Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_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: 3094402
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 12
Found at i:857118 original size:34 final size:34
Alignment explanation
Indices: 857075--857176 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
857065 AGTCAACTCC
857075 ATAGATGATTCCAACTTATATTAATATACTAAAT
1 ATAGATGATTCCAACTTATATTAATATACTAAAT
857109 ATAGATGATTCCAACTTATATTAATATACTAAAT
1 ATAGATGATTCCAACTTATATTAATATACTAAAT
*
857143 ATAGATGATTCCAACTTACATTAATATACTAAAT
1 ATAGATGATTCCAACTTATATTAATATACTAAAT
857177 GTAGTGCGTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (34 bp):
ATAGATGATTCCAACTTATATTAATATACTAAAT
Found at i:860579 original size:15 final size:15
Alignment explanation
Indices: 860559--860596 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
860549 GTGATCTTAA
860559 GTGATTAGTTTTCTT
1 GTGATTAGTTTTCTT
860574 GTGATTAGTTTTCTT
1 GTGATTAGTTTTCTT
860589 GTGATTAG
1 GTGATTAG
860597 AAAAATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.05, G:0.24, T:0.55
Consensus pattern (15 bp):
GTGATTAGTTTTCTT
Found at i:862060 original size:37 final size:37
Alignment explanation
Indices: 862026--862095 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
862016 TACAAATTGT
862026 AAAATATTTATAT-ATTTTCTTTAAAAAATTAAATTC
1 AAAATATTTATATAATTTTCTTTAAAAAATTAAATTC
* * *
862062 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTCTTTAAAAAATTAAA
862096 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AAAATATTTATATAATTTTCTTTAAAAAATTAAATTC
Found at i:862563 original size:20 final size:20
Alignment explanation
Indices: 862523--862563 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
862513 TTTGATCATG
*
862523 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
862543 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
862563 A
1 A
862564 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:863036 original size:7 final size:7
Alignment explanation
Indices: 862991--863041 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
862981 TGTCTCATAA
862991 CATATAT
1 CATATAT
*
862998 CACATAT
1 CATATAT
863005 GCATATAAT
1 -CATAT-AT
*
863014 CATGTAT
1 CATATAT
863021 -ATCATAT
1 CAT-ATAT
863028 CATATAT
1 CATATAT
863035 CATATAT
1 CATATAT
863042 AATAACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 2 0.06
7 22 0.61
8 10 0.28
9 2 0.06
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (7 bp):
CATATAT
Found at i:867999 original size:23 final size:23
Alignment explanation
Indices: 867973--868017 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
867963 CACCACAGCT
*
867973 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
867996 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
868018 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:868266 original size:149 final size:149
Alignment explanation
Indices: 867996--868448 Score: 870
Period size: 149 Copynumber: 3.0 Consensus size: 149
867986 CGAAGTGCCC
*
867996 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
868061 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
868126 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
868145 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
* *
868210 CATATACATATGCTATGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAAAATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
868275 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
868294 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
868359 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
868424 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
868443 CGTAGA
1 CGTAGA
868449 CCCTCGACTC
Statistics
Matches: 298, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 298 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:869352 original size:18 final size:18
Alignment explanation
Indices: 869331--869365 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
869321 TCCCATCTAG
869331 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
869349 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
869366 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:873517 original size:146 final size:146
Alignment explanation
Indices: 873211--873644 Score: 728
Period size: 142 Copynumber: 3.0 Consensus size: 146
873201 CGAAGTGCCC
*
873211 CGTAGAATTGCACCGTAGTGCCATAATGATGTCCATAAGGACCACATAGAATTC-TTAAGAATCA
1 CGTAGAATTGCACCGTAGTGCCATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
873275 TATACATATGCTAGGGATCAAGTA--TGTC-TCCCAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
873337 TATGTCCCTAAGAACG
131 TATGTCCCTAAGAACG
873353 CGTAGAATTGCACCGTAGTGCCATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 CGTAGAATTGCACCGTAGTGCCATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
873418 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
*
873483 -ATATCCCTAAGAACCG
131 TATGTCCCTAAGAA-CG
***
873499 CGTAGAATTGCACCGTAGTTATATAATAA--T-CATAAGGACCACATAGAATTCTTT-AGAATCA
1 CGTAGAATTGCACCGTAGTGCCATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
*
873560 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAG-A-ATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
873623 TATGTCCCTAAGAACG
131 TATGTCCCTAAGAACG
873639 CGTAGA
1 CGTAGA
873645 CCCTCGACTC
Statistics
Matches: 279, Mismatches: 7, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
140 13 0.05
141 13 0.05
142 116 0.42
143 58 0.21
144 1 0.00
145 16 0.06
146 62 0.22
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (146 bp):
CGTAGAATTGCACCGTAGTGCCATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
TATACATATGCTAGGGATCAAGTATGTGTCTTCCCAGACTTCACACATGTTCCAAAGAATATACA
TATGTCCCTAAGAACG
Found at i:874518 original size:18 final size:18
Alignment explanation
Indices: 874495--874529 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
874485 TCCCATCTAG
874495 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
874513 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
874530 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:875936 original size:188 final size:190
Alignment explanation
Indices: 875619--875997 Score: 744
Period size: 188 Copynumber: 2.0 Consensus size: 190
875609 CACGAGCACT
875619 ATGCCCTAACGGATTTATCACTATCACCTCATTGTTAGTAGCTTCTAATTGAATGTTCAATTCTC
1 ATGCCCTAACGGATTTATCACTATCACCTCATTGTTAGTAGCTTCTAATTGAATGTTCAATTCTC
875684 TTACTAACTTACTAGTAATGTATGAATATGTAGACCCCGTATCAATCAATACCATAACATATTTA
66 TTACTAACTTACTAGTAATGTATGAATATGTAGACCCCGTATCAATCAATACCATAACATATTTA
875749 TCAAACAGCAAAAAGATA-TTGTTATAATCTCCGGATTAT-CCGATCTTCATTGGTCCTG
131 TCAAACAGCAAAAAGATACTTGTTATAATCTCCGGATTATCCCGATCTTCATTGGTCCTG
875807 ATGCCCTAACGGATTTATCACTATCACCTCATTGTTAGTAGCTTCTAATTGAATGTTCAATTCTC
1 ATGCCCTAACGGATTTATCACTATCACCTCATTGTTAGTAGCTTCTAATTGAATGTTCAATTCTC
875872 TTACTAACTTACTAGTAATGTATGAATATGTAGACCCCGTATCAATCAATACCATAACATATTTA
66 TTACTAACTTACTAGTAATGTATGAATATGTAGACCCCGTATCAATCAATACCATAACATATTTA
875937 TCAAACAGCAAAAAGATACTTGTTATAATCTCCGGATTATCCCGATCTTCATTGGTCCTG
131 TCAAACAGCAAAAAGATACTTGTTATAATCTCCGGATTATCCCGATCTTCATTGGTCCTG
875997 A
1 A
875998 GATTATACAC
Statistics
Matches: 189, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 148 0.78
189 21 0.11
190 20 0.11
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (190 bp):
ATGCCCTAACGGATTTATCACTATCACCTCATTGTTAGTAGCTTCTAATTGAATGTTCAATTCTC
TTACTAACTTACTAGTAATGTATGAATATGTAGACCCCGTATCAATCAATACCATAACATATTTA
TCAAACAGCAAAAAGATACTTGTTATAATCTCCGGATTATCCCGATCTTCATTGGTCCTG
Found at i:877641 original size:36 final size:36
Alignment explanation
Indices: 877601--877703 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
877591 ACGGTGCTGG
*
877601 ACATTGATACACAAATGTACCAAAGCTGATAGGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
*
877637 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATAGGATA
877673 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
877704 ATACGCAACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATAGGATA
Found at i:881177 original size:15 final size:15
Alignment explanation
Indices: 881157--881191 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
881147 CCGTAGGACC
881157 ACTACGTCCCAAAGG
1 ACTACGTCCCAAAGG
*
881172 ACTACGTCCCGAAGG
1 ACTACGTCCCAAAGG
881187 ACTAC
1 ACTAC
881192 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCAAAGG
Found at i:881422 original size:7 final size:7
Alignment explanation
Indices: 881377--881427 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
881367 TGTCTCATAG
881377 CATATAT
1 CATATAT
*
881384 CACATAT
1 CATATAT
881391 GCATATAAT
1 -CATAT-AT
*
881400 CATGTAT
1 CATATAT
881407 -ATCATAT
1 CAT-ATAT
881414 CATATAT
1 CATATAT
881421 CATATAT
1 CATATAT
881428 ATAACTATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
6 2 0.06
7 22 0.61
8 10 0.28
9 2 0.06
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (7 bp):
CATATAT
Found at i:892787 original size:41 final size:41
Alignment explanation
Indices: 892735--892855 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
892725 TAGTTGAAAA
* *
892735 TCGCGTTGCGATAGTGTAAAGTGTCATTGCGATTTTCCATC
1 TCGCATTGCGATAGTGTAAAGTGTCGTTGCGATTTTCCATC
* * *
892776 TCGTATTGCGATAGTGTATAGTGTCGTTGCGATTTTCCATT
1 TCGCATTGCGATAGTGTAAAGTGTCGTTGCGATTTTCCATC
* * *
892817 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCA
1 TCGCATTGCGATAGTGTAAAGTGTCGTTGCGATTTTCCA
892856 AATTCGTTGC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATAGTGTAAAGTGTCGTTGCGATTTTCCATC
Found at i:892808 original size:62 final size:62
Alignment explanation
Indices: 892673--892790 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
892663 GCGTTGCATT
* * * * *
892673 TCGCGTTGCGATAGTCTACAGTGTCGTTGTGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTCTAAAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGTTGAAAA
* *
892735 TCGCGTTGCGATAGTGTAAAGTGTCATTGCGATTTTCCATCTCGTATTGCGATAGT
1 TCGCGTTGCGATAGTCTAAAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGT
892791 GTATAGTGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (62 bp):
TCGCGTTGCGATAGTCTAAAGTGTCATTGCGATTTTCCATCTCGCATTGCGATAGTTGAAAA
Found at i:892846 original size:21 final size:19
Alignment explanation
Indices: 892820--892874 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
892810 TTCCATTTCG
*
892820 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTA-AAT-T
** *
892841 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTAAATT
892860 CGTTGCGATAGTCTA
1 CGTTGCGATAGTCTA
892875 TAGTAAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 13 0.48
20 2 0.07
21 12 0.44
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCTAAATT
Found at i:893485 original size:6 final size:6
Alignment explanation
Indices: 893459--893500 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
893449 CGCCGTCTCG
893459 GGTCG- GGTC-T GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
893501 AATACGTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 13 0.38
6 21 0.62
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:894853 original size:28 final size:29
Alignment explanation
Indices: 894798--894853 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
894788 CAAATAAATT
***
894798 AAAATAGCTAATGATAAATTTTTATCAAA
1 AAAATAGCTAATGATAAATTAAAATCAAA
*
894827 AAAATTGCTAATGATAAA-TAAAATCAA
1 AAAATAGCTAATGATAAATTAAAATCAA
894854 TAAACAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAATAGCTAATGATAAATTAAAATCAAA
Found at i:898550 original size:24 final size:22
Alignment explanation
Indices: 898523--898571 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
898513 CTATAGTACC
898523 ATAAAATTCAAGAGTTTGTGTATG
1 ATAAAATT--AGAGTTTGTGTATG
* *
898547 ATAAGATTTGAGTTTGTGTATG
1 ATAAAATTAGAGTTTGTGTATG
898569 ATA
1 ATA
898572 CGATTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (22 bp):
ATAAAATTAGAGTTTGTGTATG
Found at i:898559 original size:22 final size:22
Alignment explanation
Indices: 898534--898579 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
898524 TAAAATTCAA
898534 GAGTTTGTGTATGATAAGATTT
1 GAGTTTGTGTATGATAAGATTT
*
898556 GAGTTTGTGTATGATACGATTT
1 GAGTTTGTGTATGATAAGATTT
898578 GA
1 GA
898580 ATTTATTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (22 bp):
GAGTTTGTGTATGATAAGATTT
Found at i:899805 original size:15 final size:15
Alignment explanation
Indices: 899785--899815 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
899775 GATACGAAAG
899785 AGGATGTAAAGTGTA
1 AGGATGTAAAGTGTA
899800 AGGATGTAAAGTGTA
1 AGGATGTAAAGTGTA
899815 A
1 A
899816 TGCAAGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (15 bp):
AGGATGTAAAGTGTA
Found at i:901776 original size:2 final size:2
Alignment explanation
Indices: 901769--901796 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
901759 AACATCTCGA
901769 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
901797 TAAATTTGAT
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:904936 original size:22 final size:22
Alignment explanation
Indices: 904911--904952 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
904901 ATTAAATTTA
904911 AATTAGG-ATCAAATGTATAAAT
1 AATTAGGAAT-AAATGTATAAAT
904933 AATTAGGAATAAATGTATAA
1 AATTAGGAATAAATGTATAA
904953 TTATATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (22 bp):
AATTAGGAATAAATGTATAAAT
Found at i:905972 original size:4 final size:4
Alignment explanation
Indices: 905963--905989 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
905953 TAATTTGTGC
905963 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
905990 TTACTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:908425 original size:138 final size:139
Alignment explanation
Indices: 908250--908503 Score: 341
Period size: 138 Copynumber: 1.8 Consensus size: 139
908240 GAGGACCGCA
* * *
908250 TTGTTAACGATGAGGCAGCACTCGGAATTCGAGAATTCCGAGA-ACGGTATGGAACATAATGATC
1 TTGTTAACGATGAGGCAGCACCCGGAAATCGAGAATTCCGA-ACACGGTAAGGAACATAATGATC
* * *
908314 ATGATCACGAAGGCGAACATCCCACACT-ACCAAAAAGACCACCATCACCTTTACCGGTTGCGAG
65 ATGATAAAGAAGCCGAACATCCCACACTGACCAAAAAGACCACCATCACCTTTACCGGTTGCGAG
908378 GAGGGCTGCG
130 GAGGGCTGCG
* * * * * * *
908388 TTGTTAACTATGAGGCAGTACCCTGAAATGGAGAATTCTGAACAGGGTAAGGAACATAATGATTA
1 TTGTTAACGATGAGGCAGCACCCGGAAATCGAGAATTCCGAACACGGTAAGGAACATAATGATCA
*
908453 TGATAAAGAAGCCGAACATCCCACACTAGGACCAAAAAGACCGCCATCACC
66 TGATAAAGAAGCCGAACATCCCACACT--GACCAAAAAGACCACCATCACC
908504 AATACCGACG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
137 1 0.01
138 77 0.79
141 20 0.20
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (139 bp):
TTGTTAACGATGAGGCAGCACCCGGAAATCGAGAATTCCGAACACGGTAAGGAACATAATGATCA
TGATAAAGAAGCCGAACATCCCACACTGACCAAAAAGACCACCATCACCTTTACCGGTTGCGAGG
AGGGCTGCG
Found at i:909400 original size:153 final size:154
Alignment explanation
Indices: 908958--909681 Score: 797
Period size: 153 Copynumber: 4.6 Consensus size: 154
908948 GGACCATCAA
* * * * * * * *
908958 GATCACCATCACCGTTGCCAGCAACAATGACAACAATGAAATG-TTCAGAAATGGAGGATTC-TG
1 GATCACCATCACCGTTACCAGCAACAACGACAATAAAGGAGTGCTT-GGAAATGGAGGA-CCATG
* * * * * * *
909021 ATCAAGGTGAGAAAAAGGAACCTACGGATTCAAAAC-ATGATTACAAGGAACATAAAGATCATGA
64 AACAAGGTAAGAAACAGGAACCAACGGATTCAACACAATCATTACAAGGAACATAAAGACCATGA
* *
909085 TAAAGAAAGCGAACAGCCCGCACCCAGACCATCAG
129 TAAAGAAAGTGAACA------ACCC-G--CACCAG
* * * * * *
909120 GATCACCATCATCGTTACCAGCAACAATGACAACAATGGAATG-TTCAGAAATGGAGGATTCCGA
1 GATCACCATCACCGTTACCAGCAACAACGACAATAAAGGAGTGCTT-GGAAATGGAGGA--CC-A
* * * * **
909184 T-AA-AA-GTAAGATAA-AGGAACCAATGGATTCAACAC-ATCATGAAAAGGAGCATAAAGATGA
62 TGAACAAGGTAAGA-AACAGGAACCAACGGATTCAACACAATCATTACAAGGAACATAAAGACCA
909244 TGATAAAGAAAGTGAACAACCCGCACCAG
126 TGATAAAGAAAGTGAACAACCCGCACCAG
*
909273 GATCACCATCACCGTTACCAGCAACAACGACGATAAAGGAGTGCTTGGAAATGGAGGACCATGAA
1 GATCACCATCACCGTTACCAGCAACAACGACAATAAAGGAGTGCTTGGAAATGGAGGACCATGAA
909338 CAAGGTAAGAAACAGGAACCAACGGATTCAACACAAT-ATTACAAGGAACATAAAGACCATGATA
66 CAAGGTAAGAAACAGGAACCAACGGATTCAACACAATCATTACAAGGAACATAAAGACCATGATA
909402 AAGAAAGTGAACAACCCGCACCAG
131 AAGAAAGTGAACAACCCGCACCAG
*
909426 GATCACCATCACCGTTACCAGCAACAACGACGATAAAGGAGTGCTTGGAAATGGAGGACCATGAA
1 GATCACCATCACCGTTACCAGCAACAACGACAATAAAGGAGTGCTTGGAAATGGAGGACCATGAA
909491 CAAGGTAAGAAACAGGAACCAACGGATTCAACACAAT-ATTACAAGGAACATAAAGACCATGATA
66 CAAGGTAAGAAACAGGAACCAACGGATTCAACACAATCATTACAAGGAACATAAAGACCATGATA
*
909555 AAGAAAGTGAACAACCCGCGCCAG
131 AAGAAAGTGAACAACCCGCACCAG
* * * * * *
909579 GATCACCATCACTGATA-CAGGAAACAACGACAATAAAGGAGTACTGCTCGGCAACGGAGGACCA
1 GATCACCATCACCGTTACCA-GCAACAACGACAATAAAGGAG---TGCTTGGAAATGGAGGACCA
* * * * *
909643 TGAGCATGGTAAGAAACAAGAATCAACGGATTCAGCACA
62 TGAACAAGGTAAGAAACAGGAACCAACGGATTCAACACA
909682 TGATAAAGAA
Statistics
Matches: 506, Mismatches: 42, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
150 2 0.00
151 4 0.01
152 6 0.01
153 311 0.61
154 4 0.01
155 1 0.00
156 55 0.11
162 115 0.23
163 6 0.01
164 1 0.00
165 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (154 bp):
GATCACCATCACCGTTACCAGCAACAACGACAATAAAGGAGTGCTTGGAAATGGAGGACCATGAA
CAAGGTAAGAAACAGGAACCAACGGATTCAACACAATCATTACAAGGAACATAAAGACCATGATA
AAGAAAGTGAACAACCCGCACCAG
Found at i:915932 original size:13 final size:13
Alignment explanation
Indices: 915908--915942 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
915898 TATTTATTAT
915908 ATATTT-ATAAAA
1 ATATTTAATAAAA
915920 ATATTTAAT-AAA
1 ATATTTAATAAAA
915932 ATATTTAATAA
1 ATATTTAATAA
915943 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:916010 original size:19 final size:18
Alignment explanation
Indices: 915982--916030 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
915972 AATATATTTA
*
915982 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAACG
916000 AAAACATATAAAATAAACG
1 AAAACA-ATAAAATAAACG
916019 AAAA-AATAAAAT
1 AAAACAATAAAAT
916031 TAAAAATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAACAATAAAATAAACG
Found at i:917342 original size:3 final size:3
Alignment explanation
Indices: 917334--917401 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
917324 AATATATATT
*
917334 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
917382 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
917402 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:917853 original size:113 final size:113
Alignment explanation
Indices: 917717--918383 Score: 1140
Period size: 113 Copynumber: 5.9 Consensus size: 113
917707 TGATAGTATC
* *
917717 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*** * * *
917781 TCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTC
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
* * *
917829 AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
917894 TCATTCATAAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
917943 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
918008 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
918056 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
918121 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
918169 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
918234 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
918282 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
918347 TCATTATGAA-CTTCTCTGGCAATGAATGATCCATCAA
66 TCATTATGAACCTTCTCTGGCAATG-TTGATCCATCAA
918384 GTGGATTTGA
Statistics
Matches: 529, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
112 17 0.03
113 412 0.78
114 100 0.19
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
Found at i:919191 original size:84 final size:84
Alignment explanation
Indices: 919093--919611 Score: 918
Period size: 84 Copynumber: 6.2 Consensus size: 84
919083 TTCATCTTTT
* * *
919093 AATTCCAACGATTGGTTCTGTCC-AACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 AATT-CAATGATTGGTTCTG-CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
919157 ATTGAGCAAATTCATCTTCCA
64 ATTGAGCAAATTCATCTTCCA
919178 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
919243 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
*
919262 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
919327 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
919346 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
919411 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
919430 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
919495 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
* *
919514 AATTCAATGATT-GTCTATGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 AATTCAATGATTGGT-TCTG-CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
*
919577 ATTGAGCAAATTCATCTTCTA
64 ATTGAGCAAATTCATCTTCCA
919598 AATTCAATGATTGG
1 AATTCAATGATTGG
919612 ACTAAGATAT
Statistics
Matches: 422, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
83 4 0.01
84 411 0.97
85 7 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (84 bp):
AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
TGAGCAAATTCATCTTCCA
Found at i:920750 original size:16 final size:15
Alignment explanation
Indices: 920731--920776 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
920721 CCTTGACCCC
920731 CTTTCTTTTTTCTTCT
1 CTTT-TTTTTTCTTCT
*
920747 CTTTTTTTTATTTTCT
1 CTTTTTTTT-TCTTCT
*
920763 ATTTTTTTTTCTTC
1 CTTTTTTTTTCTTC
920777 AAGCATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (15 bp):
CTTTTTTTTTCTTCT
Found at i:931391 original size:13 final size:15
Alignment explanation
Indices: 931369--931405 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
931359 TTTGACATAA
931369 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
931381 AAATAAAATACTTGC
1 AAATAAAATACTTGC
931396 AAATAAAATA
1 AAATAAAATA
931406 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:931444 original size:18 final size:17
Alignment explanation
Indices: 931396--931446 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
931386 AAATACTTGC
*
931396 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
931414 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
931432 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
931447 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:932157 original size:13 final size:13
Alignment explanation
Indices: 932133--932167 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
932123 ACTATTTATT
932133 ATATTT-ATAAAA
1 ATATTTAATAAAA
932145 ATATTTAAT-AAA
1 ATATTTAATAAAA
932157 ATATTTAATAA
1 ATATTTAATAA
932168 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:932235 original size:19 final size:18
Alignment explanation
Indices: 932207--932255 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
932197 AATATATTTA
*
932207 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAACG
932225 AAAACATATAAAATAAACG
1 AAAACA-ATAAAATAAACG
932244 AAAA-AATAAAAT
1 AAAACAATAAAAT
932256 TAAAAATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (18 bp):
AAAACAATAAAATAAACG
Found at i:933570 original size:3 final size:3
Alignment explanation
Indices: 933562--933641 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
933552 AATATATATT
*
933562 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
933610 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
933642 TGGATAACAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:938066 original size:30 final size:30
Alignment explanation
Indices: 938014--938080 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
938004 AATAACTTTC
*
938014 AAATCTAAATTTAATTTATTATAATAAAGT
1 AAATATAAATTTAATTTATTATAATAAAGT
*
938044 AAATATAATTTTAAGTTT-TTATAATAAAGT
1 AAATATAAATTTAA-TTTATTATAATAAAGT
938074 AAATATA
1 AAATATA
938081 TAACTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATATAAATTTAATTTATTATAATAAAGT
Found at i:941256 original size:19 final size:19
Alignment explanation
Indices: 941232--941270 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
941222 GATTTGGAGT
*
941232 CACGTGAGATAAGGTGCGC
1 CACGTGAGATAAGGCGCGC
* *
941251 CACGTGGGGTAAGGCGCGC
1 CACGTGAGATAAGGCGCGC
941270 C
1 C
941271 CCTTGTGTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.41, T:0.13
Consensus pattern (19 bp):
CACGTGAGATAAGGCGCGC
Found at i:944935 original size:34 final size:33
Alignment explanation
Indices: 944893--944963 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
944883 AAGGGTAATA
*
944893 AACAAAATTAAGCAAAATAAATTAACAA-AAAGTCC
1 AACAAATTTAA-CAAAATAAATTAA-AATAAA-TCC
944928 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAATTTAACAAAATAAATTAAAATAAATCC
944961 AAC
1 AAC
944964 CATATTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 8 0.24
34 16 0.47
35 10 0.29
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (33 bp):
AACAAATTTAACAAAATAAATTAAAATAAATCC
Found at i:945021 original size:13 final size:13
Alignment explanation
Indices: 945003--945046 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
944993 TGATAAATAA
*
945003 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
945016 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
945029 AAACAACTACAAT
1 AAAAAACTACAAT
945042 AAAAA
1 AAAAA
945047 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:947997 original size:39 final size:39
Alignment explanation
Indices: 947943--948027 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
947933 CTTATTGATT
*
947943 TGAAGACGCTGTGTACTCATGAGGTCTTTTCAATTTACC
1 TGAAGACGCTGTGTACTCATGAGGTATTTTCAATTTACC
* *
947982 TGAAGACGCTGTGTACTCATGGGGTATTTTCAATTTCCC
1 TGAAGACGCTGTGTACTCATGAGGTATTTTCAATTTACC
948021 TGAAGAC
1 TGAAGAC
948028 ACCATGTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (39 bp):
TGAAGACGCTGTGTACTCATGAGGTATTTTCAATTTACC
Found at i:954429 original size:113 final size:113
Alignment explanation
Indices: 954249--954463 Score: 367
Period size: 113 Copynumber: 1.9 Consensus size: 113
954239 TAAACATTAA
*
954249 ACGTTAAAGTTATCTTTATGCCTATGAAATAGTGCCCACATGATGATACCAATCTATTACAGACA
1 ACGTTAAAGTTATCTTTATGCCTATGAAATAGTACCCACATGATGATACCAATCTATTACAGACA
*
954314 GTCATTTAGTGCTTGGCATAGATGACTATATTTTAGAGAAAATATCTG
66 GTCATTTAGTGCATGGCATAGATGACTATATTTTAGAGAAAATATCTG
* * * *
954362 ACGTTAAAGTTATCTTTATGCCTTTGAAATAGTATCCACATGATGATACCACTCTATTACAGCCA
1 ACGTTAAAGTTATCTTTATGCCTATGAAATAGTACCCACATGATGATACCAATCTATTACAGACA
*
954427 GTCATTTAGTGGATGGCATAGATGACTATATTTTAGA
66 GTCATTTAGTGCATGGCATAGATGACTATATTTTAGA
954464 AAAGATGTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (113 bp):
ACGTTAAAGTTATCTTTATGCCTATGAAATAGTACCCACATGATGATACCAATCTATTACAGACA
GTCATTTAGTGCATGGCATAGATGACTATATTTTAGAGAAAATATCTG
Found at i:963338 original size:20 final size:22
Alignment explanation
Indices: 963299--963339 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
963289 ATTTTGTTTG
963299 TATTATCATTTTGGGTCACATAA
1 TATTATCATTTT-GGTCACATAA
963322 TATTAT-ATTTT-GTCACAT
1 TATTATCATTTTGGTCACAT
963340 GAAAGTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (22 bp):
TATTATCATTTTGGTCACATAA
Found at i:964658 original size:24 final size:24
Alignment explanation
Indices: 964595--964658 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
964585 ATATACTTAA
964595 ATTAA-ATTTTATAAATAAATTAT
1 ATTAATATTTTATAAATAAATTAT
**
964618 ATTAAT-TGTTTGA-AAATATTTTAT
1 ATTAATAT-TTT-ATAAATAAATTAT
*
964642 TTTAATATTTTATAAAT
1 ATTAATATTTTATAAAT
964659 TGTAATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 7 0.21
24 24 0.73
25 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
ATTAATATTTTATAAATAAATTAT
Found at i:972041 original size:34 final size:34
Alignment explanation
Indices: 972003--972067 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
971993 ATTTAATTTT
* * *
972003 TAAAATATTACAAAATAATTAATAAATTTATCCA
1 TAAAAAATCACAAAATAATTAATAAACTTATCCA
* *
972037 TAAAAAATCATAAAATAATTTATAAACTTAT
1 TAAAAAATCACAAAATAATTAATAAACTTAT
972068 AAAAACTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (34 bp):
TAAAAAATCACAAAATAATTAATAAACTTATCCA
Found at i:978768 original size:15 final size:16
Alignment explanation
Indices: 978734--978779 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
978724 TATCATCTGA
*
978734 TATTATATTATAATAAAT
1 TATTATATTTTAAT--AT
978752 TATTAT-TTTTAATAT
1 TATTATATTTTAATAT
978767 TATTATATTTTAA
1 TATTATATTTTAA
978780 ATCTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 6 0.23
18 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATATTTTAATAT
Found at i:995562 original size:25 final size:24
Alignment explanation
Indices: 995523--995570 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
995513 TGATGAAGAA
*
995523 TACATCAAAGGAAAAAATAAAATAC
1 TACATCAAA-GAAAAAAAAAAATAC
* *
995548 TACATCAAATAAAAATAAAAATA
1 TACATCAAAGAAAAAAAAAAATA
995571 AAATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (24 bp):
TACATCAAAGAAAAAAAAAAATAC
Found at i:996111 original size:40 final size:40
Alignment explanation
Indices: 996067--996158 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
996057 ACGAAAGTTA
* * *
996067 AATTCGTAACGCGAATAGTTAAATTACAACGATAATATGT
1 AATTCGCAACGCGAATAGGTAAATCACAACGATAATATGT
* *
996107 AATTCGCAACGCGAATAGGTAAATCGCAATGATAATATGT
1 AATTCGCAACGCGAATAGGTAAATCACAACGATAATATGT
* *
996147 AAATCACAACGC
1 AATTCGCAACGC
996159 AAATTCTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (40 bp):
AATTCGCAACGCGAATAGGTAAATCACAACGATAATATGT
Found at i:996116 original size:20 final size:20
Alignment explanation
Indices: 996093--996157 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
996083 AGTTAAATTA
*
996093 CAACGATAATATGTAATTCG
1 CAACGATAATATGTAAATCG
** *
996113 CAACGCGAATAGGTAAATCG
1 CAACGATAATATGTAAATCG
* *
996133 CAATGATAATATGTAAATCA
1 CAACGATAATATGTAAATCG
996153 CAACG
1 CAACG
996158 CAAATTCTCT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (20 bp):
CAACGATAATATGTAAATCG
Found at i:996258 original size:20 final size:20
Alignment explanation
Indices: 996206--996258 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
996196 AATTCCCAAT
* *
996206 ATAGGTAATTAGCGTTGCGA
1 ATAGGTAAATCGCGTTGCGA
* *
996226 AAACG-AAATTCGCGTTGCGA
1 ATAGGTAAA-TCGCGTTGCGA
996246 ATAGGTAAATCGC
1 ATAGGTAAATCGC
996259 AACGATAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (20 bp):
ATAGGTAAATCGCGTTGCGA
Found at i:996338 original size:125 final size:125
Alignment explanation
Indices: 996117--996348 Score: 365
Period size: 125 Copynumber: 1.9 Consensus size: 125
996107 AATTCGCAAC
* *
996117 GCGAATAGGTAAATCGCAATGATAATATGTAAATCACAACGCAAATTCTCTAAATTCGCAACTCA
1 GCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCTAAATTCGCAACTCA
* *
996182 AATTTCGCAACGCTAATTCCCAATATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTT
66 AATTTCGCAACGCTAATTACCAACATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTT
* * *
996242 GCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACACGAATTCTCTAAATTCGCAACTCG
1 GCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCTAAATTCGCAACTCA
* * * *
996307 AATTTCGCAACGCTAATTACCTACCTCGGTAATTATCGTTGC
66 AATTTCGCAACGCTAATTACCAACATAGGTAATTAGCGTTGC
996349 AAATTCTCCA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 96 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (125 bp):
GCGAATAGGTAAATCGCAACGATAATATGTAAATCACAACACAAATTCTCTAAATTCGCAACTCA
AATTTCGCAACGCTAATTACCAACATAGGTAATTAGCGTTGCGAAAACGAAATTCGCGTT
Found at i:996403 original size:65 final size:65
Alignment explanation
Indices: 996285--996413 Score: 195
Period size: 65 Copynumber: 2.0 Consensus size: 65
996275 TCGCAACACG
* * * * * *
996285 AATTCTCTAAATTCGCAACTCGAATTTCGCAACGCTAATTACCTACCTCGGTAATTATCGTTGCA
1 AATTCTCCAAATTCGCAACTCGAATTTCGCAACGCCAATTACCGACATAGGTAATTAGCGTTGCA
*
996350 AATTCTCCAAATTCGCAACTCGAATTTCGCAACGCCAATTACCGATATAGGTAATTAGCGTTGC
1 AATTCTCCAAATTCGCAACTCGAATTTCGCAACGCCAATTACCGACATAGGTAATTAGCGTTGC
996414 GAAAATGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (65 bp):
AATTCTCCAAATTCGCAACTCGAATTTCGCAACGCCAATTACCGACATAGGTAATTAGCGTTGCA
Found at i:996508 original size:20 final size:20
Alignment explanation
Indices: 996483--996548 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
996473 TTATGTGTTA
996483 CGATTTACATATTCGCGTTG
1 CGATTTACATATTCGCGTTG
**
996503 CGATTTACATATTATCGTTG
1 CGATTTACATATTCGCGTTG
*
996523 CGATTTACCTATTCGCGTTG
1 CGATTTACATATTCGCGTTG
996543 CGATTT
1 CGATTT
996549 TGAAACTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (20 bp):
CGATTTACATATTCGCGTTG
Found at i:996563 original size:40 final size:39
Alignment explanation
Indices: 996476--996565 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 39
996466 ATTTGATTTA
* *
996476 TGTGTTACGATTTACATATTCGCGTTGCGATTTACATAT
1 TGTGTTGCGATTTACATATTCGCGTTGCGATTTACAAAT
* * **
996515 TATCGTTGCGATTTACCTATTCGCGTTGCGATTTTGAAACT
1 TGT-GTTGCGATTTACATATTCGCGTTGCGATTTACAAA-T
996556 TGTGTTGCGA
1 TGTGTTGCGA
996566 AATTGGAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.05
40 37 0.88
41 3 0.07
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (39 bp):
TGTGTTGCGATTTACATATTCGCGTTGCGATTTACAAAT
Found at i:1002980 original size:30 final size:29
Alignment explanation
Indices: 1002920--1002991 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
1002910 TTTTTCTCTC
1002920 TTTAAAATTAAAATGTTGTAATTATATAT
1 TTTAAAATTAAAATGTTGTAATTATATAT
* * *
1002949 TTTCAAATTAAAATTGTAT-TTATTATTTAT
1 TTTAAAATTAAAA-TGT-TGTAATTATATAT
*
1002979 TTTAAAATAAAAA
1 TTTAAAATTAAAA
1002992 ATTACGTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 12 0.33
30 23 0.64
31 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTAAAATTAAAATGTTGTAATTATATAT
Found at i:1007984 original size:3 final size:3
Alignment explanation
Indices: 1007976--1008004 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1007966 TAGCTAGTAC
1007976 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1008005 GTATTTCGTC
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:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:1013279 original size:33 final size:34
Alignment explanation
Indices: 1013229--1013297 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
1013219 CATTGCATCC
*
1013229 AATCCAATTTTTTATGAATAAACGAAACACGTTA
1 AATCCAATTTTTTATGAATAAACGAAACACATTA
1013263 AATCCAA-TTTTTATGAATAAACGAAACACATTA
1 AATCCAATTTTTTATGAATAAACGAAACACATTA
1013296 AA
1 AA
1013298 ATTGATTGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (34 bp):
AATCCAATTTTTTATGAATAAACGAAACACATTA
Found at i:1013557 original size:2 final size:2
Alignment explanation
Indices: 1013550--1013579 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1013540 TTACTTTACT
1013550 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
1013580 CTCATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1016585 original size:37 final size:38
Alignment explanation
Indices: 1016544--1016615 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
1016534 CACCGTACCT
* * *
1016544 GACCTG-ATCTGACCCGAAAAATATATACCTTCCATCC
1 GACCTGAATCCGACCCAAAAAATATATACCCTCCATCC
1016581 GACCTGAATCCGACCCAAAAAATATATACCCTCCA
1 GACCTGAATCCGACCCAAAAAATATATACCCTCCA
1016616 CCTGACCCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 6 0.19
38 25 0.81
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (38 bp):
GACCTGAATCCGACCCAAAAAATATATACCCTCCATCC
Found at i:1017406 original size:26 final size:27
Alignment explanation
Indices: 1017364--1017414 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1017354 AATTAATTCT
*
1017364 TATTTTTTTCTCTAAATTGA-ATATTA
1 TATTTTTTTCTCGAAATTGATATATTA
1017390 TATTTTTTT-TGCGAAATTGATATAT
1 TATTTTTTTCT-CGAAATTGATATAT
1017415 GAATTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 17 0.77
27 4 0.18
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (27 bp):
TATTTTTTTCTCGAAATTGATATATTA
Found at i:1024023 original size:26 final size:26
Alignment explanation
Indices: 1023982--1024033 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
1023972 TTTTTCTCCT
1023982 TATTTTTACTATTTTTCTTTAAAAAA
1 TATTTTTACTATTTTTCTTTAAAAAA
1024008 TATTTTTACTTATTTTTCTTTAAAAA
1 TATTTTTAC-TATTTTTCTTTAAAAA
1024034 CAAATATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTTTACTATTTTTCTTTAAAAAA
Found at i:1025750 original size:54 final size:54
Alignment explanation
Indices: 1025662--1025769 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
1025652 ACCATCACTC
* * *
1025662 ATATCCGACTCGTAAAGTCTCGAAATAGTCCGATATTTCTATT-TTGTCGATCGA
1 ATATCCGACTCGTAAAGTCTCGAAACAATCCGATATTTCT-TTATCGTCGATCGA
* * * *
1025716 ATATCCGTCTCGTAAATTTTCGAAACAATTCGATATTTCTTTATCGTCGATCGA
1 ATATCCGACTCGTAAAGTCTCGAAACAATCCGATATTTCTTTATCGTCGATCGA
1025770 GAGAACCGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 2 0.04
54 44 0.96
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (54 bp):
ATATCCGACTCGTAAAGTCTCGAAACAATCCGATATTTCTTTATCGTCGATCGA
Found at i:1031181 original size:229 final size:227
Alignment explanation
Indices: 1030774--1031222 Score: 774
Period size: 229 Copynumber: 2.0 Consensus size: 227
1030764 GTAAATTATC
* * *
1030774 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
1030839 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
1030904 TGATTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGATTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
1030969 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
1031002 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTAG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
1031067 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* * *
1031132 TTG-TGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAATAAAT
130 TTGAT-TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
1031196 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
1031223 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 40 0.19
229 169 0.81
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGATTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:1031311 original size:20 final size:19
Alignment explanation
Indices: 1031288--1031333 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1031278 CGATATACCA
1031288 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1031308 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1031328 GGTAAA
1 GGTAAA
1031334 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1031479 original size:20 final size:19
Alignment explanation
Indices: 1031456--1031502 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1031446 CGATATAACA
1031456 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1031476 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1031496 GGTAAAA
1 GGTAAAA
1031503 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1031504 original size:17 final size:19
Alignment explanation
Indices: 1031465--1031507 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1031455 AGGTAAAAAT
1031465 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1031485 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1031502 ATGATA
1 ATGATA
1031508 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1033783 original size:21 final size:21
Alignment explanation
Indices: 1033736--1033800 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1033726 AAGACAATCA
* *
1033736 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
1033758 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
1033778 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
1033799 AG
1 AG
1033801 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:1033876 original size:33 final size:33
Alignment explanation
Indices: 1033834--1033899 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1033824 AAATAGATGG
*
1033834 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1033867 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1033900 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1035104 original size:4 final size:4
Alignment explanation
Indices: 1035095--1035131 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
1035085 TAAGAGATTG
1035095 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1035132 AAAGGACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:1035735 original size:19 final size:19
Alignment explanation
Indices: 1035711--1035759 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1035701 AATGTAGGGT
1035711 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1035730 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1035749 TATTTTTGTAT
1 TAATTTTGTAT
1035760 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1036360 original size:198 final size:198
Alignment explanation
Indices: 1035878--1036649 Score: 1436
Period size: 198 Copynumber: 3.9 Consensus size: 198
1035868 CAATATGGCC
* *
1035878 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
1035943 ACCAAAAGTATAATATAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
1036008 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCATAATGA
1036073 ATGGAA
193 ATGGAA
*
1036079 AACAGGGTGCACCCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1036144 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
1036209 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCATAATGAATG
1036274 GAA
196 GAA
1036277 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1036342 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1036407 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCATAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCATAATGAATG
1036472 GAA
196 GAA
*
1036475 AACAGGGTGCACCCATAAAGTGTCGATCCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1036540 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1036605 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT
1036650 GCTAATTTAA
Statistics
Matches: 559, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
198 389 0.70
199 112 0.20
200 24 0.04
201 34 0.06
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCATAATGAATG
GAA
Found at i:1038136 original size:18 final size:18
Alignment explanation
Indices: 1038115--1038176 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
1038105 AGCGGTCGCA
1038115 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
1038133 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
1038151 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
1038169 GAAGATGA
1 GAAGATGA
1038177 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:1038139 original size:6 final size:6
Alignment explanation
Indices: 1038115--1038206 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
1038105 AGCGGTCGCA
* * * * * *
1038115 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
1038163 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1038207 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:1038150 original size:3 final size:3
Alignment explanation
Indices: 1038130--1038210 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
1038120 TGAAGCTGAC
* * * * * ** *
1038130 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
1038178 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1038211 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:1038169 original size:36 final size:36
Alignment explanation
Indices: 1038118--1038194 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
1038108 GGTCGCAGAA
*
1038118 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
1038154 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
1038190 GATGA
1 GATGA
1038195 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:1038210 original size:12 final size:12
Alignment explanation
Indices: 1038118--1038206 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
1038108 GGTCGCAGAA
*
1038118 GATGAAGCTGAC
1 GATGAAGATGAC
1038130 GATGAAGATGAC
1 GATGAAGATGAC
*
1038142 GATGATGATGAC
1 GATGAAGATGAC
* *
1038154 GATGAAGCTGGC
1 GATGAAGATGAC
*
1038166 GATGAAGATGAT
1 GATGAAGATGAC
* * *
1038178 GACGATGATGAT
1 GATGAAGATGAC
* *
1038190 GATGATGATGAA
1 GATGAAGATGAC
1038202 GATGA
1 GATGA
1038207 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1038210 original size:18 final size:18
Alignment explanation
Indices: 1038115--1038206 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
1038105 AGCGGTCGCA
*
1038115 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
1038133 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
1038151 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
1038169 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
1038187 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
1038205 GA
1 GA
1038207 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:1039985 original size:183 final size:183
Alignment explanation
Indices: 1039702--1040751 Score: 2010
Period size: 183 Copynumber: 5.7 Consensus size: 183
1039692 GTAAATTTAC
1039702 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1039767 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
1039832 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
1039885 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1039950 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
*
1040015 TGTCGACATTTACACATCGGAACCCATAATTAGAATGTAATAGATAATTTTGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
*
1040068 AATATAACCGGTATAAATATACTGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1040133 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
1040198 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
1040251 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1040316 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
1040381 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
1040434 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1040499 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
* * * *
1040564 TATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAAATAATTTTGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
*
1040617 AATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
* * *
1040682 ATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
1040747 TGTCG
131 TGTCG
1040752 GTAATTTTAA
Statistics
Matches: 854, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 854 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGT
Found at i:1043252 original size:25 final size:25
Alignment explanation
Indices: 1043218--1043282 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1043208 TTATCATTAA
1043218 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1043243 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1043268 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1043283 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1043660 original size:23 final size:23
Alignment explanation
Indices: 1043629--1043692 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
1043619 ATAGGTAAAC
* *
1043629 ATATGATGTCATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
1043652 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
1043675 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1043693 TGGTTATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:1043699 original size:23 final size:23
Alignment explanation
Indices: 1043650--1043701 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1043640 TAGGTAGCCC
* *
1043650 TTATATAATGTAATATGTATCGT
1 TTATATAATGTAATAGGTATCGG
1043673 TTATATAATGTAATAGGTAGT-GG
1 TTATATAATGTAATAGGTA-TCGG
1043696 TTATAT
1 TTATAT
1043702 TGTAAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:1044004 original size:25 final size:25
Alignment explanation
Indices: 1043970--1044020 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1043960 ACAACAAATC
*
1043970 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1043995 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1044020 A
1 A
1044021 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1044435 original size:18 final size:18
Alignment explanation
Indices: 1044414--1044450 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1044404 GTAATTGAAG
1044414 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1044432 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1044450 T
1 T
1044451 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1044458 original size:24 final size:25
Alignment explanation
Indices: 1044395--1044458 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
1044385 TTTCAAATTC
* *
1044395 ATTTC-ATATGTAATTGAAGTTTGA
1 ATTTCAATATATATTTGAAGTTTGA
* *
1044419 ATTTAAATTTCA-ATTTG-AGTTTGA
1 ATTTCAATAT-ATATTTGAAGTTTGA
1044443 ATTTCAATATATATTT
1 ATTTCAATATATATTT
1044459 CGGCTCCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.74
25 7 0.23
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (25 bp):
ATTTCAATATATATTTGAAGTTTGA
Found at i:1044752 original size:39 final size:39
Alignment explanation
Indices: 1044709--1044795 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1044699 TCCGATGCTC
*
1044709 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1044748 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1044787 ATCAAAATC
1 ATCAAAATC
1044796 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1045232 original size:23 final size:23
Alignment explanation
Indices: 1045201--1045273 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1045191 ATAGGTAAAC
*
1045201 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* **
1045224 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1045247 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1045270 ATAT
1 ATAT
1045274 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1045925 original size:334 final size:334
Alignment explanation
Indices: 1045316--1045984 Score: 1293
Period size: 334 Copynumber: 2.0 Consensus size: 334
1045306 CATACTTTTT
1045316 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
1045381 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
* *
1045446 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAA
131 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
1045511 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
196 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
1045576 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
261 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
1045641 TTGCAATGC
326 TTGCAATGC
1045650 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1045715 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
1045780 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
*
1045845 TATTGTAGGTGGAAAACATTAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
196 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
1045910 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
261 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
1045975 TTGCAATGC
326 TTGCAATGC
1045984 T
1 T
1045985 ATCGGTATAA
Statistics
Matches: 330, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
334 330 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (334 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
TTGCAATGC
Found at i:1049013 original size:26 final size:26
Alignment explanation
Indices: 1048962--1049016 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
1048952 ATATAAATTT
* *
1048962 TATAAATTTAAATTTAATAAAAAATA
1 TATAAATTGAAATATAATAAAAAATA
*
1048988 TATAAATTGAAA-ATAATACAATAATA
1 TATAAATTGAAATATAATA-AAAAATA
1049014 TAT
1 TAT
1049017 TTTATATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAATTGAAATATAATAAAAAATA
Found at i:1050522 original size:2 final size:2
Alignment explanation
Indices: 1050515--1050543 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1050505 TAGTTAGACA
1050515 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1050544 TAAATTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1051222 original size:20 final size:20
Alignment explanation
Indices: 1051173--1051223 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1051163 ACCTTTAGCT
*
1051173 TCGTTAAACCTGTAATTGAA
1 TCGTTAAACTTGTAATTGAA
1051193 TCGTTAAACTTGTAATTGAA
1 TCGTTAAACTTGTAATTGAA
1051213 TCGTTAAACTT
1 TCGTTAAACTT
1051224 TCTCGACTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
TCGTTAAACTTGTAATTGAA
Found at i:1056963 original size:2 final size:2
Alignment explanation
Indices: 1056950--1056981 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
1056940 CCTCTAAATC
1056950 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
1056982 GATTATGCAT
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:1068340 original size:17 final size:17
Alignment explanation
Indices: 1068318--1068355 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1068308 CCGACCGACC
1068318 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1068335 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1068352 GACC
1 GACC
1068356 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:1077233 original size:2 final size:2
Alignment explanation
Indices: 1077228--1077277 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
1077218 ATCATATGCG
* *
1077228 AT AT AT AT AT AT AT AT -T AG AT GAT AC 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
1077270 AT AT AT AT
1 AT AT AT AT
1077278 TTATCTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1079641 original size:21 final size:20
Alignment explanation
Indices: 1079615--1079653 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1079605 ATTTTTTCAA
1079615 AGTTATTAAAAAATATAAATT
1 AGTTATTAAAAAAT-TAAATT
*
1079636 AGTTATTTAAAAATTAAA
1 AGTTATTAAAAAATTAAA
1079654 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AGTTATTAAAAAATTAAATT
Found at i:1080572 original size:42 final size:42
Alignment explanation
Indices: 1080513--1080632 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
1080503 TTTCCCCGAA
*
1080513 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1080555 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
1080597 TTCCCGTGTTTATTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1080633 TGTAATTCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:1080868 original size:22 final size:23
Alignment explanation
Indices: 1080821--1080881 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
1080811 TAATTATTAA
* *
1080821 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
1080842 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
1080865 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
1080882 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:1080877 original size:31 final size:30
Alignment explanation
Indices: 1080832--1080983 Score: 85
Period size: 31 Copynumber: 5.1 Consensus size: 30
1080822 ATATTTAAAA
1080832 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTT-TT-ATATTTATAATAATATAATAT
*
1080864 TATATTTTTA-ATATTAT-ATAAAAT-A-AT
1 TATATTTTTATAT-TTATAATAATATAATAT
*
1080891 CA-A---TTATA-TTATAATAATATAAGATAT
1 TATATTTTTATATTTATAATAATAT-A-ATAT
1080918 TATATTTTTAT-TTTAATAAT-ATATAATAAT
1 TATATTTTTATATTT-ATAATAATATAAT-AT
* *
1080948 AAATTTTTTTATATATT-TAATAATGAATAATAT
1 -TATATTTTTATAT-TTATAATAAT--ATAATAT
1080981 TAT
1 TAT
1080984 TTATATATTT
Statistics
Matches: 93, Mismatches: 7, Indels: 40
0.66 0.05 0.29
Matches are distributed among these distances:
22 4 0.04
23 9 0.10
24 1 0.01
26 2 0.02
27 6 0.06
28 2 0.02
29 10 0.11
30 8 0.09
31 25 0.27
32 17 0.18
33 4 0.04
34 5 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATATTTTTATATTTATAATAATATAATAT
Found at i:1081245 original size:20 final size:20
Alignment explanation
Indices: 1081167--1081236 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
1081157 TTTCCAGATG
1081167 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
1081187 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
1081207 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
1081227 TTTTCCAGAA
1 TTTTCCAGAA
1081237 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:1081245 original size:40 final size:40
Alignment explanation
Indices: 1081167--1081245 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
1081157 TTTCCAGATG
* **
1081167 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
1081207 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
1081246 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:1081255 original size:15 final size:15
Alignment explanation
Indices: 1081219--1081285 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
1081209 TTACAGAAAT
**
1081219 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1081234 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
** *
1081248 GTAATTCATTTTTCA
1 GTAATTCAAATTCCA
*
1081263 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
1081278 GTAATTCA
1 GTAATTCA
1081286 TTTTCTGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 12 0.27
15 32 0.73
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1081269 original size:30 final size:29
Alignment explanation
Indices: 1081219--1081290 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 29
1081209 TTACAGAAAT
1081219 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
* *
1081248 GTAATTCATTTTTCAGTAATTCAAATTTCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
1081278 GTAATTCATTTTC
1 GTAATTCATTTTC
1081291 TGAAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 15 0.38
30 24 0.62
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:1084519 original size:27 final size:28
Alignment explanation
Indices: 1084489--1084548 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
1084479 CTTCACTAAT
*
1084489 ATAAGTACTAG-TTCTAATATGAATTAA
1 ATAAGTACTAGATTCAAATATGAATTAA
* *
1084516 ATAAGTATTAGTATTCAAATCTGAATTAA
1 ATAAGTACTAG-ATTCAAATATGAATTAA
1084545 ATAA
1 ATAA
1084549 ATAACATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.36
29 18 0.64
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (28 bp):
ATAAGTACTAGATTCAAATATGAATTAA
Found at i:1099386 original size:117 final size:117
Alignment explanation
Indices: 1099180--1099417 Score: 469
Period size: 117 Copynumber: 2.0 Consensus size: 117
1099170 ATACAGATTG
1099180 CATTCCTTAAGGCACGAAGAGGATTTGTTCGGATTGCTATGGAAACGGGGTGTCCCCTGGTCCCA
1 CATTCCTTAAGGCACGAAGAGGATTTGTTCGGATTGCTATGGAAACGGGGTGTCCCCTGGTCCCA
1099245 GTTTTCGCCTTTGGTCAGGTAAGTAATGTGTTTTGCAGCTTCAAAAATCAAA
66 GTTTTCGCCTTTGGTCAGGTAAGTAATGTGTTTTGCAGCTTCAAAAATCAAA
1099297 CATTCCTTAAGGCACGAAGAGGATTTGTTCGGATTGCTATGGAAACGGGGTGTCCCCTGGTCCCA
1 CATTCCTTAAGGCACGAAGAGGATTTGTTCGGATTGCTATGGAAACGGGGTGTCCCCTGGTCCCA
1099362 GTTTTCGCCTTTGGTCAGGTAAGTAATGTGTTTTGCAGCTTCAAAAATCAAA
66 GTTTTCGCCTTTGGTCAGGTAAGTAATGTGTTTTGCAGCTTCAAAAATCAAA
1099414 -ATTC
1 CATTC
1099418 ATTATTTTCA
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 4 0.03
117 117 0.97
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (117 bp):
CATTCCTTAAGGCACGAAGAGGATTTGTTCGGATTGCTATGGAAACGGGGTGTCCCCTGGTCCCA
GTTTTCGCCTTTGGTCAGGTAAGTAATGTGTTTTGCAGCTTCAAAAATCAAA
Found at i:1109474 original size:15 final size:14
Alignment explanation
Indices: 1109446--1109489 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1109436 ATTTATATAA
1109446 ATAAAGATAAAATT
1 ATAAAGATAAAATT
*
1109460 ATAAATGATATAA-T
1 ATAAA-GATAAAATT
1109474 -TAAAGATAAAATT
1 ATAAAGATAAAATT
1109487 ATA
1 ATA
1109490 GTCGAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 8 0.32
15 6 0.24
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (14 bp):
ATAAAGATAAAATT
Found at i:1109789 original size:29 final size:29
Alignment explanation
Indices: 1109755--1109813 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1109745 AGCCAACCCA
* **
1109755 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCACCATGCACTCCCAGCGACCTTG
1109784 TAGGTCACCATGCACTCCCAGCGACCTTG
1 TAGGTCACCATGCACTCCCAGCGACCTTG
1109813 T
1 T
1109814 CTTTTTGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.36, G:0.25, T:0.22
Consensus pattern (29 bp):
TAGGTCACCATGCACTCCCAGCGACCTTG
Found at i:1110090 original size:26 final size:26
Alignment explanation
Indices: 1110043--1110100 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
1110033 ACATAAAAGA
* *
1110043 AAGAAAGGGAGAAGAGATTGCAGTCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
* *
1110069 AAGAAAGGGAGATGATAGTGCAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
1110095 -AGAAAG
1 AAGAAAG
1110101 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.43, C:0.09, G:0.38, T:0.10
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGAGTGCAGCCG
Found at i:1110127 original size:13 final size:13
Alignment explanation
Indices: 1110109--1110148 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
1110099 AGAAAGAAAG
1110109 AAAGAAAGGGAGA
1 AAAGAAAGGGAGA
*
1110122 AAAGAAAGGAAGA
1 AAAGAAAGGGAGA
1110135 AGAAGAAAGGGAGA
1 A-AAGAAAGGGAGA
1110149 TAAGGCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
AAAGAAAGGGAGA
Found at i:1110705 original size:3 final size:3
Alignment explanation
Indices: 1110691--1110725 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1110681 AGAGATATTC
* *
1110691 TCT TCA TCT TCT TCT TCT TCT TCT TAT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1110726 ATGTACGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:1112114 original size:31 final size:31
Alignment explanation
Indices: 1112076--1112202 Score: 193
Period size: 31 Copynumber: 4.0 Consensus size: 31
1112066 AGGGTCGAGG
1112076 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1112107 GTTTACCTATGTTTTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1112138 GTTTACCTATGTTCTTCGGGACATATATGGACT
1 GTTTACCTATGTTCTTCGGGAC--ATATGGACT
*
1112171 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1112202 G
1 G
1112203 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
31 58 0.66
33 29 0.33
34 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1112192 original size:64 final size:62
Alignment explanation
Indices: 1112076--1112202 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 62
1112066 AGGGTCGAGG
* *
1112076 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGGTTCTTCGGGATATATGGACT
*
1112138 GTTTACCTATGTTCTTCGGGACATATATGGACTGTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTATGTTCTTCGGGAC--ATATGGACTGTTTACCTAGGTTCTTCGGGATATATGGACT
1112202 G
1 G
1112203 GTCCTTCGGG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 22 0.37
64 38 0.63
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGGTTCTTCGGGATATATGGACT
Found at i:1114989 original size:127 final size:126
Alignment explanation
Indices: 1114821--1115074 Score: 442
Period size: 127 Copynumber: 2.0 Consensus size: 126
1114811 AGCAACATAA
1114821 AAACATTAGAAGATGTCTTATTAGATGTGCAGTGAAAATTCGAGGACGAATTTTCTTAT-A-AGG
1 AAACATTAGAAGATGTCTTATTAGATGTGCAGTGAAAATTCGAGGACGAATTTTCTTATAAGAGG
1114884 GGAGAGTTGTAACATCCCAAACTAT-GGTTAGTGACTAAATGGTAAAGTTTCAGAAATTTG
66 GGAGAGTTGTAACATCCCAAACTATGGGTTAGTGACTAAATGGTAAAGTTTCAGAAATTTG
1114944 AAACATTAGAAGATATGTTCTTATTAAGATGTGCAGTGAAAATTCGAGGACGAATTTTCTTATAA
1 AAACATTAGAAG--ATG-TCTTATT-AGATGTGCAGTGAAAATTCGAGGACGAATTTTCTTATAA
1115009 GGAGGGGAGAGTTGTAACATCCCAAACTATGGGTTAGTGACTAAATGGTAAAGTTTCAGAAATTT
62 -GAGGGGAGAGTTGTAACATCCCAAACTATGGGTTAGTGACTAAATGGTAAAGTTTCAGAAATTT
1115074 G
126 G
1115075 GTGATTAAAG
Statistics
Matches: 123, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
123 12 0.10
125 3 0.02
126 7 0.06
127 37 0.30
128 1 0.01
130 28 0.23
131 35 0.28
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (126 bp):
AAACATTAGAAGATGTCTTATTAGATGTGCAGTGAAAATTCGAGGACGAATTTTCTTATAAGAGG
GGAGAGTTGTAACATCCCAAACTATGGGTTAGTGACTAAATGGTAAAGTTTCAGAAATTTG
Found at i:1117309 original size:15 final size:16
Alignment explanation
Indices: 1117281--1117314 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1117271 AAAGTTTACT
1117281 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
1117297 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
1117312 TTA
1 TTA
1117315 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:1119595 original size:59 final size:56
Alignment explanation
Indices: 1119532--1119652 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 56
1119522 TATTATAATT
* *
1119532 TCATTACTAGTAATCATTAGTAAATCATTAGTATCAAATAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTAGTAAATCATTAGTATCAAATAATTAAATATT--TAA-AAA
* *
1119591 TCATTATTAATAATAATTAGTAAATCATTAGTATCAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTAGTAAATCATTAGTATCAAATAATTAAATATTTAAAAA
1119647 TCATTA
1 TCATTA
1119653 ATAAATTCGA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 46 0.79
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (56 bp):
TCATTACTAATAATAATTAGTAAATCATTAGTATCAAATAATTAAATATTTAAAAA
Found at i:1119784 original size:25 final size:25
Alignment explanation
Indices: 1119756--1119845 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
1119746 TCATTAGTAT
1119756 TAAATCATTATTATAAAATCATTAC
1 TAAATCATTATTATAAAATCATTAC
1119781 TAAATCATTA-T-T-AAATCATTAC
1 TAAATCATTATTATAAAATCATTAC
* * *
1119803 TATTAAATCATTATTATAATGATTATTAT
1 ---TAAATCATTATTATAA-AATCATTAC
*
1119832 TAAATCGTTATTAT
1 TAAATCATTATTAT
1119846 CATTATTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
22 10 0.19
23 1 0.02
24 1 0.02
25 20 0.37
26 14 0.26
27 1 0.02
28 1 0.02
29 6 0.11
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (25 bp):
TAAATCATTATTATAAAATCATTAC
Found at i:1119829 original size:12 final size:12
Alignment explanation
Indices: 1119753--1119862 Score: 84
Period size: 11 Copynumber: 9.0 Consensus size: 12
1119743 ACATCATTAG
1119753 TATTA-AATCAT
1 TATTATAATCAT
1119764 TATTATAAAATCAT
1 TATTAT--AATCAT
*
1119778 TACTA-AATCAT
1 TATTATAATCAT
1119789 TATTA-AATCAT
1 TATTATAATCAT
*
1119800 TACTATTAAATCAT
1 TATTA-T-AATCAT
*
1119814 TATTATAATGAT
1 TATTATAATCAT
*
1119826 TATTATTAAATCGT
1 TATTA-T-AATCAT
* *
1119840 TATTATCATTAT
1 TATTATAATCAT
1119852 TATTA-AATCAT
1 TATTATAATCAT
1119863 GAAATATTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
11 29 0.37
12 18 0.23
13 3 0.04
14 29 0.37
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (12 bp):
TATTATAATCAT
Found at i:1119842 original size:23 final size:23
Alignment explanation
Indices: 1119816--1119860 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1119806 TAAATCATTA
*
1119816 TTATAATGATTATTATTAAATCG
1 TTATAATCATTATTATTAAATCG
*
1119839 TTATTATCATTATTATTAAATC
1 TTATAATCATTATTATTAAATC
1119861 ATGAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (23 bp):
TTATAATCATTATTATTAAATCG
Found at i:1119862 original size:14 final size:14
Alignment explanation
Indices: 1119737--1119845 Score: 99
Period size: 14 Copynumber: 8.4 Consensus size: 14
1119727 ATTAGTAATA
*
1119737 ATTATTACATCATT
1 ATTATTAAATCATT
*
1119751 AGTATTAAATCATT
1 ATTATTAAATCATT
*
1119765 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
1119776 ATTACTAAATC---
1 ATTATTAAATCATT
1119787 ATTATTAAATCATT
1 ATTATTAAATCATT
*
1119801 ACTATTAAATCATT
1 ATTATTAAATCATT
*
1119815 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
1119827 ATTATTAAATCGTT
1 ATTATTAAATCATT
1119841 ATTAT
1 ATTAT
1119846 CATTATTATT
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
11 16 0.21
12 14 0.18
13 6 0.08
14 41 0.53
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:1120041 original size:49 final size:49
Alignment explanation
Indices: 1119981--1120217 Score: 420
Period size: 49 Copynumber: 4.8 Consensus size: 49
1119971 ATTATTAATA
* *
1119981 ATTACTGATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
1120030 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATATCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1120079 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
1120128 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCCTT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
* *
1120177 ATTACTAATCATTACTATCAAATAATTAAATATTAATAATA
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATA
1120218 GATGAGTGCC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 181 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Done.