCGAT
931635 AGTTGAAAAT
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTCCATT
Found at i:931597 original size:41 final size:41
Alignment explanation
Indices: 931540--931655 Score: 223
Period size: 41 Copynumber: 2.8 Consensus size: 41
931530 CTATCGTAAA
*
931540 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
931581 TTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
931622 TTCGCATTGCGATAGTTGAAAATCGCGTTGCGAT
1 TTCGCATTGCGATAGTTGAAAATCGCGTTGCGAT
931656 AGTCTACAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
TTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Done.