Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009459.1 Hibiscus syriacus cultivar Beakdansim tig00113721_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: 1147073
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 3 of 4
Found at i:660240 original size:682 final size:680
Alignment explanation
Indices: 658932--660295 Score: 2553
Period size: 682 Copynumber: 2.0 Consensus size: 680
658922 TCTGGAAGCT
658932 TTTTATTGAATGCAACATCCAACCGCGCATCCAAAGTTCTCACAAACAATCTTTCCATCTCGAGA
1 TTTTATTGAATGCAACATCCAACCGCGCATCCAAAGTTCTCACAAACAATCTTTCCATCTCGAGA
658997 TGCCCAGGACAACACCTCCAGAGCTGCAAAACAAGAAAAAAAGGGTCAGTATCATCATTTTTTCT
66 TGCCCAGGACAACACCTCCAGAGCTGCAAAACAAGAAAAAAAGGGTCAGTATCATCATTTTTTCT
*
659062 TTTTCATTTTTAAGGTAGAGGATGGCAGAAGGGGTACATCAAGGGGATGTTGCTCGGATCATAAA
131 TTTTCATTTTTAAGGTAGAGGAAGGCAGAAGGGGTACATCAAGGGGATGTTGCTCGGATCATAAA
659127 ACGGCAAAACCGTTTTGCCATTATTTCAAACAACTAGTAGAACCATACTAGGGAACAGTTAATTA
196 ACGGCAAAACCGTTTTGCCATTATTTCAAACAACTAGTAGAACCATACTAGGGAACAGTTAATTA
*
659192 CAACCTCAACCAACATCACAACCCTCCCCAGTTGTAAACTATAAGGAGGAATGTTGGTCCAAAGA
261 CAACCTCAACCAACATCACAACCCTCCCCAGTTGTAAACTATAAGGAGGAATGTTGGTCCAAAAA
659257 ATAACGAGTCCTGCCAAATCATTTGCATACTGGTAACATGTAATCTTGCATTTTCGTAGAATTAA
326 ATAACGAGTCCTGCCAAATCATTTGCATACTGGTAACATGTAATCTTGCATTTTCGTAGAATTAA
659322 TAATATATACCAGAAAGGGCCATGCGCACCATGGTGAGAAGGTGCAGGGGAAGATGGACATCGTC
391 TAATATATACCAGAAAGGGCCATGCGCACCATGGTGAGAAGGTGCAGGGGAAGATGGACATCGTC
*
659387 GATGAATATTTCCGTGGATCAACATTAACTTTAGAAGCATATTCCTCTTTTGCTGAATCCATACA
456 GATGAATATTTCCGTGGATCAACATTAACTTTAGAAGCATAGTCCTCTTTTGCTGAA--CATACA
659452 GACACCACCAAGTGCACATCATCTTTGCGACATCGCAGTAGGACAGCAGGTTCTTTCAGTCTGAC
519 GACACCACCAAGTGCACATCATCTTTGCGACATCGCAGTAGGACAGCAGGTTCTTTCAGTCTGAC
659517 CAAACTCTGGAATAACAGCAAAACTTTCAATATTCAGAGTAGATAAATATCGTTCGATTCAAAAC
584 CAAACTCTGGAATAACAGCAAAACTTTCAATATTCAGAGTAGATAAATATCGTTCGATTCAAAAC
659582 TC-TATCCAATGTTGCAATTTTCAATATTTGC
649 TCTTATCCAATGTTGCAATTTTCAATATTTGC
659613 TTTTATTGAATGCAACATCCAACCGCGCATCCAAAGTGTTCTCACAAACAATCTTTCCATCTCGA
1 TTTTATTGAATGCAACATCCAACCGCGCATCCAAA--GTTCTCACAAACAATCTTTCCATCTCGA
659678 GATG-CCAGGACAACACCTCCAGAGCTGCAAAACAAGAAAAAAAAGGGTCAGTATCATCA-TTTT
64 GATGCCCAGGACAACACCTCCAGAGCTGCAAAACAAG-AAAAAAAGGGTCAGTATCATCATTTTT
659741 TCTTTTTCATTTTTAAGGTAGAGGAAGGCAGAAGGGGTACATCAAGGGGATGTTGCTCGGATCAT
128 TCTTTTTCATTTTTAAGGTAGAGGAAGGCAGAAGGGGTACATCAAGGGGATGTTGCTCGGATCAT
659806 AAAACGGCAAAACCGTTTTGCCATTATTTCAAACAACTAGTAGAACCATACTAGGGAACAGTTAA
193 AAAACGGCAAAACCGTTTTGCCATTATTTCAAACAACTAGTAGAACCATACTAGGGAACAGTTAA
659871 TTACAACCTCAAACCAACATCACAACCCTCCCCAGTTGTAAACTATAAGGAGGAATGTTGGTCCA
258 TTACAACCTC-AACCAACATCACAACCCTCCCCAGTTGTAAACTATAAGGAGGAATGTTGGTCCA
659936 AAAAATAACGAGTCCTGCCAAATCATTTGCATAACTGGTAACATGTAATCTTGCATTTTCGTAGA
322 AAAAATAACGAGTCCTGCCAAATCATTTGCAT-ACTGGTAACATGTAATCTTGCATTTTCGTAGA
660001 ATTAATAATATATACCAGAAAGGGCCATGCGCACCATGGTGAGAAGGTGCAGGGGGAAGATGGAC
386 ATTAATAATATATACCAGAAAGGGCCATGCGCACCATGGTGAGAAGGTGCA-GGGGAAGATGGAC
660066 ATCGTCGATGAATATTTCCGGTGGATCAACATTAACTTTAGAAGCATAGTCCTCTTTTGCTG-A-
450 ATCGTCGATGAATATTTCC-GTGGATCAACATTAACTTTAGAAGCATAGTCCTCTTTTGCTGAAC
660129 AT-CAGACACCACCAAGTGCACATCATCTTTGCGACATCGCAGTAGGACAGCAGGTTCTTTCAGT
514 ATACAGACACCACCAAGTGCACATCATCTTTGCGACATCGCAGTAGGACAGCAGGTTCTTTCAGT
660193 CTGACC-AACTCTGGAATATACAGCAAAACTTTCAATATTCGAGAGTAGATAAATATCGTTCGAT
579 CTGACCAAACTCTGGAATA-ACAGCAAAACTTTCAATATTC-AGAGTAGATAAATATCGTTCGAT
660257 TCAAAACTCTTATCCAATGTTGCAATTTTCAATATTTGC
642 TCAAAACTCTTATCCAATGTTGCAATTTTCAATATTTGC
660296 AAAAAATGAT
Statistics
Matches: 670, Mismatches: 3, Indels: 18
0.97 0.00 0.03
Matches are distributed among these distances:
680 12 0.02
681 124 0.19
682 209 0.31
683 168 0.25
684 83 0.12
685 33 0.05
686 41 0.06
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (680 bp):
TTTTATTGAATGCAACATCCAACCGCGCATCCAAAGTTCTCACAAACAATCTTTCCATCTCGAGA
TGCCCAGGACAACACCTCCAGAGCTGCAAAACAAGAAAAAAAGGGTCAGTATCATCATTTTTTCT
TTTTCATTTTTAAGGTAGAGGAAGGCAGAAGGGGTACATCAAGGGGATGTTGCTCGGATCATAAA
ACGGCAAAACCGTTTTGCCATTATTTCAAACAACTAGTAGAACCATACTAGGGAACAGTTAATTA
CAACCTCAACCAACATCACAACCCTCCCCAGTTGTAAACTATAAGGAGGAATGTTGGTCCAAAAA
ATAACGAGTCCTGCCAAATCATTTGCATACTGGTAACATGTAATCTTGCATTTTCGTAGAATTAA
TAATATATACCAGAAAGGGCCATGCGCACCATGGTGAGAAGGTGCAGGGGAAGATGGACATCGTC
GATGAATATTTCCGTGGATCAACATTAACTTTAGAAGCATAGTCCTCTTTTGCTGAACATACAGA
CACCACCAAGTGCACATCATCTTTGCGACATCGCAGTAGGACAGCAGGTTCTTTCAGTCTGACCA
AACTCTGGAATAACAGCAAAACTTTCAATATTCAGAGTAGATAAATATCGTTCGATTCAAAACTC
TTATCCAATGTTGCAATTTTCAATATTTGC
Found at i:661222 original size:32 final size:33
Alignment explanation
Indices: 661176--661244 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
661166 TAGTGTGATA
*
661176 AACTATACAAATCCAGTGTGATAAAGC-AATTT
1 AACTATACAAATCCAGTATGATAAAGCAAATTT
* *
661208 AACTATACAGATCCAGTATGATAGAGCAAATTT
1 AACTATACAAATCCAGTATGATAAAGCAAATTT
661241 AACT
1 AACT
661245 GACTAATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 24 0.73
33 9 0.27
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (33 bp):
AACTATACAAATCCAGTATGATAAAGCAAATTT
Found at i:662057 original size:21 final size:21
Alignment explanation
Indices: 662031--662072 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
662021 TGGAGATGAG
662031 TTCTTCTATTCGTGCTTCCCA
1 TTCTTCTATTCGTGCTTCCCA
662052 TTCTTCTATTCGTGCTTCCCA
1 TTCTTCTATTCGTGCTTCCCA
662073 GATGTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.10, T:0.48
Consensus pattern (21 bp):
TTCTTCTATTCGTGCTTCCCA
Found at i:677867 original size:13 final size:13
Alignment explanation
Indices: 677849--677873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
677839 CAACAACTAA
677849 TTTGACGTGAAAG
1 TTTGACGTGAAAG
677862 TTTGACGTGAAA
1 TTTGACGTGAAA
677874 TGAAAAGGAC
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:0.08, G:0.28, T:0.32
Consensus pattern (13 bp):
TTTGACGTGAAAG
Found at i:681352 original size:5 final size:5
Alignment explanation
Indices: 681342--681372 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
681332 TATACTGCCT
681342 CTCAC CTCAC CTCAC CTCAC CTCAC CTCAC C
1 CTCAC CTCAC CTCAC CTCAC CTCAC CTCAC C
681373 GGCTCAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.61, G:0.00, T:0.19
Consensus pattern (5 bp):
CTCAC
Found at i:681645 original size:29 final size:29
Alignment explanation
Indices: 681599--681655 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
681589 AGTGTTTGCC
*
681599 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGAACTCCGGGCGACCTT
*
681628 GTAGGTCGCCATGAACTCCTGGCGACCT
1 GTAGGTCGCCATGAACTCCGGGCGACCT
681656 ACCCTTGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGAACTCCGGGCGACCTT
Found at i:681683 original size:12 final size:12
Alignment explanation
Indices: 681666--681690 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
681656 ACCCTTGCGA
681666 GAGAATGAACGT
1 GAGAATGAACGT
681678 GAGAATGAACGT
1 GAGAATGAACGT
681690 G
1 G
681691 TTGCATGGCA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:681752 original size:29 final size:29
Alignment explanation
Indices: 681719--681774 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
681709 TCCCAACACA
*
681719 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
681748 TAGGTCGTCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
681775 ACCCTCGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:681878 original size:14 final size:14
Alignment explanation
Indices: 681859--681886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
681849 TCGGATGCTC
681859 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
681873 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
681887 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:681889 original size:10 final size:10
Alignment explanation
Indices: 681839--681872 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
681829 CATAGCTCAT
681839 TCGGATGGCC
1 TCGGATGGCC
681849 TCGGAT-GCTC
1 TCGGATGGC-C
681859 TCGGATGGCC
1 TCGGATGGCC
681869 TCGG
1 TCGG
681873 TCGGATGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:684683 original size:20 final size:20
Alignment explanation
Indices: 684660--684706 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
684650 AATCTGTAAA
* *
684660 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTAAAAT
684680 TCGCAACACAAAAGTAAAAT
1 TCGCAACACAAAAGTAAAAT
684700 TCGCAAC
1 TCGCAAC
684707 TGAATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.15
Consensus pattern (20 bp):
TCGCAACACAAAAGTAAAAT
Found at i:684720 original size:19 final size:19
Alignment explanation
Indices: 684696--684778 Score: 157
Period size: 19 Copynumber: 4.4 Consensus size: 19
684686 CACAAAAGTA
684696 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
684715 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
684734 AAATTCGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
*
684753 AAATTAGCAACTGAATTTC
1 AAATTCGCAACTGAATTTC
684772 AAATTCG
1 AAATTCG
684779 TAACACGAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (19 bp):
AAATTCGCAACTGAATTTC
Found at i:684801 original size:38 final size:38
Alignment explanation
Indices: 684696--684790 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 38
684686 CACAAAAGTA
*
684696 AAATTCGCAACTGAATTTCAAATTCGCAACTGAATTTC
1 AAATTCGCAACCGAATTTCAAATTCGCAACTGAATTTC
* *
684734 AAATTCGCAACTGAATTTCAAATTAGCAACTGAATTTC
1 AAATTCGCAACCGAATTTCAAATTCGCAACTGAATTTC
*
684772 AAATTCGTAACACGAATTT
1 AAATTCGCAAC-CGAATTT
684791 AGTTTCGCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 47 0.89
39 6 0.11
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (38 bp):
AAATTCGCAACCGAATTTCAAATTCGCAACTGAATTTC
Found at i:685715 original size:24 final size:24
Alignment explanation
Indices: 685688--685739 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
685678 GTATTTGAAA
685688 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
685712 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
685736 TTTG
1 TTTG
685740 TTGATGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:688015 original size:18 final size:18
Alignment explanation
Indices: 687992--688027 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
687982 AAGCAAAGGG
*
687992 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
688010 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
688028 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:688376 original size:20 final size:20
Alignment explanation
Indices: 688353--688391 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
688343 AAGCGTTGTG
*
688353 ATAGTCAAATTCGCAACGCA
1 ATAGTCAAATTCACAACGCA
688373 ATAGTCAAATTCACAACGC
1 ATAGTCAAATTCACAACGC
688392 GAAATCGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.21
Consensus pattern (20 bp):
ATAGTCAAATTCACAACGCA
Found at i:688536 original size:25 final size:25
Alignment explanation
Indices: 688496--688553 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
688486 AAATCAATTA
* * *
688496 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATAGGTACATCATTTG
688521 AACATTGTTATAGGTACATCATTTG
1 AACATTGTTATAGGTACATCATTTG
688546 AACATTGT
1 AACATTGT
688554 ATGTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (25 bp):
AACATTGTTATAGGTACATCATTTG
Found at i:689186 original size:66 final size:60
Alignment explanation
Indices: 689106--689245 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 60
689096 TTTTAGAAAC
*
689106 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT----AAGC-AAAAAATAAATCTTATTTACAAATC-AATT
689171 A
60 A
* * **
689172 AACAAATCAACTTTTACAAATCAATTAATCAAAAAATAAATCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
689232 AACAAATCAACTTT
1 AACAAATCAACTTT
689246 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 19 0.28
61 21 0.30
62 3 0.04
66 26 0.38
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (60 bp):
AACAAATCAACTTTTACAAATCAATTAAGCAAAAAATAAATCTTATTTACAAATCAATTA
Found at i:690645 original size:21 final size:21
Alignment explanation
Indices: 690621--690696 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
690611 GCGGACGAGA
690621 CCTCTTGAACGATGACG-GGGG
1 CCTCTTGAACGATGA-GAGGGG
*
690642 CCTCTTCAACGATGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * *
690663 CTTCTTCG-ATGATAAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
690684 CCTCTTGAACGAT
1 CCTCTTGAACGAT
690697 AGGAGACGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.04
21 43 0.96
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:693179 original size:22 final size:22
Alignment explanation
Indices: 693151--693198 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
693141 GGAGATAGAT
693151 GGATTTCGTCGGAAATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
*
693173 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
693195 GGAT
1 GGAT
693199 GTCGCCGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGGAAATGGGGAC
Found at i:699908 original size:43 final size:43
Alignment explanation
Indices: 699845--699932 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
699835 ACAAACATTG
*
699845 GCGGCGTTGTTTTTACAAACGATGCAATAGGTTCATACATTTA
1 GCGGCGTTGTTTTTACAAACGATGCAATAGGTTCAGACATTTA
* *
699888 GCGGCGTT-TTTCTTATAAACGCTGCAATAGGTTCAGACATTTA
1 GCGGCGTTGTTT-TTACAAACGATGCAATAGGTTCAGACATTTA
699931 GC
1 GC
699933 TTCATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (43 bp):
GCGGCGTTGTTTTTACAAACGATGCAATAGGTTCAGACATTTA
Found at i:705987 original size:39 final size:40
Alignment explanation
Indices: 705943--706034 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 40
705933 TTAATAAAAT
705943 AATTTAGAATGTTAAT-GT-GAAACAAGTTAAGAAATTAAG
1 AATTTAGAATGTTAATGGTGGAAA-AAGTTAAGAAATTAAG
*
705982 AATTTAGAATGTT-ATGGTGGAAAAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATGGTGGAAAAAGTTAAGAAATTAAG
*
706021 AATTTTGAATGTTA
1 AATTTAGAATGTTA
706035 GAGTAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
38 2 0.04
39 42 0.88
40 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.18, T:0.35
Consensus pattern (40 bp):
AATTTAGAATGTTAATGGTGGAAAAAGTTAAGAAATTAAG
Found at i:706048 original size:39 final size:38
Alignment explanation
Indices: 705943--706056 Score: 126
Period size: 39 Copynumber: 2.9 Consensus size: 38
705933 TTAATAAAAT
*
705943 AATTTAGAATGTTA-ATGTGAAACAAGTTAAGAAATTAAG
1 AATTTAGAATGTTAGA-GTGAAA-AATTTAAGAAATTAAG
705982 AATTTAGAATGTTATG-GTGGAAAAATTTAAGAAATTAAG
1 AATTTAGAATGTTA-GAGT-GAAAAATTTAAGAAATTAAG
* * *
706021 AATTTTGAATGTTAGAGTAAAATAATTTGA-AAATTA
1 AATTTAGAATGTTAGAGTGAAA-AATTTAAGAAATTA
706057 TAAATAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
38 10 0.15
39 52 0.79
40 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.18, T:0.34
Consensus pattern (38 bp):
AATTTAGAATGTTAGAGTGAAAAATTTAAGAAATTAAG
Found at i:709765 original size:22 final size:22
Alignment explanation
Indices: 709740--709784 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
709730 TCTCTCAACG
709740 ACTATCCCTCTTTCTTGATCAA
1 ACTATCCCTCTTTCTTGATCAA
709762 ACTATCCCTCTTTCTTGATCAA
1 ACTATCCCTCTTTCTTGATCAA
709784 A
1 A
709785 GGCCGGTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.40
Consensus pattern (22 bp):
ACTATCCCTCTTTCTTGATCAA
Found at i:713299 original size:2 final size:2
Alignment explanation
Indices: 713292--713341 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
713282 ATTGGTGGTA
713292 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
713334 AT AT AT AT
1 AT AT AT AT
713342 TGGGGTCACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:721022 original size:36 final size:38
Alignment explanation
Indices: 720978--721063 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
720968 TATTTTAGGG
* *
720978 ACCAAAGATGAAATTCTCAT-TGCAAAGTTGTCCACCA
1 ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCA
*
721015 ACC-AAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
1 ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCA
721052 ACCAAAGATGAA
1 ACCAAAGATGAA
721064 TTTTCTAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 15 0.34
37 21 0.48
38 8 0.18
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.21
Consensus pattern (38 bp):
ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCA
Found at i:723838 original size:21 final size:21
Alignment explanation
Indices: 723812--723856 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
723802 GTTTTCTGGG
* *
723812 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
723833 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
723854 CAA
1 CAA
723857 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:725304 original size:23 final size:23
Alignment explanation
Indices: 725271--725361 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
725261 ATTATTATAT
*
725271 GGCACTTCGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* *
725294 GGTACTACGGTGCATTTCTATGC
1 GGCACTACGGTGCATTTCTACGC
* * *
725317 GGCACTACGGTGTAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
725340 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
725362 AGCTATGGTG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:728050 original size:16 final size:15
Alignment explanation
Indices: 728029--728075 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
728019 GGTAATTAAA
728029 GATTGATAAGGAATTT
1 GATTGATAA-GAATTT
*
728045 GATTGATTAATGATTTT
1 GATTGA-TAA-GAATTT
728062 GATTGATAAGAATT
1 GATTGATAAGAATT
728076 GATGATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 14 0.52
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (15 bp):
GATTGATAAGAATTT
Found at i:730443 original size:23 final size:23
Alignment explanation
Indices: 730416--730502 Score: 129
Period size: 23 Copynumber: 3.8 Consensus size: 23
730406 CATTATTATA
*
730416 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTACGGTGCATTTCTACG
*
730439 CGGCACTACGGTGCATTTCTACG
1 TGGCACTACGGTGCATTTCTACG
* *
730462 TGGCACTACGATGCAATTCTACG
1 TGGCACTACGGTGCATTTCTACG
*
730485 TGGCACTTCGGTGCATTT
1 TGGCACTACGGTGCATTT
730503 ATGCGAGCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.31
Consensus pattern (23 bp):
TGGCACTACGGTGCATTTCTACG
Found at i:730761 original size:20 final size:21
Alignment explanation
Indices: 730738--730777 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
730728 AAATGATTGT
730738 ATATAA-ATATGTATGTTTTG
1 ATATAAGATATGTATGTTTTG
*
730758 ATATAATGATATGTGTGTTT
1 ATATAA-GATATGTATGTTT
730778 CTCGTGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
ATATAAGATATGTATGTTTTG
Found at i:733468 original size:17 final size:17
Alignment explanation
Indices: 733446--733481 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
733436 CAATGTATGT
733446 ATTTTAAGAACATCTTA
1 ATTTTAAGAACATCTTA
733463 ATTTTAAGAACATCTTA
1 ATTTTAAGAACATCTTA
733480 AT
1 AT
733482 GATGAATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTTAAGAACATCTTA
Found at i:736220 original size:17 final size:17
Alignment explanation
Indices: 736200--736378 Score: 113
Period size: 17 Copynumber: 10.2 Consensus size: 17
736190 TTATATCATA
*
736200 TTATATTGTATATTATT
1 TTATATTATATATTATT
* *
736217 TTATATAGTATATATGATA
1 TTATAT--TATATATTATT
*
736236 TGATATTATATA-TATT
1 TTATATTATATATTATT
*
736252 ATAGTATTATATATTATT
1 TTA-TATTATATATTATT
* *
736270 ATATAGTATATATTATT
1 TTATATTATATATTATT
736287 TATATAATTATATAGTATATT
1 T-TAT-ATTATATA-T-TATT
736308 ATTATATTATATATTA--
1 -TTATATTATATATTATT
736324 -TAGTA-TATATA-T-TT
1 TTA-TATTATATATTATT
736338 TTACTATTAT-TATTATT
1 TTA-TATTATATATTATT
736355 ATTATTATTATATTTATTATT
1 -TTA-TATTATA--TATTATT
736376 TTA
1 TTA
736379 GGTCCAAATT
Statistics
Matches: 129, Mismatches: 13, Indels: 37
0.72 0.07 0.21
Matches are distributed among these distances:
13 1 0.01
14 8 0.06
15 8 0.06
16 7 0.05
17 36 0.28
18 21 0.16
19 21 0.16
20 12 0.09
21 14 0.11
22 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (17 bp):
TTATATTATATATTATT
Found at i:736322 original size:12 final size:12
Alignment explanation
Indices: 736197--736371 Score: 120
Period size: 12 Copynumber: 14.6 Consensus size: 12
736187 TTATTATATC
*
736197 ATATTATATTGT
1 ATATTATATTAT
*
736209 ATATTATTTTAT
1 ATATTATATTAT
*
736221 ATAGTATA-TAT
1 ATATTATATTAT
*
736232 GATATGATA-T-T
1 -ATATTATATTAT
736243 ATA-TATATTAT
1 ATATTATATTAT
736254 AGTATTATA-TAT
1 A-TATTATATTAT
736266 -TATTATATAGTAT
1 ATATTATAT--TAT
736279 ATATTAT-TTAT
1 ATATTATATTAT
736290 ATAATTATATAGTAT
1 AT-ATTATAT--TAT
736305 ATTATTATATTAT
1 A-TATTATATTAT
*
736318 ATATTATAGTAT
1 ATATTATATTAT
*
736330 ATA-TAT-TTTT
1 ATATTATATTAT
736340 ACTATTATTATTAT
1 A-TATTA-TATTAT
736354 -TATTATTATTAT
1 ATATTA-TATTAT
736366 AT-TTAT
1 ATATTAT
736372 TATTTTAGGT
Statistics
Matches: 133, Mismatches: 11, Indels: 39
0.73 0.06 0.21
Matches are distributed among these distances:
9 3 0.02
10 14 0.11
11 17 0.13
12 63 0.47
13 15 0.11
14 9 0.07
15 11 0.08
16 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (12 bp):
ATATTATATTAT
Found at i:736336 original size:53 final size:52
Alignment explanation
Indices: 736188--736375 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 52
736178 GGTTTCTTTT
* * *
736188 TATTA-TATCATATTATATT-GTATATTATT-TTATA-TAGTATATATGATATGA
1 TATTATTAT-ATATTATATTATTATATTATTATTATAGTA-TATATATTAT-TTA
*
736239 TATTA-TATATATTATAGTATTATA-TATTATTATA-TAGTATATATTATTTA
1 TATTATTATATATTATATTATTATATTATTATTATAGTA-TATATATTATTTA
* *
736289 TATAATTATATAGTATATTATTATATTATATATTATAGTATATATATT-TTTA
1 TATTATTATATATTATATTATTATATTAT-TATTATAGTATATATATTATTTA
736341 CTATTATTAT-TATTATTATTATTATATTTATTATT
1 -TATTATTATATATTA-TATTATTATA-TTATTATT
736376 TTAGGTCCAA
Statistics
Matches: 119, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
50 19 0.16
51 46 0.39
52 11 0.09
53 37 0.31
54 6 0.05
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (52 bp):
TATTATTATATATTATATTATTATATTATTATTATAGTATATATATTATTTA
Found at i:736360 original size:15 final size:15
Alignment explanation
Indices: 736239--736375 Score: 74
Period size: 15 Copynumber: 9.1 Consensus size: 15
736229 TATGATATGA
736239 TATTA-TATATATTA-
1 TATTATTAT-TATTAT
*
736253 TAGTATTATATATTAT
1 TATTATTAT-TATTAT
*
736269 TATATAGTATATATTAT
1 TAT-TATTAT-TATTAT
* *
736286 T-TATATAATTATATAG
1 TAT-TATTATTAT-TAT
736302 TA-TATTATTA-TAT
1 TATTATTATTATTAT
*
736315 TATATATTA-TAGTA-
1 TAT-TATTATTATTAT
* *
736329 TATATATTTTTACTAT
1 TAT-TATTATTATTAT
736345 TATTATTATTATTAT
1 TATTATTATTATTAT
736360 TATTA-TATTTATTAT
1 TATTATTA-TTATTAT
736375 T
1 T
736376 TTAGGTCCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
13 4 0.04
14 16 0.16
15 53 0.53
16 14 0.14
17 13 0.13
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (15 bp):
TATTATTATTATTAT
Found at i:738554 original size:2 final size:2
Alignment explanation
Indices: 738547--738580 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
738537 GTATCCATGT
738547 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
738581 ATTTGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:743497 original size:13 final size:13
Alignment explanation
Indices: 743479--743507 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
743469 TAATCAATAT
743479 AATAAATTACTGA
1 AATAAATTACTGA
743492 AATAAATTACTGA
1 AATAAATTACTGA
743505 AAT
1 AAT
743508 TTTAGGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (13 bp):
AATAAATTACTGA
Found at i:743829 original size:107 final size:108
Alignment explanation
Indices: 743641--743872 Score: 312
Period size: 115 Copynumber: 2.1 Consensus size: 108
743631 TTTTAGAGTA
* * *
743641 TATTAATAAACTATATTTTATTTTTAGTATATAAAAAATCAAAGAATAAAATAAAGTGAATTAGA
1 TATTAATTAA-TATATTTTATTTTTAGTAAATAAAAAATCAAAGAATAAAACAAAGTGAATTAG-
743706 TTTAACTTTATCATAGACCCTTAAAATATTATAATAGTAATTTA-TTATT
64 --T-ACTTTA-CATAGACCCTTAAAATATTATAATAGTAATTTATTTA-T
743755 TATTAATTAATATATTTTATTTTTAAAGTAAATAAAAAATCAAAGAATAAAACAAAGTGAATTAG
1 TATTAATTAATATATTTTATTTTT--AGTAAATAAAAAATCAAAGAATAAAACAAAGTGAATTAG
*
743820 -A-TTTA-ATAGACCGTTAAAATATTATAATAGTAATTTATTTAT
64 TACTTTACATAGACCCTTAAAATATTATAATAGTAATTTATTTAT
743862 TATT-ATTAATA
1 TATTAATTAATA
743873 AATAATTATC
Statistics
Matches: 111, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
106 7 0.06
107 36 0.32
108 3 0.03
109 4 0.04
110 1 0.01
113 14 0.13
114 9 0.08
115 37 0.33
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (108 bp):
TATTAATTAATATATTTTATTTTTAGTAAATAAAAAATCAAAGAATAAAACAAAGTGAATTAGTA
CTTTACATAGACCCTTAAAATATTATAATAGTAATTTATTTAT
Found at i:744145 original size:20 final size:19
Alignment explanation
Indices: 744100--744147 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
744090 TAATTCTACA
* *
744100 TTTTTTTATATTTTTTGTT
1 TTTTTTTATAATTTTTATT
744119 TTGTTTTTATAATTTTTATT
1 TT-TTTTTATAATTTTTATT
*
744139 TATTTTTAT
1 TTTTTTTAT
744148 GAAACATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTATAATTTTTATT
Found at i:747811 original size:16 final size:16
Alignment explanation
Indices: 747790--747841 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
747780 TGTTATATCA
*
747790 CTTTTCAAGCATAACC
1 CTTTTCAAGTATAACC
*
747806 CTTTTCAAGTA-AGACA
1 CTTTTCAAGTATA-ACC
*
747822 CTTTTCAAGTATAATC
1 CTTTTCAAGTATAACC
747838 CTTT
1 CTTT
747842 ATTGAATCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (16 bp):
CTTTTCAAGTATAACC
Found at i:757018 original size:158 final size:158
Alignment explanation
Indices: 756830--757167 Score: 450
Period size: 158 Copynumber: 2.1 Consensus size: 158
756820 TTTATTTTAA
* *
756830 GTACTTTCAATTTCT-CTTTTTGATAACAAATTTTCTA-TTTTCTATTTAGGCCCTCAATTTTTT
1 GTACTTTCAATTCCTACTTTTTGATAACAAATTTTCTATTTTTCAATTTAGGCCCTCAA-TTTTT
* *
756893 TATAACTTCCTTATTTCTTCAATTCATCATTTATTTTAAGTATATTTTTA-CTAAATTTGAATCA
65 TATAACTTCCTTATTTCGTCAATTCATCATTTATTTTAAGTATATTTTTATC-AAATTTGAACCA
* * **
756957 TATGCTCCTAAACCATCGTAGAATACATAT
129 CATGCTCATAAACCATAATAGAATACATAT
* *
756987 GTACTTTCAATTCCTACTTTTTGATAACAAATTTTCTATTTTTCAATTTTGTCCCTCAATTTTTT
1 GTACTTTCAATTCCTACTTTTTGATAACAAATTTTCTATTTTTCAATTTAGGCCCTCAATTTTTT
* * * *
757052 ATAATTTTCTTATTTCGTCAATTCATCTTTTATTTTAAGTATGTTTTTATCAAATTTGAACCACA
66 ATAACTTCCTTATTTCGTCAATTCATCATTTATTTTAAGTATATTTTTATCAAATTTGAACCACA
* * *
757117 TGCTCATATATCATAATAGAATACCTAT
131 TGCTCATAAACCATAATAGAATACATAT
*
757145 GTAAC-TTCAATTCTTACCTTTTT
1 GT-ACTTTCAATTCCTA-CTTTTT
757168 TTTTTACTAA
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
157 14 0.09
158 118 0.75
159 26 0.16
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (158 bp):
GTACTTTCAATTCCTACTTTTTGATAACAAATTTTCTATTTTTCAATTTAGGCCCTCAATTTTTT
ATAACTTCCTTATTTCGTCAATTCATCATTTATTTTAAGTATATTTTTATCAAATTTGAACCACA
TGCTCATAAACCATAATAGAATACATAT
Found at i:763493 original size:23 final size:25
Alignment explanation
Indices: 763444--763493 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
763434 CATCTTATCT
*
763444 ATAATTAGATTGATTCTTTTTTACATA
1 ATAATTAGATTGA-T-TTTATTACATA
763471 ATAATTAGATTGA-TTTATT-CATA
1 ATAATTAGATTGATTTTATTACATA
763494 TTCATTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 5 0.23
27 13 0.59
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (25 bp):
ATAATTAGATTGATTTTATTACATA
Found at i:764493 original size:17 final size:18
Alignment explanation
Indices: 764452--764498 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
764442 TGTTTACGAG
*
764452 GGAATTGAAATATGTGAA
1 GGAATTGAAATCTGTGAA
* *
764470 TGAATTGAAATCTGT-CA
1 GGAATTGAAATCTGTGAA
*
764487 GGAATTGGAATC
1 GGAATTGAAATC
764499 CAATTCCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (18 bp):
GGAATTGAAATCTGTGAA
Found at i:772957 original size:22 final size:22
Alignment explanation
Indices: 772932--772982 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
772922 TCTAATTAGG
* *
772932 TTAATTCGGTC-AGTTAATTCAT
1 TTAATTCGATCGA-TTAATTCAA
*
772954 TTAATTTGATCGATTAATTCAA
1 TTAATTCGATCGATTAATTCAA
772976 TTAATTC
1 TTAATTC
772983 CGAAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (22 bp):
TTAATTCGATCGATTAATTCAA
Found at i:773634 original size:2 final size:2
Alignment explanation
Indices: 773627--773654 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
773617 GGAGCAAAAC
773627 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
773655 GTGTCATCGT
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):
AT
Found at i:777084 original size:4 final size:4
Alignment explanation
Indices: 777075--777106 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
777065 AATTTCTAGA
777075 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
777107 GTGATAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:778909 original size:3 final size:3
Alignment explanation
Indices: 778901--778970 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
778891 TTCATTTTAA
**
778901 ATT ATT ATT ATT AAA 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
* * *
778949 AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT
778971 TAAATATTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:778976 original size:18 final size:18
Alignment explanation
Indices: 778901--778979 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
778891 TTCATTTTAA
778901 ATTATTATTATTA-AAATT
1 ATTATTATTATTATAAA-T
* *
778919 ATTATTATTATTATTATT
1 ATTATTATTATTATAAAT
778937 ATTATTATTATTAATAGTAAT
1 ATTATTATTATT-ATA--AAT
778958 ATTATTTATTATT-TAAAT
1 ATTA-TTATTATTATAAAT
778976 ATTA
1 ATTA
778980 CAAAGCCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 33 0.63
19 3 0.06
20 2 0.04
21 6 0.12
22 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
ATTATTATTATTATAAAT
Found at i:780517 original size:35 final size:35
Alignment explanation
Indices: 780442--780517 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
780432 TTACTTAATT
*
780442 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
780477 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
780512 TTTATT
1 TTTATT
780518 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:788104 original size:45 final size:45
Alignment explanation
Indices: 788053--788197 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 45
788043 GAAGTGTTCT
788053 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
* * * * * * ** * ** *
788098 TTGAATT-T-GGAAGATGGATGTGCTCATAGCATCTTCTGGAAGT-GTTCT
1 TTGAATTATCTG-ATATGG-TTTGGT-AT-GAAACCAC-AGAA-TCAATCA
788146 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
788191 TTGAATT
1 TTGAATT
788198 TGGAAGATGG
Statistics
Matches: 67, Mismatches: 24, Indels: 18
0.61 0.22 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 23 0.34
46 6 0.09
47 6 0.09
48 16 0.24
49 7 0.10
50 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (45 bp):
TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
Found at i:788137 original size:93 final size:93
Alignment explanation
Indices: 787937--788267 Score: 601
Period size: 93 Copynumber: 3.6 Consensus size: 93
787927 TAAGGAGACC
* * *
787937 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
** *
788001 ATCATTGAATTTGGAAGATAAATATGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
788029 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
788094 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
788122 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
788187 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
788215 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
788268 CTCTAAAGTC
Statistics
Matches: 232, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 49 0.21
93 183 0.79
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGGATGTGCT
Found at i:788308 original size:93 final size:93
Alignment explanation
Indices: 787937--788312 Score: 598
Period size: 93 Copynumber: 4.1 Consensus size: 93
787927 TAAGGAGACC
* * *
787937 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
* *
788001 ATCATTGAATTTGGAAGATAAATATGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
788029 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
788094 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
788122 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
*
788187 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
*
788215 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATG-AACTCTA-A-AGT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAAC-C-ACAGAAT
* * *
788277 CAATCATTGGATTTGAAAGATGAATTTTGCT
64 CAATCATTGAATTTGGAAGATGAA-TGTGCT
788308 CATAG
1 CATAG
788313 TAGAAATAAG
Statistics
Matches: 269, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
92 75 0.28
93 193 0.72
94 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGAATGTGCT
Found at i:790568 original size:54 final size:54
Alignment explanation
Indices: 790454--790626 Score: 244
Period size: 54 Copynumber: 3.3 Consensus size: 54
790444 AAAGAGGTTC
*
790454 AATGTTTGA-GAACATCTGAGCAGAAGCCACAAAAAA--ATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCA
* *
790505 AATGTTTTACGAACATCTGAACAGAAACCACAAAAAAGGATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCA
** *** *
790559 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTTA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCA
790613 AATGTTTTACGAAC
1 AATGTTTTACGAAC
790627 CTGCTATTCG
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
51 8 0.07
52 25 0.23
54 75 0.69
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (54 bp):
AATGTTTTACGAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCA
Found at i:791828 original size:76 final size:76
Alignment explanation
Indices: 791702--792464 Score: 1384
Period size: 76 Copynumber: 10.0 Consensus size: 76
791692 CTATTTCTCA
* *
791702 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
791767 AACCTTCGGGT
66 ATCCTTCGGGT
*
791778 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
791843 ATCCTTCGGGT
66 ATCCTTCGGGT
*
791854 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
791919 AGCCTTCGGGT
66 ATCCTTCGGGT
791930 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
791995 ATCCTTCGGGT
66 ATCCTTCGGGT
*
792006 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
792071 AACCTTCGGGT
66 ATCCTTCGGGT
*
792082 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
792147 ATCCTTCGGGT
66 ATCCTTCGGGT
792158 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
792223 ATCCTTCGGGT
66 ATCCTTCGGGT
792234 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
792299 AGCCTTCGGGT
66 ATCCTTCGGGT
792310 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
792375 AGCCTTCGGGT
66 ATCCTTCGGGT
* *
792386 CATCTGTAAGCCCTACAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
792451 A-CCCTCAGGGT
66 ATCCTTC-GGGT
792462 CAT
1 CAT
792465 TCATAAGACC
Statistics
Matches: 671, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
75 4 0.01
76 667 0.99
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTCGGGT
Found at i:792628 original size:3 final size:3
Alignment explanation
Indices: 792620--792695 Score: 116
Period size: 3 Copynumber: 25.0 Consensus size: 3
792610 TTCATTTTAA
792620 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
* * *
792668 ATT ATT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT
792696 TAAATATTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:795921 original size:28 final size:29
Alignment explanation
Indices: 795877--795945 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
795867 CATTTTGAGT
*
795877 AACGAAATGAAACGTTAGACAC-CAACTAG
1 AACGAAAT-AAACGTTAGACACTAAACTAG
795906 AACGAAATAAACGTTAGACACTAAACTAG
1 AACGAAATAAACGTTAGACACTAAACTAG
*
795935 AA-AAAATAAAC
1 AACGAAATAAAC
795946 ATAGATTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.14
Consensus pattern (29 bp):
AACGAAATAAACGTTAGACACTAAACTAG
Found at i:796010 original size:46 final size:47
Alignment explanation
Indices: 795935--796024 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 47
795925 ACTAAACTAG
* *
795935 AAAAAATAAACATAGATTGGACACCTTTTGTA-AGCTTAAGCCTTACT
1 AAAAAATAAACATAAATTGGACACATTTTGTATA-CTTAAGCCTTACT
* *
795982 AAAAAAT-TACATAAATTGTACACATTTTGTATACTTAAGCCTT
1 AAAAAATAAACATAAATTGGACACATTTTGTATACTTAAGCCTT
796025 TGAAAAATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 30 0.79
47 8 0.21
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (47 bp):
AAAAAATAAACATAAATTGGACACATTTTGTATACTTAAGCCTTACT
Found at i:800547 original size:19 final size:19
Alignment explanation
Indices: 800523--800559 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
800513 ATGCATTGGG
*
800523 CTATGAATTTGAAAATAAA
1 CTATGAATCTGAAAATAAA
*
800542 CTATGAATCTGGAAATAA
1 CTATGAATCTGAAAATAA
800560 GTTCTGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (19 bp):
CTATGAATCTGAAAATAAA
Found at i:800630 original size:12 final size:12
Alignment explanation
Indices: 800613--800646 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
800603 TTTGAACATG
800613 GAATATGAAAAT
1 GAATATGAAAAT
**
800625 GAATATGTGAAT
1 GAATATGAAAAT
800637 GAATATGAAA
1 GAATATGAAA
800647 GTGGAAAATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (12 bp):
GAATATGAAAAT
Found at i:808560 original size:111 final size:111
Alignment explanation
Indices: 808368--808650 Score: 532
Period size: 111 Copynumber: 2.5 Consensus size: 111
808358 TTTTGCAAGA
* *
808368 AAAAATACCT-AAAAATGGAAAAACACATAAAATAGTCAATGATGCAAGAAAAATGAAACAAACA
1 AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAG-AAAATGAAACAAACA
808432 AATTTTGCAAGAAATTTTAAAGAGTTTTATCTAACAACTGAAAAAAG
65 AATTTTGCAAGAAATTTTAAAGAGTTTTATCTAACAACTGAAAAAAG
808479 AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAGAAAATGAAACAAACAA
1 AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAGAAAATGAAACAAACAA
808544 ATTTTGCAAGAAATTTTAAAGAGTTTTATCTAACAACTGAAAAAAG
66 ATTTTGCAAGAAATTTTAAAGAGTTTTATCTAACAACTGAAAAAAG
808590 AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAGAAAATGAAACAA
1 AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAGAAAATGAAACAA
808651 TGGAAGATGT
Statistics
Matches: 169, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
111 133 0.79
112 36 0.21
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.20
Consensus pattern (111 bp):
AAAAATACCTAAAAAATGGTAAAACACAGAAAATAGTCAATGATGCAAGAAAATGAAACAAACAA
ATTTTGCAAGAAATTTTAAAGAGTTTTATCTAACAACTGAAAAAAG
Found at i:809571 original size:2 final size:2
Alignment explanation
Indices: 809566--809602 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
809556 ATCACAAAAA
809566 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
809603 CGCGGTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:819118 original size:82 final size:84
Alignment explanation
Indices: 818985--819151 Score: 304
Period size: 83 Copynumber: 2.0 Consensus size: 84
818975 TAAAATTTAT
818985 AAAAAAAATATTATTCCGAATATTCTAGTACAATTTAAAGATGCCTACTGATT-AACAAAAGC-A
1 AAAAAAAATATTATTCCGAATATTCTAGTACAATTTAAAGATGCCTACTGATTAAACAAAAGCAA
819048 AAATTTCAAACCTATATCA
66 AAATTTCAAACCTATATCA
819067 AAAAAAAATAATTATTCCGAATATTCTAGTAC-ATTTAAAGATGCCTACTGATTAAACAAAAGCA
1 AAAAAAAAT-ATTATTCCGAATATTCTAGTACAATTTAAAGATGCCTACTGATTAAACAAAAGCA
819131 AAAATTTCAAACCTATATCA
65 AAAATTTCAAACCTATATCA
819151 A
1 A
819152 TAGGGTTATA
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
82 30 0.37
83 31 0.38
84 21 0.26
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.29
Consensus pattern (84 bp):
AAAAAAAATATTATTCCGAATATTCTAGTACAATTTAAAGATGCCTACTGATTAAACAAAAGCAA
AAATTTCAAACCTATATCA
Found at i:824049 original size:56 final size:56
Alignment explanation
Indices: 823963--824069 Score: 187
Period size: 56 Copynumber: 1.9 Consensus size: 56
823953 TAACTGTTTC
* *
823963 TCGTCATTACAGAGAAAATATAAATCAACAACCCAGTGGAGGGTTGAATTTCATTG
1 TCGTCATAACAAAGAAAATATAAATCAACAACCCAGTGGAGGGTTGAATTTCATTG
*
824019 TCGTCATAACAAAGAAAATGTAAATCAACAACCCAGTGGAGGGTTGAATTT
1 TCGTCATAACAAAGAAAATATAAATCAACAACCCAGTGGAGGGTTGAATTT
824070 GGGCCAGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (56 bp):
TCGTCATAACAAAGAAAATATAAATCAACAACCCAGTGGAGGGTTGAATTTCATTG
Found at i:824668 original size:46 final size:46
Alignment explanation
Indices: 824590--824680 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
824580 ATCAACATCA
* *
824590 GCCTGGGGAAGTAGCAAACGGGTTATACAATAATATACCTAAGTTC
1 GCCTGGGGAAGTAACAAACAGGTTATACAATAATATACCTAAGTTC
* *
824636 GCCTGGGGAAGTAACAAACAGGTTGTATAATAATATACCTAAGTT
1 GCCTGGGGAAGTAACAAACAGGTTATACAATAATATACCTAAGTT
824681 ATAAAGGATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (46 bp):
GCCTGGGGAAGTAACAAACAGGTTATACAATAATATACCTAAGTTC
Found at i:832241 original size:13 final size:14
Alignment explanation
Indices: 832220--832253 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
832210 GTTCTTCTTT
832220 AAATATT-AATATA
1 AAATATTAAATATA
*
832233 AAATCTTAAATATA
1 AAATATTAAATATA
832247 AAATATT
1 AAATATT
832254 GTATGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATTAAATATA
Found at i:832296 original size:12 final size:12
Alignment explanation
Indices: 832279--832315 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
832269 TGAATAATTG
*
832279 TTTAAATTATTT
1 TTTAAATGATTT
832291 TTTAAATGATTT
1 TTTAAATGATTT
832303 TTTAAATGATTT
1 TTTAAATGATTT
832315 T
1 T
832316 GATACTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (12 bp):
TTTAAATGATTT
Found at i:833928 original size:37 final size:37
Alignment explanation
Indices: 833855--833929 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
833845 GTTGGAAAAT
*
833855 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
833892 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
833929 A
1 A
833930 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:834212 original size:175 final size:176
Alignment explanation
Indices: 833884--834217 Score: 625
Period size: 176 Copynumber: 1.9 Consensus size: 176
833874 AAAAATTAAA
*
833884 TTCATAAAATTTATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAATGGTAA
1 TTCATAAAATTTATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAA
*
833949 AATTTTATTTTAACCCTTTAACTTCATATAAAATTTTAATTATAGATTTTTTTTTTGTAAATCTA
66 AATTTTATTTTAACCCTTGAACTTCATATAAAATTTTAATTATAGATTTTTTTTTTGTAAATCTA
*
834014 AAATAGTTTAAGGATAAATTTATAATTTAACCTTCAAAGAATTTTT
131 AAATAGTTTAAAGATAAATTTATAATTTAACCTTCAAAGAATTTTT
834060 TTCATAAAATTTATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAA
1 TTCATAAAATTTATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAA
*
834125 AATTTTATTTTAACTCTTGAACTTCATATAAAATTTTAATTATAGA-TTTTTTTTTGTAAATCTA
66 AATTTTATTTTAACCCTTGAACTTCATATAAAATTTTAATTATAGATTTTTTTTTTGTAAATCTA
834189 AAATAGTTTAAAGATAAATTTATAATTTA
131 AAATAGTTTAAAGATAAATTTATAATTTA
834218 GCCATCATAT
Statistics
Matches: 154, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
175 46 0.30
176 108 0.70
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (176 bp):
TTCATAAAATTTATATAATTTTTTTTACAAAATTGAAAATATAAAAAGGTTTAATGAAAGGGTAA
AATTTTATTTTAACCCTTGAACTTCATATAAAATTTTAATTATAGATTTTTTTTTTGTAAATCTA
AAATAGTTTAAAGATAAATTTATAATTTAACCTTCAAAGAATTTTT
Found at i:836211 original size:25 final size:26
Alignment explanation
Indices: 836168--836218 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
836158 TTAAAAATTT
*
836168 TATAATTATCAATAATGTATTTTTAA
1 TATAATTATCAATAATGTAATTTTAA
*
836194 TATAATT-TTAATAATGTAATTTTAA
1 TATAATTATCAATAATGTAATTTTAA
836219 AAAAATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TATAATTATCAATAATGTAATTTTAA
Found at i:837269 original size:19 final size:19
Alignment explanation
Indices: 837245--837295 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
837235 TTTGGACTGC
*
837245 ATTTTGAATATGAAAATGA
1 ATTTTGAATACGAAAATGA
837264 ATTTTGAATACGAAAATGA
1 ATTTTGAATACGAAAATGA
* *
837283 ATTCTAAATACGA
1 ATTTTGAATACGA
837296 CATGTGACCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (19 bp):
ATTTTGAATACGAAAATGA
Found at i:841536 original size:44 final size:44
Alignment explanation
Indices: 841485--841572 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
841475 TCATTTTGGT
841485 ATCGGTACTTATGGGAGTATCGATACCATAAGAGTATCGATATC
1 ATCGGTACTTATGGGAGTATCGATACCATAAGAGTATCGATATC
841529 ATCGGTACTTATGGGAGTATCGATACCATAAGAGTATCGATATC
1 ATCGGTACTTATGGGAGTATCGATACCATAAGAGTATCGATATC
841573 GAGGTATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
ATCGGTACTTATGGGAGTATCGATACCATAAGAGTATCGATATC
Found at i:844448 original size:16 final size:17
Alignment explanation
Indices: 844427--844462 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
844417 TAATAATGTT
844427 TTTTTATAT-TTACTTA
1 TTTTTATATGTTACTTA
*
844443 TTTTTATATGTTATTTA
1 TTTTTATATGTTACTTA
844460 TTT
1 TTT
844463 AACTATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTATATGTTACTTA
Found at i:851816 original size:15 final size:15
Alignment explanation
Indices: 851796--851825 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
851786 CTAGAGCAAC
851796 GTTATCATCCTCGTT
1 GTTATCATCCTCGTT
851811 GTTATCATCCTCGTT
1 GTTATCATCCTCGTT
851826 ATTAGCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (15 bp):
GTTATCATCCTCGTT
Found at i:866851 original size:19 final size:17
Alignment explanation
Indices: 866814--866847 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
866804 CTATAGGAAG
*
866814 AAAATATATTATTAATA
1 AAAATATATTATAAATA
866831 AAAATATATATATAAAT
1 AAAATATAT-TATAAAT
866848 TAAATATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATATTATAAATA
Found at i:868094 original size:22 final size:22
Alignment explanation
Indices: 868069--868110 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
868059 CATGGTTATC
*
868069 TATCTATTAATT-TTATCAATTT
1 TATCAATTAATTATT-TCAATTT
868091 TATCAATTAATTATTTCAAT
1 TATCAATTAATTATTTCAAT
868111 AATTTCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TATCAATTAATTATTTCAATTT
Found at i:868273 original size:29 final size:29
Alignment explanation
Indices: 868231--868294 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
868221 TTTGTTTTAG
*
868231 CCCCCTATAATTTTATAAGTTCAAGTTCA
1 CCCCCTAAAATTTTATAAGTTCAAGTTCA
* *
868260 CCCCCTAAAATTTTATAAGTTTAAGTTCG
1 CCCCCTAAAATTTTATAAGTTCAAGTTCA
868289 CCCCCT
1 CCCCCT
868295 TAACATAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (29 bp):
CCCCCTAAAATTTTATAAGTTCAAGTTCA
Found at i:871511 original size:21 final size:21
Alignment explanation
Indices: 871487--871529 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
871477 TCATAATTAT
871487 TTAAAAA-ATTAAATCAAAAAA
1 TTAAAAATATTAAAT-AAAAAA
*
871508 TTAAAAATATTTAATAAAAAA
1 TTAAAAATATTAAATAAAAAA
871529 T
1 T
871530 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAAAAATATTAAATAAAAAA
Found at i:871527 original size:22 final size:21
Alignment explanation
Indices: 871487--871528 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
871477 TCATAATTAT
*
871487 TTAAAAAATTAAATCAAAAAA
1 TTAAAAAATTAAATAAAAAAA
*
871508 TTAAAAATATTTAATAAAAAA
1 TTAAAAA-ATTAAATAAAAAA
871529 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAAAATTAAATAAAAAAA
Found at i:871979 original size:24 final size:25
Alignment explanation
Indices: 871942--871988 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
871932 CTATTCTTTC
871942 ACTTCAATCAAGC-TCGAATTTTAG
1 ACTTCAATCAAGCTTCGAATTTTAG
** *
871966 ACTTCAATTGAGCTTCTAATTTT
1 ACTTCAATCAAGCTTCGAATTTT
871989 TTTTTTGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (25 bp):
ACTTCAATCAAGCTTCGAATTTTAG
Found at i:875707 original size:31 final size:31
Alignment explanation
Indices: 875672--875733 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
875662 CATACATATT
875672 GCCTGATCATTTATTTTACATACCAAAACTC
1 GCCTGATCATTTATTTTACATACCAAAACTC
*
875703 GCCTGATCATTTATTTTACATGCCAAAACTC
1 GCCTGATCATTTATTTTACATACCAAAACTC
875734 CCCCAAACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (31 bp):
GCCTGATCATTTATTTTACATACCAAAACTC
Found at i:877328 original size:3 final size:3
Alignment explanation
Indices: 877320--877348 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
877310 TAAAGCTATT
877320 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
877349 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:877353 original size:3 final size:3
Alignment explanation
Indices: 877347--877377 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
877337 AATAATAATA
877347 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
877378 AAAGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:881872 original size:21 final size:19
Alignment explanation
Indices: 881828--881864 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
881818 ATATGATCAT
* *
881828 TATATTACTATATTTACTC
1 TATATTACTAAACTTACTC
881847 TATATTACTAAACTTACT
1 TATATTACTAAACTTACT
881865 TTCTATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATTACTAAACTTACTC
Found at i:882369 original size:21 final size:21
Alignment explanation
Indices: 882351--882395 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
882341 CAAGTCCAGT
882351 CAACATTCATACCAGTCCAAA
1 CAACATTCATACCAGTCCAAA
882372 CAACATTCATACCAGTCCAAA
1 CAACATTCATACCAGTCCAAA
882393 CAA
1 CAA
882396 TGATAAAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.18
Consensus pattern (21 bp):
CAACATTCATACCAGTCCAAA
Found at i:884801 original size:8 final size:8
Alignment explanation
Indices: 884788--884820 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
884778 TATACAATAG
884788 AAAACAAA
1 AAAACAAA
884796 AAAAC-AA
1 AAAACAAA
884803 AAAACAAA
1 AAAACAAA
884811 AAATACAAA
1 AAA-ACAAA
884820 A
1 A
884821 TAGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 10 0.43
9 6 0.26
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAACAAA
Found at i:884804 original size:7 final size:7
Alignment explanation
Indices: 884788--884868 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
884778 TATACAATAG
884788 AAAACAAA
1 AAAAC-AA
884796 AAAACAA
1 AAAACAA
884803 AAAACAAA
1 AAAAC-AA
884811 AAATACAA
1 AAA-ACAA
884819 AATAGA-AA
1 AA-A-ACAA
* *
884827 AAAATAG
1 AAAACAA
*
884834 AAAATAA
1 AAAACAA
884841 AAAACAA
1 AAAACAA
*
884848 GAAACAA
1 AAAACAA
*
884855 GAAACAA
1 AAAACAA
*
884862 GAAACAA
1 AAAACAA
884869 CACATGTTAC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.02
7 41 0.64
8 18 0.28
9 4 0.06
ACGTcount: A:0.79, C:0.10, G:0.06, T:0.05
Consensus pattern (7 bp):
AAAACAA
Found at i:884808 original size:15 final size:15
Alignment explanation
Indices: 884788--884868 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 15
884778 TATACAATAG
884788 AAAACAAAAAAACAA
1 AAAACAAAAAAACAA
884803 AAAACAAAAAATACAA
1 AAAACAAAAAA-ACAA
* * * *
884819 AATAGAAAAAAATAG
1 AAAACAAAAAAACAA
*
884834 AAAA-TAAAAAACAA
1 AAAACAAAAAAACAA
* *
884848 GAAAC-AAGAAACAA
1 AAAACAAAAAAACAA
*
884862 GAAACAA
1 AAAACAA
884869 CACATGTTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 23 0.43
15 17 0.32
16 13 0.25
ACGTcount: A:0.79, C:0.10, G:0.06, T:0.05
Consensus pattern (15 bp):
AAAACAAAAAAACAA
Found at i:884828 original size:17 final size:16
Alignment explanation
Indices: 884793--884844 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
884783 AATAGAAAAC
884793 AAAAAA-ACAAAA-AA
1 AAAAAATACAAAATAA
884807 CAAAAAATACAAAATAGA
1 -AAAAAATACAAAATA-A
*
884825 AAAAAATAGAAAATAA
1 AAAAAATACAAAATAA
884841 AAAA
1 AAAA
884845 CAAGAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 6 0.18
16 11 0.33
17 15 0.45
18 1 0.03
ACGTcount: A:0.83, C:0.06, G:0.04, T:0.08
Consensus pattern (16 bp):
AAAAAATACAAAATAA
Found at i:885229 original size:21 final size:21
Alignment explanation
Indices: 885177--885244 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
885167 AGAAGAATAG
*
885177 TAGATGAGGAATAAAGAACAA
1 TAGATGAGGAGTAAAGAACAA
* *
885198 CATATGAGGAGTAAAGAACAA
1 TAGATGAGGAGTAAAGAACAA
*
885219 TAGATGAGGAG-ACACGAACAA
1 TAGATGAGGAGTA-AAGAACAA
885240 TAGAT
1 TAGAT
885245 AAAGAGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.51, C:0.09, G:0.25, T:0.15
Consensus pattern (21 bp):
TAGATGAGGAGTAAAGAACAA
Found at i:886039 original size:17 final size:18
Alignment explanation
Indices: 886017--886053 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
886007 ATGTAATTTC
886017 ATAT-ACTTTATACTTAT
1 ATATAACTTTATACTTAT
886034 ATATACACTTTATACTTAT
1 ATATA-ACTTTATACTTAT
886053 A
1 A
886054 CTTGTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAACTTTATACTTAT
Found at i:886073 original size:35 final size:34
Alignment explanation
Indices: 886032--886098 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
886022 CTTTATACTT
*
886032 ATATATACACT-TTATACTTATACTTGTATATATAA
1 ATATATACA-TGTTATACTTATAC-TATATATATAA
* *
886067 ATATATATATGTTATACTTCTACTATATATAT
1 ATATATACATGTTATACTTATACTATATATAT
886099 TTTATACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (34 bp):
ATATATACATGTTATACTTATACTATATATATAA
Found at i:886113 original size:20 final size:21
Alignment explanation
Indices: 886067--886115 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
886057 GTATATATAA
886067 ATATATATATGTTATACTTCT
1 ATATATATATGTTATACTTCT
*
886088 ACTATATATATTTTATACTT-T
1 A-TATATATATGTTATACTTCT
886109 ATATATA
1 ATATATA
886116 CATACATGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 3 0.12
22 17 0.65
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATATATATGTTATACTTCT
Found at i:886145 original size:18 final size:18
Alignment explanation
Indices: 886090--886145 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
886080 ATACTTCTAC
* *
886090 TATATATA-TTTTATACTT
1 TATATATACTTATATAC-A
* * *
886108 TATATATACATACATGCA
1 TATATATACTTATATACA
886126 TATATATACTTATATACA
1 TATATATACTTATATACA
886144 TA
1 TA
886146 CAAATAAAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATATACTTATATACA
Found at i:886186 original size:2 final size:2
Alignment explanation
Indices: 886179--886403 Score: 94
Period size: 2 Copynumber: 112.0 Consensus size: 2
886169 CATACATAAC
* * * *
886179 TA TA TA TA TA TA TA TA TA TA TA TA CTA TA T- TG TT TC TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
886221 GTA -A GTA AA TA AA AA T- TA TA TA GTA TA TA AA TA TA GA CTA TA
1 -TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * * * *
886263 TA GTT TA TA CA TA GTT TA TA TA TA AA TT TA TA GTA TA TA AA TA
1 TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
886306 TA AA CTA TA -A GTA TA TA AA TA TA -A T- TA TA TA GTT TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
886346 GTT TA TA T- TA T- TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
886386 TA TA TA TA -A TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
886404 ATTGTTTCTG
Statistics
Matches: 167, Mismatches: 33, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
1 11 0.07
2 140 0.84
3 16 0.10
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:886381 original size:21 final size:22
Alignment explanation
Indices: 886280--886403 Score: 88
Period size: 21 Copynumber: 5.9 Consensus size: 22
886270 TACATAGTTT
* *
886280 ATATATAAATTTATAGTATATA
1 ATATATATATATATAGTATATA
*
886302 A-ATATAAACTATA-AGTATATA
1 ATATATATA-TATATAGTATATA
886323 A-ATATA-ATTATATAGT-T-T-
1 ATATATATA-TATATAGTATATA
* *
886341 ATATAGTTTATAT-TATTATATA
1 ATATA-TATATATATAGTATATA
886363 ATATATATATATATA-TATAT-
1 ATATATATATATATAGTATATA
*
886383 ATATATATATAATATATTATA
1 ATATATATAT-ATATAGTATA
886404 ATTGTTTCTG
Statistics
Matches: 86, Mismatches: 5, Indels: 22
0.76 0.04 0.19
Matches are distributed among these distances:
18 1 0.01
19 7 0.08
20 21 0.24
21 42 0.49
22 15 0.17
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (22 bp):
ATATATATATATATAGTATATA
Found at i:887346 original size:23 final size:23
Alignment explanation
Indices: 887320--887397 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
887310 CACCACAGCT
887320 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
887343 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
887366 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
887389 TATAATAAT
1 CAT-ATAAT
887398 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:887575 original size:103 final size:103
Alignment explanation
Indices: 887404--887621 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
887394 TAATGTCCAT
* *
887404 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
887469 GACTTCACATATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
887507 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
887572 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
887610 AAGGACCACATA
1 AAGGACCACATA
887622 AACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:898844 original size:284 final size:284
Alignment explanation
Indices: 898334--898902 Score: 1111
Period size: 284 Copynumber: 2.0 Consensus size: 284
898324 TCACTCATAT
898334 ATCTACAATTATCGTAGTCTAATCACTAATGCATTTAAAATTCTATCCCACACTAGCATTATTTC
1 ATCTACAATTATCGTAGTCTAATCACTAATGCATTTAAAATTCTATCCCACACTAGCATTATTTC
898399 TTTTTCAAAATCACCATATGCAACATCAGTTATAAGATTTGAGAGCTCGACAACAATTTGTACTA
66 TTTTTCAAAATCACCATATGCAACATCAGTTATAAGATTTGAGAGCTCGACAACAATTTGTACTA
*
898464 CCTGGTTGTTGGACGCAAAGAAGGTTCTGGGTAAAGTAGCCTAAGACAAAATCCAGCTTCCTTGA
131 CCTAGTTGTTGGACGCAAAGAAGGTTCTGGGTAAAGTAGCCTAAGACAAAATCCAGCTTCCTTGA
* *
898529 GATTTTCTGACAGAAAAGTTGGAGGAAAAATCCTATTTTGTAGATCTAACATTGCTGCAGCATGT
196 GATTTTCTGACAGAAAAGTTCGAGGAAAAATCCTATTTTGCAGATCTAACATTGCTGCAGCATGT
898594 GCTCTCTCAGATTCAAAATGACAA
261 GCTCTCTCAGATTCAAAATGACAA
898618 ATCTACAATTATCGTAGTCTAATCACTAATGCATTTAAAATTCTATCCCACACTAGCATTATTTC
1 ATCTACAATTATCGTAGTCTAATCACTAATGCATTTAAAATTCTATCCCACACTAGCATTATTTC
898683 TTTTTCAAAATCACCATATGCAACATCAGTTATAAGATTTGAGAGCTCGACAACAATTTGTACTA
66 TTTTTCAAAATCACCATATGCAACATCAGTTATAAGATTTGAGAGCTCGACAACAATTTGTACTA
898748 CCTAGTTGTTGGACGCAAAGAAGGTTCTGGGTAAAGTAGCCTAAGACAAAATCCAGCTTCCTTGA
131 CCTAGTTGTTGGACGCAAAGAAGGTTCTGGGTAAAGTAGCCTAAGACAAAATCCAGCTTCCTTGA
898813 GATTTTCTGACAGAAAAGTTCGAGGAAAAATCCTATTTTGCAGATCTAACATTGCTGCAGCATGT
196 GATTTTCTGACAGAAAAGTTCGAGGAAAAATCCTATTTTGCAGATCTAACATTGCTGCAGCATGT
898878 GCTCTCTCAGATTCAAAATGACAA
261 GCTCTCTCAGATTCAAAATGACAA
898902 A
1 A
898903 GCAACTGAAA
Statistics
Matches: 282, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
284 282 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (284 bp):
ATCTACAATTATCGTAGTCTAATCACTAATGCATTTAAAATTCTATCCCACACTAGCATTATTTC
TTTTTCAAAATCACCATATGCAACATCAGTTATAAGATTTGAGAGCTCGACAACAATTTGTACTA
CCTAGTTGTTGGACGCAAAGAAGGTTCTGGGTAAAGTAGCCTAAGACAAAATCCAGCTTCCTTGA
GATTTTCTGACAGAAAAGTTCGAGGAAAAATCCTATTTTGCAGATCTAACATTGCTGCAGCATGT
GCTCTCTCAGATTCAAAATGACAA
Found at i:901751 original size:2 final size:2
Alignment explanation
Indices: 901744--901769 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
901734 TAAATAGTTA
901744 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
901770 TATTTAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:905432 original size:270 final size:270
Alignment explanation
Indices: 904947--905490 Score: 901
Period size: 270 Copynumber: 2.0 Consensus size: 270
904937 TTGTAGCTGG
904947 TTTT-GAGGAGGCTGTTGGGGCTGCGGGATATGGTTGGTTAGTTTGTGGACAGCTATACAGGGCG
1 TTTTGGAGGAGGCTGTTGGGGCTGCGGGATATGGTTGGTTAGTTTGTGGACAGCTATACAGGGCG
* *
905011 TTGGTTGATGCCTCGGAAGTTTGAGGTAAGTGTTGTCTAACAAGAGATGAGAAAGAAGCAGGGGT
66 TTGGTTGATGCCTCGGAAGTTTGAGGTAAGGGTCGTCTAACAAGAGATGAGAAAGAAGCAGGGGT
* * *
905076 AGGTTCTATGGGCAAATCTCATTTGGTTTCCTCTTTATATCCCTAGAAACGCCGTTATTGCTTGG
131 AGGTTCCATAGGCAAATCTCATTTGGTTTCCTCTTTATATCCCTAGAAACGACGTTATTGCTTGG
* * * *
905141 TTTACCTTGTTGGACAGGCTTCCCACAAGGGATAGATTACATCAGTGGGGTGTTGAGGTTGAGGG
196 TTTACCTTGTTAGACAGGCTTCCCACAAGGGACAGATTACATCAGTGGGGTGTTGAGATTGAGAG
905206 GGACTGTTGC
261 GGACTGTTGC
* *
905216 TTTTGGAGGAGGCTGTTGGGGCTGTGGGATATGGTTGGTTAGTTTGTGGACAGCTATACATGGCG
1 TTTTGGAGGAGGCTGTTGGGGCTGCGGGATATGGTTGGTTAGTTTGTGGACAGCTATACAGGGCG
* * * * *
905281 TTGGTTGATGCCTGGGAAGTTTGAGGTAAGGGTCGTTTGACAGGAGGTGAGAAAGAAGCAGGGGT
66 TTGGTTGATGCCTCGGAAGTTTGAGGTAAGGGTCGTCTAACAAGAGATGAGAAAGAAGCAGGGGT
*
905346 AGGTTCCATAGGCAAATCTCATTTGGTTTCCTCTTTATATCCCTAGAAACGACGTTATTGTTTGG
131 AGGTTCCATAGGCAAATCTCATTTGGTTTCCTCTTTATATCCCTAGAAACGACGTTATTGCTTGG
* * *
905411 TTTTCCTTGTTAGACAGGCTTCCCATAAGGGACAGATTGCATCAGTGGGGTGTTGAGATTGAGAG
196 TTTACCTTGTTAGACAGGCTTCCCACAAGGGACAGATTACATCAGTGGGGTGTTGAGATTGAGAG
905476 GGACTGTTGC
261 GGACTGTTGC
905486 TTTTG
1 TTTTG
905491 CAACTCTTCT
Statistics
Matches: 254, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
269 4 0.02
270 250 0.98
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (270 bp):
TTTTGGAGGAGGCTGTTGGGGCTGCGGGATATGGTTGGTTAGTTTGTGGACAGCTATACAGGGCG
TTGGTTGATGCCTCGGAAGTTTGAGGTAAGGGTCGTCTAACAAGAGATGAGAAAGAAGCAGGGGT
AGGTTCCATAGGCAAATCTCATTTGGTTTCCTCTTTATATCCCTAGAAACGACGTTATTGCTTGG
TTTACCTTGTTAGACAGGCTTCCCACAAGGGACAGATTACATCAGTGGGGTGTTGAGATTGAGAG
GGACTGTTGC
Found at i:907838 original size:13 final size:13
Alignment explanation
Indices: 907820--907861 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
907810 AAAAATTTTA
907820 AAATAGTTCAGAC
1 AAATAGTTCAGAC
*
907833 AAATAGTTTAGAC
1 AAATAGTTCAGAC
907846 AAATAGTTCAGAC
1 AAATAGTTCAGAC
907859 AAA
1 AAA
907862 CACTTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (13 bp):
AAATAGTTCAGAC
Found at i:908264 original size:30 final size:30
Alignment explanation
Indices: 908228--908284 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
908218 TTGAAGATTC
*
908228 AAATTT-ACTTAAAAATTCATTTTAATCCTT
1 AAATTTAAC-TAAAAATTCAATTTAATCCTT
*
908258 AAATTTAACTAAAATTTCAATTTAATC
1 AAATTTAACTAAAAATTCAATTTAATC
908285 ACCAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATTTAACTAAAAATTCAATTTAATCCTT
Found at i:908464 original size:47 final size:47
Alignment explanation
Indices: 908403--908496 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
908393 GAGTTTTATT
* * **
908403 TTTTTATTAAATAAAGAAATATTGTTGATATAAATATTTGAATTTTA
1 TTTTTATTAAATAAAGAAATATTATTAATATAAATATTAAAATTTTA
908450 TTTTTATTAAATAAAGAAATATTATTAATATAAATATTAAAATTTTA
1 TTTTTATTAAATAAAGAAATATTATTAATATAAATATTAAAATTTTA
908497 ATTTACATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (47 bp):
TTTTTATTAAATAAAGAAATATTATTAATATAAATATTAAAATTTTA
Found at i:908474 original size:24 final size:24
Alignment explanation
Indices: 908399--908475 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 24
908389 GTTTGAGTTT
908399 TATT-TTTTTATTAAATAAAGAAA
1 TATTATTTTTATTAAATAAAGAAA
* ** **
908422 TATTGTTGATA-TAAATATTTG-AA
1 TATTATTTTTATTAAATA-AAGAAA
*
908445 TTTTATTTTTATTAAATAAAGAAA
1 TATTATTTTTATTAAATAAAGAAA
908469 TATTATT
1 TATTATT
908476 AATATAAATA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (24 bp):
TATTATTTTTATTAAATAAAGAAA
Found at i:908508 original size:47 final size:47
Alignment explanation
Indices: 908405--908508 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
908395 GTTTTATTTT
* * * ** *
908405 TTTATTAAATAAAGAAATATTGTTGATATAAATATTTGAATTTTATT
1 TTTAATAAATAAAGAAATATTATTAATATAAATATTAAAATTTTATA
*
908452 TTTATTAAATAAAGAAATATTATTAATATAAATATTAAAATTTTA-A
1 TTTAATAAATAAAGAAATATTATTAATATAAATATTAAAATTTTATA
908498 TTTACATAAAT
1 TTTA-ATAAAT
908509 TAAAAAACAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
46 4 0.08
47 46 0.92
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (47 bp):
TTTAATAAATAAAGAAATATTATTAATATAAATATTAAAATTTTATA
Found at i:910057 original size:17 final size:17
Alignment explanation
Indices: 910035--910070 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
910025 TTCCAAGAAA
910035 CTTTGGAGCCAGACCAT
1 CTTTGGAGCCAGACCAT
910052 CTTTGGAGCCAGACCAT
1 CTTTGGAGCCAGACCAT
910069 CT
1 CT
910071 CATTGTTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (17 bp):
CTTTGGAGCCAGACCAT
Found at i:924153 original size:60 final size:59
Alignment explanation
Indices: 924083--924195 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 59
924073 ATGAATTTCA
*
924083 TAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACTAATTTAAAATGATAATAG
1 TAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGATAATAG
* * *
924142 TAGTTTAGGGATGAAATTGGAATGTTTAGAAGTTTAAGGACCAATTTAAAATGA
1 TAGTTT-GGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGA
924196 GGGTCATACT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 6 0.12
60 43 0.88
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (59 bp):
TAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGATAATAG
Found at i:924194 original size:29 final size:29
Alignment explanation
Indices: 924101--924194 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
924091 GATGAAATTG
* * *
924101 AAATGTTTAAAAGTTTAAGAACTAATTTA
1 AAATGTTTAGAAGTTTAAGGACCAATTTA
* * * ** * *
924130 AAATGATAATAGTAGTTTAGGGATGAAATTG
1 AAATG-T-TTAGAAGTTTAAGGACCAATTTA
*
924161 GAATGTTTAGAAGTTTAAGGACCAATTTA
1 AAATGTTTAGAAGTTTAAGGACCAATTTA
924190 AAATG
1 AAATG
924195 AGGGTCATAC
Statistics
Matches: 45, Mismatches: 18, Indels: 4
0.67 0.27 0.06
Matches are distributed among these distances:
29 25 0.56
30 2 0.04
31 18 0.40
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (29 bp):
AAATGTTTAGAAGTTTAAGGACCAATTTA
Found at i:924213 original size:60 final size:59
Alignment explanation
Indices: 924022--924210 Score: 168
Period size: 60 Copynumber: 3.2 Consensus size: 59
924012 GTATATACAT
** * * * * * *
924022 ATAGTTTGGGATGAAATTGGGATATTCAAAAAGTTT-GGAGACCAAATTAGAATGA-ATTTC
1 ATAGTTTGGGATGAAATTGAAATGTT-TAAAAGTTTAAGA-ACCAATTTAAAATGAGA-ATC
* *
924082 ATAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACTAATTTAAAATGATAAT-
1 ATAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGAGAATC
* * * **
924140 AGTAGTTTAGGGATGAAATTGGAATGTTTAGAAGTTTAAGGACCAATTTAAAATGAGGGTC
1 A-TAGTTT-GGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGAGAATC
*
924201 ATACTTTGGG
1 ATAGTTTGGG
924211 GATATGCAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
58 1 0.01
59 30 0.28
60 75 0.70
61 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAAAATGAGAATC
Found at i:928304 original size:17 final size:17
Alignment explanation
Indices: 928284--928330 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
928274 TCAGAGGATG
928284 TAAAAATAATTTTATAA
1 TAAAAATAATTTTATAA
*
928301 TAAAAAT-A-TATATAA
1 TAAAAATAATTTTATAA
*
928316 TATATAATAATTTTA
1 TA-AAAATAATTTTA
928331 AATTTTTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 8 0.33
18 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAATAATTTTATAA
Found at i:930372 original size:144 final size:146
Alignment explanation
Indices: 930201--930463 Score: 356
Period size: 144 Copynumber: 1.8 Consensus size: 146
930191 TAATCATATT
* *
930201 TTAATATATATTTATTTTTTTAATATTAAGAAAAGA-CAGTCTTAAAGCAACTGGATGTTCATTT
1 TTAATATATATTTATTTTTTTAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAGAAG-TCATTT
* *
930265 TCTGATATTTTTAAATAAATAAATATATTACTTT-TATAAAT-TATATATATTAATCTATTTTTT
65 TCTGATATTTCTAAATAAATAAATATATTA-TTTATATAAATATATATAAATTAATCTATTTTTT
930328 TATTTTTTAAATGTTTTA
129 TATTTTTTAAATGTTTTA
* ** * * *
930346 TTAATAT-TCATTTATTTTTTT-ATATTAAGGAAAGAGTTGTCTTAAATCACCTAGAAGTCCTTT
1 TTAATATAT-ATTTATTTTTTTAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAGAAGTCATTT
* *
930409 TCTGATATTTCTAAATAAATAAATATCTTATTTATATATATATATATAAATTAAT
65 TCTGATATTTCTAAATAAATAAATATATTATTTATATAAATATATATAAATTAAT
930464 AGATTTTCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
143 3 0.03
144 53 0.52
145 46 0.45
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (146 bp):
TTAATATATATTTATTTTTTTAATATTAAGAAAAGAGCAGTCTTAAAGCAACTAGAAGTCATTTT
CTGATATTTCTAAATAAATAAATATATTATTTATATAAATATATATAAATTAATCTATTTTTTTA
TTTTTTAAATGTTTTA
Found at i:930977 original size:24 final size:24
Alignment explanation
Indices: 930948--930999 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
930938 TAATTCTTTC
*
930948 TTTTCAAAATTTTTATACT-TATTA
1 TTTTCAAAATATTTATA-TATATTA
*
930972 TTTTCATAATATTTATATATATTA
1 TTTTCAAAATATTTATATATATTA
930996 TTTT
1 TTTT
931000 TTATTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTCAAAATATTTATATATATTA
Found at i:933361 original size:15 final size:15
Alignment explanation
Indices: 933341--933436 Score: 55
Period size: 15 Copynumber: 6.7 Consensus size: 15
933331 CATACATGCA
933341 TTTGCATTTTACATC
1 TTTGCATTTTACATC
933356 TTTGCATTTT-CAT-
1 TTTGCATTTTACATC
*
933369 TTT--ATATT-CATAC
1 TTTGCATTTTACAT-C
*
933382 TTT-TATGTTTACATC
1 TTTGCAT-TTTACATC
** *
933397 TTTGCATTGCACA-A
1 TTTGCATTTTACATC
933411 TTTGCATTTATACAT-
1 TTTGCATTT-TACATC
933426 TTTCGCATTTT
1 TTT-GCATTTT
933437 TTATTTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
11 7 0.11
13 6 0.09
14 13 0.20
15 27 0.42
16 11 0.17
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (15 bp):
TTTGCATTTTACATC
Found at i:935451 original size:9 final size:8
Alignment explanation
Indices: 935390--935450 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
935380 ACTCATCTAT
935390 AAAAAAAG
1 AAAAAAAG
935398 AGGAAAAAATG
1 A--AAAAAA-G
935409 AAAATAAAG
1 AAAA-AAAG
935418 TAAATAAAAG
1 -AAA-AAAAG
*
935428 AAAAAAGG
1 AAAAAAAG
*
935436 AAAAAATG
1 AAAAAAAG
935444 AAAAAAA
1 AAAAAAA
935451 TTTGAATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 18 0.41
9 7 0.16
10 16 0.36
11 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
AAAAAAAG
Found at i:936081 original size:32 final size:32
Alignment explanation
Indices: 936041--936101 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
936031 TGGAAACAAG
936041 AAGTATCTCTACGAGATGAGCATAACAATGAA
1 AAGTATCTCTACGAGATGAGCATAACAATGAA
936073 AAGTATCTCTACGAGATGAGCATAACAAT
1 AAGTATCTCTACGAGATGAGCATAACAAT
936102 CATTTCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (32 bp):
AAGTATCTCTACGAGATGAGCATAACAATGAA
Found at i:940062 original size:22 final size:19
Alignment explanation
Indices: 940014--940065 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
940004 ATCCACATTC
940014 TTCAAAGATGATAGATTTT
1 TTCAAAGATGATAGATTTT
*
940033 CTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGA-T-T-TT
940055 TTCAAAGATGA
1 TTCAAAGATGA
940066 AAGTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 1 0.04
21 1 0.04
22 12 0.43
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
TTCAAAGATGATAGATTTT
Found at i:940798 original size:45 final size:45
Alignment explanation
Indices: 940728--941159 Score: 713
Period size: 45 Copynumber: 9.6 Consensus size: 45
940718 CTATTTCCCA
* *
940728 CATCTGTAAGCCCTTCAGTGTATGATGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
940773 CATTTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
940818 CATATGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
940863 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
940908 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
940953 CATCTGTAAGCCCTTCAGCGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
940998 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
941043 CATCTGTAATCCCTT-AGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
941087 CACCTATAAGCCCTTCAGTGCATGATGTTATCAAAATCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
** * *
941133 CATCTGTAAAACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
941160 ATAAGACCTC
Statistics
Matches: 363, Mismatches: 22, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
44 41 0.11
45 292 0.80
46 30 0.08
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:941340 original size:3 final size:3
Alignment explanation
Indices: 941332--941385 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
941322 CATTTTCATT
941332 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
941377 TTA TTA TTA
1 TTA TTA TTA
941386 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:943021 original size:2 final size:2
Alignment explanation
Indices: 943014--943047 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
943004 ATATCTTATT
943014 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
943048 AATTAATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.