Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 54 of 208
Found at i:21017250 original size:20 final size:19
Alignment explanation
Indices: 21017214--21017252 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
21017204 ATTTGCCAGT
21017214 TTTAAAAATATATATTTTA
1 TTTAAAAATATATATTTTA
21017233 TTTATAAAAT-TATCATTTTA
1 TTTA-AAAATATAT-ATTTTA
21017253 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAAATATATATTTTA
Found at i:21018623 original size:34 final size:34
Alignment explanation
Indices: 21018584--21018662 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
21018574 TCATATATGG
*
21018584 ATGAGGAAATCCCCAGATGAGTTATTCACCTTGA
1 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
21018618 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
1 ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
21018652 ATGAGGAAATC
1 ATGAGGAAATC
21018663 AAATGGTCGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (34 bp):
ATGAGGAAATCCCAAGATGAGTTATTCACCTTGA
Found at i:21024640 original size:20 final size:20
Alignment explanation
Indices: 21024615--21024659 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
21024605 CATTATAACG
21024615 GATACCCTTCTTGACATATA
1 GATACCCTTCTTGACATATA
21024635 GATACCCTTCTTGACATATA
1 GATACCCTTCTTGACATATA
21024655 GATAC
1 GATAC
21024660 ATATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (20 bp):
GATACCCTTCTTGACATATA
Found at i:21029211 original size:9 final size:9
Alignment explanation
Indices: 21029194--21029251 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
21029184 GTAGTGATTC
*
21029194 AATTTGGTT
1 AATTCGGTT
21029203 AATTCGGTT
1 AATTCGGTT
*
21029212 AATTTGGTT
1 AATTCGGTT
*
21029221 AATTCGGGT
1 AATTCGGTT
21029230 AATTCGGTT
1 AATTCGGTT
21029239 AATTCGGTT
1 AATTCGGTT
21029248 AATT
1 AATT
21029252 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:21029217 original size:18 final size:18
Alignment explanation
Indices: 21029194--21029252 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
21029184 GTAGTGATTC
21029194 AATTTGGTTAATTCGGTT
1 AATTTGGTTAATTCGGTT
*
21029212 AATTTGGTTAATTCGGGT
1 AATTTGGTTAATTCGGTT
*
21029230 AATTCGGTTAATTCGGTT
1 AATTTGGTTAATTCGGTT
21029248 AATTT
1 AATTT
21029253 TTAACCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (18 bp):
AATTTGGTTAATTCGGTT
Found at i:21032794 original size:18 final size:17
Alignment explanation
Indices: 21032761--21032799 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21032751 TTGTATAAAT
21032761 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
21032779 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
21032796 TGTG
1 TGTG
21032800 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:21033044 original size:23 final size:23
Alignment explanation
Indices: 21033017--21033114 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
21033007 AGTGTTATTG
21033017 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21033040 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
21033063 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21033085 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21033108 ATCAGTG
1 ATCAGTG
21033115 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21033083 original size:45 final size:45
Alignment explanation
Indices: 21033019--21033107 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
21033009 TGTTATTGAT
* *
21033019 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
21033064 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
21033108 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:21055109 original size:47 final size:48
Alignment explanation
Indices: 21055057--21055161 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 48
21055047 AACTTATATG
*
21055057 TATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAAATA
1 TATATAAAATACATTAATGCATTTAT-AAAAAAAGGAAATATATAAATA
* * * *
21055104 TATATAAAATATATTCATGCATTTATAAAAAAATGAAATATATAAGTA
1 TATATAAAATACATTAATGCATTTATAAAAAAAGGAAATATATAAATA
21055152 TAATATAAAA
1 T-ATATAAAA
21055162 ACGTGGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 22 0.44
48 20 0.40
49 8 0.16
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (48 bp):
TATATAAAATACATTAATGCATTTATAAAAAAAGGAAATATATAAATA
Found at i:21055430 original size:3 final size:3
Alignment explanation
Indices: 21055422--21055461 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
21055412 ATATGTAGGT
*
21055422 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21055462 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21055445 original size:15 final size:12
Alignment explanation
Indices: 21055424--21055475 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
21055414 ATGTAGGTAT
21055424 AATAATAATATATA
1 AATAATAATA-A-A
21055438 ATATAATAATAAA
1 A-ATAATAATAAA
21055451 AATAATAATAACA
1 AATAATAATAA-A
*
21055464 AA-ATTAATAAA
1 AATAATAATAAA
21055475 A
1 A
21055476 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:21055720 original size:19 final size:21
Alignment explanation
Indices: 21055682--21055720 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21055672 CCTTTTTTAA
*
21055682 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
21055703 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
21055721 ACAGTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:21055921 original size:23 final size:22
Alignment explanation
Indices: 21055878--21055935 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
21055868 AAAGGGTATA
* *
21055878 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
21055899 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
21055922 TACATATCATATCT
1 TACAAATCATATCT
21055936 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21055938 original size:19 final size:19
Alignment explanation
Indices: 21055891--21055969 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
21055881 AAATTAAATC
*
21055891 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
21055911 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
21055933 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
21055954 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
21055970 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:21055951 original size:21 final size:21
Alignment explanation
Indices: 21055925--21055968 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21055915 CTAAGATTAC
21055925 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
21055946 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
21055967 AT
1 AT
21055969 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:21059947 original size:6 final size:6
Alignment explanation
Indices: 21059938--21059968 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
21059928 ATTAATAATA
21059938 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
21059969 AAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:21060094 original size:16 final size:17
Alignment explanation
Indices: 21060058--21060094 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
21060048 CAATTTTATT
21060058 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
21060075 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
21060090 TAATA
1 TAATA
21060095 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:21061495 original size:9 final size:9
Alignment explanation
Indices: 21061479--21061530 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
21061469 GGTATTTTTC
21061479 GGTAATTCG
1 GGTAATTCG
*
21061488 GTTAATTCG
1 GGTAATTCG
*
21061497 GTTAATTCG
1 GGTAATTCG
21061506 GGTAATTCG
1 GGTAATTCG
21061515 GGTAATTCG
1 GGTAATTCG
21061524 GGTAATT
1 GGTAATT
21061531 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:21061708 original size:12 final size:12
Alignment explanation
Indices: 21061691--21061715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21061681 AGTAATTTCG
21061691 GGTCGGTTAACC
1 GGTCGGTTAACC
21061703 GGTCGGTTAACC
1 GGTCGGTTAACC
21061715 G
1 G
21061716 AATAACACCC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:21063948 original size:20 final size:21
Alignment explanation
Indices: 21063923--21063965 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
21063913 AAAAACTTTT
21063923 GGGGAAAAAAAT-AGAATAAG
1 GGGGAAAAAAATCAGAATAAG
*
21063943 GGGGAAAAAAATCAGCATAAG
1 GGGGAAAAAAATCAGAATAAG
21063964 GG
1 GG
21063966 TGGTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.53, C:0.05, G:0.33, T:0.09
Consensus pattern (21 bp):
GGGGAAAAAAATCAGAATAAG
Found at i:21075227 original size:14 final size:14
Alignment explanation
Indices: 21075208--21075234 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21075198 ACAACAAAAC
21075208 CCGATTTTATTGAG
1 CCGATTTTATTGAG
21075222 CCGATTTTATTGA
1 CCGATTTTATTGA
21075235 TAAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (14 bp):
CCGATTTTATTGAG
Found at i:21079836 original size:11 final size:11
Alignment explanation
Indices: 21079817--21079860 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
21079807 AACACCGAAC
*
21079817 TTTTTGGGTAA
1 TTTTCGGGTAA
21079828 TTTTCGGGTAA
1 TTTTCGGGTAA
21079839 --TTCGGGTAA
1 TTTTCGGGTAA
*
21079848 TTTTAGGGTAA
1 TTTTCGGGTAA
21079859 TT
1 TT
21079861 CGGTTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.31
11 20 0.69
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:21079844 original size:9 final size:9
Alignment explanation
Indices: 21079830--21079913 Score: 89
Period size: 9 Copynumber: 9.2 Consensus size: 9
21079820 TTGGGTAATT
21079830 TTCGGGTAA
1 TTCGGGTAA
21079839 TTCGGGTAA
1 TTCGGGTAA
*
21079848 TTTTAGGGTAA
1 --TTCGGGTAA
*
21079859 TTCGGTTAA
1 TTCGGGTAA
*
21079868 TTCGGTTAA
1 TTCGGGTAA
*
21079877 TTCGGTTAA
1 TTCGGGTAA
*
21079886 -TCGTGTAA
1 TTCGGGTAA
21079894 TTCGGGTAA
1 TTCGGGTAA
*
21079903 TTCGGGGAA
1 TTCGGGTAA
21079912 TT
1 TT
21079914 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
8 6 0.09
9 51 0.78
11 8 0.12
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:21079847 original size:20 final size:20
Alignment explanation
Indices: 21079822--21079904 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
21079812 CGAACTTTTT
21079822 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
*
21079842 GGGTAATTTTAGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
* *
21079862 GGTTAA--TTCGGTTAATTC
1 GGGTAATTTTCGGGTAATTC
* *
21079880 GGTTAA---TCGTGTAATTC
1 GGGTAATTTTCGGGTAATTC
21079897 GGGTAATT
1 GGGTAATT
21079905 CGGGGAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
17 14 0.26
18 16 0.30
20 24 0.44
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:21083874 original size:19 final size:18
Alignment explanation
Indices: 21083847--21083893 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
21083837 AAAAAAACAT
*
21083847 TTTAATTTTCCTATTATTA
1 TTTAATTTTACTATT-TTA
*
21083866 TTTACTTTTACTATTTTA
1 TTTAATTTTACTATTTTA
*
21083884 TTTTATTTTA
1 TTTAATTTTA
21083894 TTTTCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTTTACTATTTTA
Found at i:21084373 original size:8 final size:8
Alignment explanation
Indices: 21084335--21084367 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
21084325 AAATCTTTTC
21084335 AACAAAAA
1 AACAAAAA
21084343 AACAAAAA
1 AACAAAAA
21084351 AACAAAAA
1 AACAAAAA
*
21084359 AATAAAAA
1 AACAAAAA
21084367 A
1 A
21084368 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (8 bp):
AACAAAAA
Found at i:21085501 original size:217 final size:214
Alignment explanation
Indices: 21085129--21085544 Score: 645
Period size: 217 Copynumber: 1.9 Consensus size: 214
21085119 AAAATTCAAG
* *
21085129 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
* *
21085194 TTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAAAGGATATTTAACTATTTGGTTGAA
66 TTTCAAAACACAAAACATTGCATTACTTTAAAATTTTTAAAAGGATATTTAACGATTTGGTTGAA
*
21085259 CAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACAGTGC
131 CAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACAGTGC
21085324 CTTATTTAAAATTTTTAAA
196 CTTATTTAAAATTTTTAAA
* *
21085343 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGGGCACG-TTCCTC
* * * *
21085408 GAATTTTC-AAACGCAAAACATTGCATTATTTTGAAATTTTTAAAAGGATATTTAGCGATTTGGT
63 GAA-TTTCAAAACACAAAACATTGCATTACTTTAAAATTTTTAAAAGGATATTTAACGATTTGGT
* * * *
21085472 TGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTCGAATTTCTAAACGCAAAATA
127 TGAACAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACA
*
21085537 TTGCCTTA
192 GTGCCTTA
21085545 CTTCGATTTT
Statistics
Matches: 182, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
214 26 0.14
216 27 0.15
217 125 0.69
218 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (214 bp):
AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTCCTCGAA
TTTCAAAACACAAAACATTGCATTACTTTAAAATTTTTAAAAGGATATTTAACGATTTGGTTGAA
CAAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTCCTCGAATTTCCAAACGCAAAACAGTGC
CTTATTTAAAATTTTTAAA
Found at i:21085557 original size:109 final size:109
Alignment explanation
Indices: 21085129--21085547 Score: 641
Period size: 109 Copynumber: 3.9 Consensus size: 109
21085119 AAAATTCAAG
* *
21085129 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* *
21085191 GAATTTCAAAACACAAAACATTGCCTTACTTTAAAATTTTTAAA
66 GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
* *
21085235 AGGATATTTAACTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* *
21085300 GAATTTCCAAACGCAAAACAGTGCCTTA-TTTAAAATTTTTAAA
66 GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
* *
21085343 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
* * *
21085408 GAATTT-TCAAACGCAAAACATTGCATTATTTTGAAATTTTTAAA
66 GAATTTCT-AAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
* * *
21085452 AGGATATTTAGCGATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
*
21085517 GAATTTCTAAACGCAAAATATTGCCTTACTT
66 GAATTTCTAAACGCAAAACATTGCCTTACTT
21085548 CGATTTTTTT
Statistics
Matches: 286, Mismatches: 21, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
106 24 0.08
108 128 0.45
109 133 0.47
110 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (109 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTC
GAATTTCTAAACGCAAAACATTGCCTTACTTTAAAATTTTTAAA
Found at i:21085624 original size:15 final size:15
Alignment explanation
Indices: 21085600--21085630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21085590 AATAAATATG
*
21085600 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
21085615 ATAATATGAACAAAA
1 ATAATATGAACAAAA
21085630 A
1 A
21085631 CGAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:21106635 original size:19 final size:19
Alignment explanation
Indices: 21106598--21106635 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21106588 TTTTAGTTTT
*
21106598 AATTAATCTTAATTTACTA
1 AATTAATCTTAATTCACTA
21106617 AATTAATCTATAA-TCACTA
1 AATTAATCT-TAATTCACTA
21106636 TTATGGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAATCTTAATTCACTA
Found at i:21130661 original size:36 final size:35
Alignment explanation
Indices: 21130576--21130663 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
21130566 TAAAAATCAT
*
21130576 TAAAAATTAGAAAAAAATAAAAATGTAAACATTTTA
1 TAAAAATTA-TAAAAAATAAAAATGTAAACATTTTA
* * *
21130612 TAAAAATCATAAAATATAAAATTGTAAA-ATTTTA
1 TAAAAATTATAAAAAATAAAAATGTAAACATTTTA
21130646 TAAGAAAATTATAAAAAA
1 T-A-AAAATTATAAAAAA
21130664 ACGTAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
34 7 0.16
35 17 0.39
36 20 0.45
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (35 bp):
TAAAAATTATAAAAAATAAAAATGTAAACATTTTA
Found at i:21130901 original size:11 final size:11
Alignment explanation
Indices: 21130887--21130919 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
21130877 GATGCATTTT
21130887 ATAATTTTATA
1 ATAATTTTATA
21130898 ATAATTTTTATA
1 ATAA-TTTTATA
21130910 A-AATTTTATA
1 ATAATTTTATA
21130920 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATAATTTTATA
Found at i:21130994 original size:28 final size:29
Alignment explanation
Indices: 21130898--21130997 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 29
21130888 TAATTTTATA
*
21130898 ATAATTTTTA-TAAAATTTTATATATTTTTTTT
1 ATAATTTTTATTAAAA-TTTA-A-A-TATTTTT
* *
21130930 CTAATTTTTAATAAAATTTAAATATTTTT
1 ATAATTTTTATTAAAATTTAAATATTTTT
21130959 AT-ATTTTTATTAAAATTT-AATATTTTT
1 ATAATTTTTATTAAAATTTAAATATTTTT
*
21130986 ATAACTTTTATT
1 ATAATTTTTATT
21130998 GATTTTTTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.18
28 23 0.38
29 7 0.11
30 1 0.02
31 1 0.02
32 13 0.21
33 5 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
ATAATTTTTATTAAAATTTAAATATTTTT
Found at i:21130995 original size:18 final size:19
Alignment explanation
Indices: 21130883--21131021 Score: 54
Period size: 19 Copynumber: 7.2 Consensus size: 19
21130873 TTTTGATGCA
*
21130883 TTTTATAATTTTATAATAAT
1 TTTTATAACTTT-TAATAAT
* *
21130903 TTTTATAAAATTTTATATATTTT
1 TTTTAT-AACTTTTA-ATA--AT
* * *
21130926 TTTTCTAATTTTTAATAAA
1 TTTTATAACTTTTAATAAT
* * *
21130945 ATTTA-AATATTTTTAT-AT
1 TTTTATAA-CTTTTAATAAT
**
21130963 TTTTATTAAAATTTAAT-AT
1 TTTTA-TAACTTTTAATAAT
* *
21130982 TTTTATAACTTTTATTGAT
1 TTTTATAACTTTTAATAAT
*
21131001 TTTT-T-ACTTTTTATAAT
1 TTTTATAACTTTTAATAAT
21131018 TTTT
1 TTTT
21131022 TTTCCATATG
Statistics
Matches: 91, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
17 13 0.14
18 16 0.18
19 28 0.31
20 10 0.11
21 11 0.12
22 7 0.08
23 6 0.07
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAACTTTTAATAAT
Found at i:21144000 original size:24 final size:24
Alignment explanation
Indices: 21143973--21144019 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21143963 ATTGAAATGG
21143973 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
21143997 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
21144020 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:21146756 original size:46 final size:45
Alignment explanation
Indices: 21146689--21147050 Score: 386
Period size: 46 Copynumber: 8.6 Consensus size: 45
21146679 TTTGAGTACT
* *
21146689 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21146735 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21146771 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
21146817 TCTGATCAAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
21146853 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21146889 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
21146935 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
21146981 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
21147026 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
21147051 ATCATACGTA
Statistics
Matches: 278, Mismatches: 15, Indels: 49
0.81 0.04 0.14
Matches are distributed among these distances:
34 1 0.00
36 90 0.32
37 2 0.01
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 4 0.01
43 13 0.05
44 4 0.01
45 23 0.08
46 133 0.48
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:21146766 original size:36 final size:36
Alignment explanation
Indices: 21146725--21146915 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
21146715 GGTAGCTTTA
21146725 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21146761 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
21146806 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21146843 GATATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
21146879 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
21146915 G
1 G
21146916 TTAGCCTTAG
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 99 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:21146826 original size:82 final size:82
Alignment explanation
Indices: 21146689--21147007 Score: 388
Period size: 82 Copynumber: 3.9 Consensus size: 82
21146679 TTTGAGTACT
*
21146689 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
21146754 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
21146771 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
21146836 GATAAGTGATATACTTA
66 GATAAGTGCTACACTTA
* *
21146853 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
21146908 GATAAGTGTTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * * *
21146935 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
21147000 GATAAGTG
66 GATAAGTG
21147008 GTAGCCTAGC
Statistics
Matches: 208, Mismatches: 9, Indels: 40
0.81 0.04 0.16
Matches are distributed among these distances:
72 26 0.12
73 1 0.00
74 1 0.00
76 2 0.01
78 4 0.02
79 2 0.01
81 1 0.00
82 133 0.64
83 1 0.00
85 2 0.01
86 4 0.02
88 2 0.01
90 1 0.00
91 1 0.00
92 27 0.13
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:21146938 original size:118 final size:118
Alignment explanation
Indices: 21146730--21146961 Score: 419
Period size: 118 Copynumber: 2.0 Consensus size: 118
21146720 CTTTAGCTAC
21146730 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
*
21146795 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
66 GTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
* *
21146848 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
* *
21146913 GTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTG
66 GTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
21146962 GTAGCCTTAG
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (118 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
GTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
Found at i:21154255 original size:17 final size:17
Alignment explanation
Indices: 21154213--21154255 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
21154203 TAATTAACTT
21154213 AACTAAATTAATTTCTC
1 AACTAAATTAATTTCTC
*
21154230 AATTAAATT-ATTATCTC
1 AACTAAATTAATT-TCTC
*
21154247 AACTCAATT
1 AACTAAATT
21154256 TTAATTCCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (17 bp):
AACTAAATTAATTTCTC
Found at i:21155671 original size:29 final size:30
Alignment explanation
Indices: 21155630--21155696 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
21155620 GCTCTTTCAT
*
21155630 GGACACATGGCACATGCATTAA-TTC-ATAG
1 GGACATATGGCACATGCATTAATTTCGA-AG
* *
21155659 GGACATATTGCACATGCCTTAATTTCGAAG
1 GGACATATGGCACATGCATTAATTTCGAAG
21155689 GGACATAT
1 GGACATAT
21155697 CTATTCATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 19 0.58
30 13 0.39
31 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (30 bp):
GGACATATGGCACATGCATTAATTTCGAAG
Found at i:21159173 original size:37 final size:40
Alignment explanation
Indices: 21159087--21159216 Score: 131
Period size: 37 Copynumber: 3.3 Consensus size: 40
21159077 TTTGGCACCT
* * *
21159087 AGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACCC
1 AGTGCCTCATCGGATAAATCGAAGTAATAATTTGAAACCC
* * *
21159127 AATGTCTCATCGGCTAAATCGAAGT-A-AA-TTGAAACCC
1 AGTGCCTCATCGGATAAATCGAAGTAATAATTTGAAACCC
* * * *
21159164 AGTGCCTCATCGAATATATCTAAAGTAATAATTTGACACCC
1 AGTGCCTCATCGGATAAATC-GAAGTAATAATTTGAAACCC
*
21159205 AGTGTCTCATCG
1 AGTGCCTCATCG
21159217 ACTCGAAGTC
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
37 23 0.32
38 6 0.08
39 2 0.03
40 22 0.31
41 19 0.26
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (40 bp):
AGTGCCTCATCGGATAAATCGAAGTAATAATTTGAAACCC
Found at i:21159207 original size:41 final size:40
Alignment explanation
Indices: 21159077--21159217 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 40
21159067 AGCATACCAG
* * * * *
21159077 TTTGGCACCTAGTGCCTCATC-AGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGA-ATAAATCAAAGTAATAA
* ** *
21159117 TTTGACACCCAATGTCTCATCGGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATCGAATAAATCAAAGTAATAA
* * *
21159155 -TTGAAACCCAGTGCCTCATCGAATATATCTAAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGAATAAATC-AAAGTAATAA
21159195 TTTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAGTGTCTCATCGA
21159218 CTCGAAGTCG
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 23 0.29
38 6 0.08
39 2 0.03
40 29 0.36
41 20 0.25
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGAATAAATCAAAGTAATAA
Found at i:21159362 original size:11 final size:11
Alignment explanation
Indices: 21159346--21159370 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21159336 TTCAATTCAA
21159346 ATAATCAATAT
1 ATAATCAATAT
21159357 ATAATCAATAT
1 ATAATCAATAT
21159368 ATA
1 ATA
21159371 TACCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:21159556 original size:9 final size:9
Alignment explanation
Indices: 21159542--21159599 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
21159532 TTTGGTTAAA
*
21159542 AATTAACTG
1 AATTAACCG
21159551 AATTAACCG
1 AATTAACCG
* *
21159560 AGTTACCCG
1 AATTAACCG
*
21159569 AATTAACTG
1 AATTAACCG
*
21159578 AATTACCCG
1 AATTAACCG
21159587 AATTAACCG
1 AATTAACCG
21159596 AATT
1 AATT
21159600 GAATCACTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:21159573 original size:18 final size:18
Alignment explanation
Indices: 21159550--21159599 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
21159540 AAAATTAACT
*
21159550 GAATTAACCGAGTTACCC
1 GAATTAACCGAATTACCC
*
21159568 GAATTAACTGAATTACCC
1 GAATTAACCGAATTACCC
21159586 GAATTAACCGAATT
1 GAATTAACCGAATT
21159600 GAATCACTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTACCC
Found at i:21159575 original size:27 final size:27
Alignment explanation
Indices: 21159542--21159599 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
21159532 TTTGGTTAAA
* *
21159542 AATTAACTGAATTAACCGAGTTACCCG
1 AATTAACTGAATTAACCGAATTAACCG
*
21159569 AATTAACTGAATTACCCGAATTAACCG
1 AATTAACTGAATTAACCGAATTAACCG
21159596 AATT
1 AATT
21159600 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
AATTAACTGAATTAACCGAATTAACCG
Found at i:21159779 original size:12 final size:12
Alignment explanation
Indices: 21159762--21159791 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21159752 TATATTATTT
*
21159762 TTATTTTTTAAA
1 TTATTTATTAAA
21159774 TTATTTATTAAA
1 TTATTTATTAAA
21159786 TTATTT
1 TTATTT
21159792 GTAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTATTAAA
Found at i:21159830 original size:18 final size:18
Alignment explanation
Indices: 21159804--21159847 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21159794 AATTTTTATG
* *
21159804 ATTGAGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
21159822 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
21159840 CTTGGGTT
1 ATTGGGTT
21159848 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:21160881 original size:12 final size:12
Alignment explanation
Indices: 21160864--21160931 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
21160854 TTATTCTTAT
*
21160864 TATATATTATAA
1 TATATATAATAA
21160876 TATATATAAT-A
1 TATATATAATAA
21160887 TATATACT--TAA
1 TATATA-TAATAA
* *
21160898 -ACAT-TAAGAA
1 TATATATAATAA
21160908 TATATATAATAA
1 TATATATAATAA
21160920 TATATATAATAA
1 TATATATAATAA
21160932 ACTTATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 1 0.02
10 6 0.13
11 11 0.24
12 27 0.60
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (12 bp):
TATATATAATAA
Found at i:21170589 original size:17 final size:17
Alignment explanation
Indices: 21170567--21170600 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21170557 ATCCACTAAT
*
21170567 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
21170584 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
21170601 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:21175229 original size:17 final size:17
Alignment explanation
Indices: 21175207--21175240 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21175197 ATCCACTAAT
*
21175207 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
21175224 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
21175241 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:21180431 original size:14 final size:14
Alignment explanation
Indices: 21180412--21180441 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21180402 AATTGCCTGC
*
21180412 AAATTCCAAATTCT
1 AAATTCCAAAATCT
21180426 AAATTCCAAAATCT
1 AAATTCCAAAATCT
21180440 AA
1 AA
21180442 TATTATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTCCAAAATCT
Found at i:21186853 original size:17 final size:17
Alignment explanation
Indices: 21186831--21186865 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21186821 GATTTACAAG
*
21186831 GCTTTGATCTGAAAATA
1 GCTTTGATCTCAAAATA
21186848 GCTTTGATCTCAAAATA
1 GCTTTGATCTCAAAATA
21186865 G
1 G
21186866 AGGCCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (17 bp):
GCTTTGATCTCAAAATA
Found at i:21190960 original size:17 final size:17
Alignment explanation
Indices: 21190938--21190971 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21190928 ATCCACTAAT
*
21190938 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
21190955 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
21190972 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:21195599 original size:17 final size:17
Alignment explanation
Indices: 21195577--21195610 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21195567 ATCCACTAAT
*
21195577 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
21195594 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
21195611 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:21198226 original size:2 final size:2
Alignment explanation
Indices: 21198219--21198244 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21198209 TATTGCTCAT
21198219 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
21198245 ATCCTGTGCA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21203419 original size:18 final size:20
Alignment explanation
Indices: 21203386--21203432 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 20
21203376 AAAACGAAAG
21203386 AAAGAAGAATGAAGGAAGCA
1 AAAGAAGAATGAAGGAAGCA
*
21203406 AAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAATGAAGGAAGCA
21203424 AAAGAAGAA
1 AAAGAAGAA
21203433 AAAAGTAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 15 0.60
19 4 0.16
20 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (20 bp):
AAAGAAGAATGAAGGAAGCA
Found at i:21203435 original size:22 final size:22
Alignment explanation
Indices: 21203382--21203435 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
21203372 TACAAAAACG
*
21203382 AAAGAAAGAAGAATGAAGGAAGCA
1 AAAGAAA-AAGAAGGAAGGAA-CA
21203406 AAAG-AAAAGAAGGAAGGAA-A
1 AAAGAAAAAGAAGGAAGGAACA
21203426 AGAAGAAAAA
1 A-AAGAAAAA
21203436 AGTAGGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 16 0.59
23 2 0.07
24 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (22 bp):
AAAGAAAAAGAAGGAAGGAACA
Found at i:21204994 original size:21 final size:21
Alignment explanation
Indices: 21204968--21205011 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21204958 AAATGCCATC
21204968 GATGAACTTGATCCGAGAGGA
1 GATGAACTTGATCCGAGAGGA
21204989 GATGAACTTGATCCGAGAGGA
1 GATGAACTTGATCCGAGAGGA
21205010 GA
1 GA
21205012 GGAGTACGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (21 bp):
GATGAACTTGATCCGAGAGGA
Found at i:21205145 original size:6 final size:6
Alignment explanation
Indices: 21205127--21205176 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
21205117 AGAATGTGGT
* * * *
21205127 TCTGGG TCTGGC TCCGGC TCTGGC GCTGGC TCTGGG TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
21205175 TC
1 TC
21205177 CGGTGCATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.32, G:0.38, T:0.30
Consensus pattern (6 bp):
TCTGGC
Found at i:21206915 original size:38 final size:38
Alignment explanation
Indices: 21206872--21206953 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
21206862 AAAAAGTCAG
21206872 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
* *
21206910 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
21206948 TTATAA
1 TTATAA
21206954 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
Found at i:21207187 original size:97 final size:94
Alignment explanation
Indices: 21207162--21207474 Score: 482
Period size: 97 Copynumber: 3.2 Consensus size: 94
21207152 GCCACATTAC
21207162 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
1 AATATTCATACAAAATTACAAAATT--AATATTCATA-AAAAAAATTACAATATTCATACAAAAT
*
21207227 TATAATATTACAATATTCATACAAAAAAATAT
63 TACAATATTACAATATTCATACAAAAAAATAT
* *
21207259 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATAAAAAAT
1 AATATTCATACAAAATTACAAAATT--AATATTCATA-AAAAAAATTACAATATTCATACAAAAT
*
21207324 TATAATATTACAATATTCATACAAAAAAATAT
63 TACAATATTACAATATTCATACAAAAAAATAT
*
21207356 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC
1 AATATTCATACAAAATTACAAAATT--AATATTCATA-AAAAAAATTACAATATTCATACAAAAT
*
21207421 TACAATATTACAATATTCATACAAAAAATTTAT
63 TACAATATTACAATATTCATACAAAAAA-ATAT
21207454 AATATTCATACAAAATTACAA
1 AATATTCATACAAAATTACAA
21207475 TATTCATACA
Statistics
Matches: 208, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
97 184 0.88
98 24 0.12
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (94 bp):
AATATTCATACAAAATTACAAAATTAATATTCATAAAAAAAATTACAATATTCATACAAAATTAC
AATATTACAATATTCATACAAAAAAATAT
Found at i:21207193 original size:27 final size:27
Alignment explanation
Indices: 21207101--21207474 Score: 305
Period size: 27 Copynumber: 15.0 Consensus size: 27
21207091 ATTATAAAAT
21207101 AATTACAATATTCATACAAAAAATTACAA
1 AATTACAATATTCATAC--AAAATTACAA
* * ** *
21207130 TATTACAATA-T--TACAATCTATCGCCA
1 AATTACAATATTCATACAA--AATTACAA
*
21207156 CATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
21207183 AATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
*
21207205 AATTACAATATTCATACAAAATTATAA
1 AATTACAATATTCATACAAAATTACAA
*
21207232 TATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
*
21207254 AA-TATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
21207280 AATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
* * *
21207302 AATTGCAATATTCATAAAAAATTATAA
1 AATTACAATATTCATACAAAATTACAA
*
21207329 TATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
*
21207351 AA-TATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
21207377 AATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
*
21207399 AATTACAATATTCATACAAAACTACAA
1 AATTACAATATTCATACAAAATTACAA
*
21207426 TATTACAATATTCATAC--AA--A-AA
1 AATTACAATATTCATACAAAATTACAA
* *
21207448 ATTTATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
21207475 TATTCATACA
Statistics
Matches: 281, Mismatches: 27, Indels: 76
0.73 0.07 0.20
Matches are distributed among these distances:
21 26 0.09
22 77 0.27
23 10 0.04
24 10 0.04
25 14 0.05
26 28 0.10
27 101 0.36
28 1 0.00
29 14 0.05
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (27 bp):
AATTACAATATTCATACAAAATTACAA
Found at i:21207322 original size:20 final size:21
Alignment explanation
Indices: 21207181--21207225 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
21207171 ACAAAATTAC
21207181 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATA-AAA
*
21207203 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATAAAA
21207224 AA
1 AA
21207226 TTATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATTACAATATTCATAAAA
Found at i:21207337 original size:146 final size:146
Alignment explanation
Indices: 21207157--21207478 Score: 520
Period size: 146 Copynumber: 2.2 Consensus size: 146
21207147 CTATCGCCAC
*
21207157 ATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATAC
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAA-TACAATATTCATAC
* * * *
21207222 AAAATTATAATATTACAATATTCATACAAAAAAA-TATAATATTCATACAAAATTACAAAATTAC
65 AAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAAAATTAC
21207286 AATATTCATACAAAAAA
130 AATATTCATACAAAAAA
* * * *
21207303 ATTGCAATATTCATAAAAAATTATAATATTACAATATTCATACAAAAAAATATAATATTCATACA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATACAATATTCATACA
*
21207368 AAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAATATTACA
66 AAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAAAATTACA
21207433 ATATTCATACAAAAAA
131 ATATTCATACAAAAAA
* *
21207449 TTTATAATATTCATACAAAATTACAATATT
1 ATTACAATATTCATACAAAATTACAATATT
21207479 CATACAAAAA
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
145 45 0.28
146 115 0.72
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (146 bp):
ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATACAATATTCATACA
AAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAAAATTACA
ATATTCATACAAAAAA
Found at i:21207475 original size:49 final size:49
Alignment explanation
Indices: 21207157--21207478 Score: 522
Period size: 49 Copynumber: 6.6 Consensus size: 49
21207147 CTATCGCCAC
*
21207157 ATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
*
21207206 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* *
21207255 A-TATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* * *
21207303 ATTGCAATATTCATAAAAAATTATAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* *
21207352 A-TATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
*
21207400 ATTACAATATTCATACAAAACTACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* *
21207449 TTTATAATATTCATACAAAATTACAATATT
1 ATTACAATATTCATACAAAATTACAATATT
21207479 CATACAAAAA
Statistics
Matches: 250, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
48 88 0.35
49 162 0.65
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (49 bp):
ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
Found at i:21207599 original size:21 final size:20
Alignment explanation
Indices: 21207375--21207610 Score: 124
Period size: 20 Copynumber: 11.2 Consensus size: 20
21207365 ACAAAATTAC
*
21207375 AAAATTACAATATTCATACAAA
1 AAAATTAAAATATTCATAC--A
*
21207397 AAAATTACAATATTCATACAAAA
1 AAAATTAAAATATTCATAC---A
*
21207420 CTACAATATTACAATATTCATACAA
1 --A-AA-ATTAAAATATTCATAC-A
*
21207445 AAAATTTATAATATTCATAC-
1 AAAA-TTAAAATATTCATACA
*
21207465 AAAATTACAATATTCATACA
1 AAAATTAAAATATTCATACA
** * *
21207485 AAAATTACTA-ATCCAAAACTA
1 AAAATTAAAATATTC-ATAC-A
*
21207506 TAAA-TACAAATTTAATT-ATA-A
1 AAAATTA-AAA--T-ATTCATACA
*
21207527 AATAATTACAATATTCATAC-
1 AA-AATTAAAATATTCATACA
* * *
21207547 AACATTACAATATTCATAAA
1 AAAATTAAAATATTCATACA
*
21207567 AAAATTATAATATTCATACA
1 AAAATTAAAATATTCATACA
21207587 AAAATTTAAAATATTCATACA
1 AAAA-TTAAAATATTCATACA
21207608 AAA
1 AAA
21207611 TTCTAATCTA
Statistics
Matches: 176, Mismatches: 18, Indels: 41
0.75 0.08 0.17
Matches are distributed among these distances:
19 35 0.20
20 45 0.26
21 26 0.15
22 39 0.22
23 8 0.05
25 5 0.03
26 2 0.01
27 16 0.09
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAAAATATTCATACA
Found at i:21207611 original size:82 final size:84
Alignment explanation
Indices: 21207372--21207611 Score: 226
Period size: 82 Copynumber: 2.8 Consensus size: 84
21207362 CATACAAAAT
* *
21207372 TACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAACTACAATATTACAATAT
1 TACAAAATTACAATATTCAT--AAAAAAATTATAATATTCATAC-AAA--A-AAT-TTAAAATAT
*
21207437 TCATACAAAA-AATTTATAATATTCA
59 TCATACAAAATAATTTACAATATTCA
* * * * * *
21207462 TACAAAATTACAATATTCATACAAAAATTACT-A-ATCCAAAACTATAAA--TACAAAT-TTAAT
1 TACAAAATTACAATATTCATAAAAAAATTA-TAATATTC-ATACAAAAAATTTA-AAATATTCA-
*
21207522 TATAAAATAA-TTACAATATTCA
62 TACAAAATAATTTACAATATTCA
*
21207544 TACAACATTACAATATTCATAAAAAAATTATAATATTCATAC-AAAAATTTAAAATATTCATACA
1 TACAAAATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAATTTAAAATATTCATACA
21207608 AAAT
66 AAAT
21207612 TCTAATCTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
81 10 0.08
82 63 0.51
83 10 0.08
84 2 0.02
85 1 0.01
87 4 0.03
88 13 0.11
90 20 0.16
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (84 bp):
TACAAAATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAATTTAAAATATTCATACA
AAATAATTTACAATATTCA
Found at i:21207998 original size:13 final size:13
Alignment explanation
Indices: 21207980--21208005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21207970 CACCCGACCC
21207980 GACCCGTATTTTT
1 GACCCGTATTTTT
21207993 GACCCGTATTTTT
1 GACCCGTATTTTT
21208006 TAAAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GACCCGTATTTTT
Found at i:21208021 original size:13 final size:13
Alignment explanation
Indices: 21208005--21208030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21207995 CCCGTATTTT
21208005 TTAAAAAAATATA
1 TTAAAAAAATATA
21208018 TTAAAAAAATATA
1 TTAAAAAAATATA
21208031 AAATTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAAAATATA
Found at i:21210074 original size:6 final size:6
Alignment explanation
Indices: 21210063--21210087 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21210053 ATTACCGATA
21210063 ATGAAG ATGAAG ATGAAG ATGAAG A
1 ATGAAG ATGAAG ATGAAG ATGAAG A
21210088 AAAAGACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
ATGAAG
Found at i:21210521 original size:53 final size:54
Alignment explanation
Indices: 21210440--21210552 Score: 219
Period size: 53 Copynumber: 2.1 Consensus size: 54
21210430 AGTTTACTTA
21210440 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
1 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
21210494 ATTAT-TTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
1 ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
21210547 ATTATG
1 ATTATG
21210553 ATGGTATGAT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
53 53 0.91
54 5 0.09
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (54 bp):
ATTATGTTATTCTTGTGTTGAAGTGAAAACTCCTTAAATTAGTATTTTCTATTC
Found at i:21212668 original size:15 final size:15
Alignment explanation
Indices: 21212648--21212677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21212638 GAAGTCTATC
21212648 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
21212663 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
21212678 TTCGGTTTAT
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:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
ACACTATCGGCTGTT
Found at i:21212798 original size:144 final size:144
Alignment explanation
Indices: 21212538--21212827 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 144
21212528 ATGATTAAAT
21212538 GTTTATTTGCTTATGACTTACTAAGCTTTGATAGCTTACTGTGTGTTTGTTTTCCGTTTTATAAA
1 GTTTATTTGCTTATGACTTACTAAGCTTTGATAGCTTACTGTGTGTTTGTTTTCCGTTTTATAAA
21212603 ATTGGAAGTTGGTTACAAGCTTGGGGATCGTCAGAGAAGTCTATCACACTATCGGCTGTTACACT
66 ATTGGAAGTTGGTTACAAGCTTGGGGATCGTCAGAGAAGTCTATCACACTATCGGCTGTTACACT
21212668 ATCGGCTGTTTTCG
131 ATCGGCTGTTTTCG
*
21212682 GTTTATTTGCTTATGACTTACTAAGCTTTGATAGCTTACTGTGTGTTTGTTTTTCGTTTTATAAA
1 GTTTATTTGCTTATGACTTACTAAGCTTTGATAGCTTACTGTGTGTTTGTTTTCCGTTTTATAAA
21212747 ATTGGAAGTTGGTTACAAGCTTGGGGATCGTCAGAGAAGTCTATCACACTATCGGCTGTTACACT
66 ATTGGAAGTTGGTTACAAGCTTGGGGATCGTCAGAGAAGTCTATCACACTATCGGCTGTTACACT
21212812 ATCGGCTGTTTTCG
131 ATCGGCTGTTTTCG
21212826 GT
1 GT
21212828 ATTTTACTAA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (144 bp):
GTTTATTTGCTTATGACTTACTAAGCTTTGATAGCTTACTGTGTGTTTGTTTTCCGTTTTATAAA
ATTGGAAGTTGGTTACAAGCTTGGGGATCGTCAGAGAAGTCTATCACACTATCGGCTGTTACACT
ATCGGCTGTTTTCG
Found at i:21212812 original size:15 final size:15
Alignment explanation
Indices: 21212792--21212821 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21212782 GAAGTCTATC
21212792 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
21212807 ACACTATCGGCTGTT
1 ACACTATCGGCTGTT
21212822 TTCGGTATTT
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:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
ACACTATCGGCTGTT
Found at i:21215204 original size:34 final size:35
Alignment explanation
Indices: 21215160--21215226 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21215150 CAGTAAAATA
*
21215160 TTTTCCGTAAAATGATTT-TTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
21215194 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
21215227 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:21215291 original size:32 final size:32
Alignment explanation
Indices: 21215216--21215294 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
21215206 TGATTTACTG
* ** *
21215216 GAAAATATTTTCTGGTGTTTGATTGAATCTGT
1 GAAAATATTTTCTGCTGTTTGACAGAATCTCT
*
21215248 GTAAAATATTTTCTGCTGTTTGACAGATTCTCT
1 G-AAAATATTTTCTGCTGTTTGACAGAATCTCT
21215281 GAAAATATTTTCTG
1 GAAAATATTTTCTG
21215295 AAAAAGTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 14 0.34
33 27 0.66
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.46
Consensus pattern (32 bp):
GAAAATATTTTCTGCTGTTTGACAGAATCTCT
Found at i:21215329 original size:20 final size:20
Alignment explanation
Indices: 21215304--21215355 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
21215294 GAAAAAGTTG
21215304 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
21215324 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
21215342 TTTTTACATATATT
1 TTTTTACATATATT
21215356 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:21216696 original size:14 final size:14
Alignment explanation
Indices: 21216677--21216703 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21216667 TATTCTTCTT
21216677 TGATCCAACTATGG
1 TGATCCAACTATGG
21216691 TGATCCAACTATG
1 TGATCCAACTATG
21216704 CTAGGCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (14 bp):
TGATCCAACTATGG
Found at i:21217233 original size:31 final size:31
Alignment explanation
Indices: 21217195--21217255 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21217185 GGCCCATTTT
21217195 TATTTT-AAAA-ATTTTAAAATTTTAAAAAAAG
1 TATTTTAAAAATATTTTAAAA--TTAAAAAAAG
21217226 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
21217256 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 15 0.54
32 4 0.14
33 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:21217276 original size:40 final size:40
Alignment explanation
Indices: 21217216--21217296 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
21217206 TTTTAAAATT
* *
21217216 TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA
21217256 TTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA
21217296 T
1 T
21217297 AAATATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (40 bp):
TTAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAA
Found at i:21217621 original size:11 final size:11
Alignment explanation
Indices: 21217605--21217629 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21217595 AATTCTTTAT
21217605 ATAAATACCAA
1 ATAAATACCAA
21217616 ATAAATACCAA
1 ATAAATACCAA
21217627 ATA
1 ATA
21217630 GATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAATACCAA
Found at i:21220397 original size:46 final size:46
Alignment explanation
Indices: 21220345--21220437 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
21220335 TGTTAGTTTC
21220345 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
1 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
21220391 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
1 GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
21220437 G
1 G
21220438 AAGATGCTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (46 bp):
GGTTCTCTCTATATGACCCTCAGTAGGCTTTTTTTTCATTGGAGAT
Found at i:21221136 original size:4 final size:4
Alignment explanation
Indices: 21221127--21221165 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
21221117 TTCTTCTAGT
21221127 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
21221166 ACCTGAATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:21221472 original size:2 final size:2
Alignment explanation
Indices: 21221465--21221501 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21221455 CTGTCTTTTC
21221465 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
21221502 TCAAATGGAT
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21230116 original size:22 final size:22
Alignment explanation
Indices: 21230091--21230154 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
21230081 GGATTGATTA
*
21230091 GGATATTCTATAGGATTTTATG
1 GGATATTATATAGGATTTTATG
* *
21230113 GGATATTTTAT-GAGATTTTAAG
1 GGATATTATATAG-GATTTTATG
*
21230135 GGAT-TGAT-TAGGATTTTATG
1 GGATATTATATAGGATTTTATG
21230155 AGATGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 9 0.26
21 4 0.11
22 22 0.63
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (22 bp):
GGATATTATATAGGATTTTATG
Found at i:21231353 original size:39 final size:39
Alignment explanation
Indices: 21231325--21231471 Score: 138
Period size: 39 Copynumber: 3.8 Consensus size: 39
21231315 CCATGACAAG
*
21231325 GGCTGGATCTCGTCATATTA-CCCTAGAATCTGCAATAA
1 GGCTAGATCTCGTCATATTACCCCTAGAATCTGCAATAA
* * *
21231363 GGCTAGATCTCGTTATATTACCCCTAGAATTTGCAACAA
1 GGCTAGATCTCGTCATATTACCCCTAGAATCTGCAATAA
* * * * * * *
21231402 GGCTAGATTTTGTTATATT-GCTCGAGAATCGGCAATAAA
1 GGCTAGATCTCGTCATATTACCCCTAGAATCTGCAAT-AA
* * *
21231441 TGCTAGATCTCATTATATTA-CCCTAGAATCT
1 GGCTAGATCTCGTCATATTACCCCTAGAATCT
21231472 ATAATAGATT
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
38 29 0.33
39 58 0.67
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (39 bp):
GGCTAGATCTCGTCATATTACCCCTAGAATCTGCAATAA
Found at i:21231487 original size:78 final size:77
Alignment explanation
Indices: 21231320--21231496 Score: 176
Period size: 77 Copynumber: 2.3 Consensus size: 77
21231310 AGAATCCATG
* * * * * * *
21231320 ACAAGGGCTGGATCTCGTCATATTACCCTAGAATCTGCAATAAGGCTAGATCTCGTTATATTACC
1 ACAA-GGCTAGATCTCGTTATATTGCTCGAGAATCGGCAATAAGGCTAGATCTCATTATATTACC
* *
21231385 CCTAGAATTTGCA
65 CCTAGAATCTACA
* * *
21231398 ACAAGGCTAGATTTTGTTATATTGCTCGAGAATCGGCAATAAATGCTAGATCTCATTATATTA-C
1 ACAAGGCTAGATCTCGTTATATTGCTCGAGAATCGGCAAT-AAGGCTAGATCTCATTATATTACC
*
21231462 CCTAGAATCTATA
65 CCTAGAATCTACA
* **
21231475 ATAGATTCTAGATCTCGTTATA
1 ACA-AGGCTAGATCTCGTTATA
21231497 ATCTTTAATA
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
77 41 0.52
78 38 0.48
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (77 bp):
ACAAGGCTAGATCTCGTTATATTGCTCGAGAATCGGCAATAAGGCTAGATCTCATTATATTACCC
CTAGAATCTACA
Found at i:21233568 original size:18 final size:18
Alignment explanation
Indices: 21233547--21233584 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21233537 AATTTAAGAA
21233547 TATAAAT-TTTGAAATTTT
1 TATAAATATTT-AAATTTT
*
21233565 TATAAATATTTTAATTTT
1 TATAAATATTTAAATTTT
21233583 TA
1 TA
21233585 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATAAATATTTAAATTTT
Found at i:21239182 original size:37 final size:37
Alignment explanation
Indices: 21239132--21239205 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
21239122 GCTGAATGAG
* * *
21239132 TCTATTTTCACATAAAGGAAACTGAGCAAGGAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
21239169 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
1 TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
21239206 GTTATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (37 bp):
TCTATTTTCACATAAAAGAAACAGAGCAAGCAAAAGA
Found at i:21248090 original size:20 final size:20
Alignment explanation
Indices: 21248065--21248114 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
21248055 TGGCTTAAAA
21248065 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
21248085 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
21248102 GTGGTAGTGGATT
1 TTGGTAGTGGATT
21248115 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:21252729 original size:20 final size:20
Alignment explanation
Indices: 21252704--21252753 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
21252694 TGGCTTAAAA
21252704 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
21252724 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
21252741 GTGGTAGTGGATT
1 TTGGTAGTGGATT
21252754 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:21255699 original size:46 final size:45
Alignment explanation
Indices: 21255645--21255889 Score: 204
Period size: 46 Copynumber: 5.6 Consensus size: 45
21255635 CTATAGTTCA
*
21255645 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCG
* * * *
21255691 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG----GTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTCG
* * * * *
21255732 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TATT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAATTCTTCG
** * * * *
21255775 ATCCACTCCACTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTCG
*
21255819 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTCG
* *
21255865 GTCTGTTCCACTGTAATCTCAGGGA
1 ATCTGCTCCACTGTAATCTCAGGGA
21255890 CCAGAAGACA
Statistics
Matches: 157, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 31 0.20
42 3 0.02
43 28 0.18
44 31 0.20
45 1 0.01
46 60 0.38
47 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTCG
Found at i:21255802 original size:43 final size:42
Alignment explanation
Indices: 21255641--21255852 Score: 135
Period size: 44 Copynumber: 4.9 Consensus size: 42
21255631 GGATCTATAG
* * *
21255641 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT
1 TTCAATCTACTCCACTGTAATCTCAAGGAGATAAGATCCT---A-T
** * * **
21255686 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGA-CCTGG
1 -TTCAATCTACTCCACTGTAATCTCAAGGAGATAAGATCCTAT
* * *
21255728 TGCGATCTACTCTACTGTAA-CTTC-AGAGAGATAAGATCCTTAT
1 TTCAATCTACTCCACTGTAATC-TCAAG-GAGATAAGATCC-TAT
* * * *
21255771 TTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAT
1 TTCAATCTACTCCACTGTAATCTCAAGGAGATAAGA-TCCTAT
* * *
21255814 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 -TTCAATCTACTCCACTGTAATCTCAAGGAGATAAGATC
21255853 TGAAATTCTT
Statistics
Matches: 131, Mismatches: 26, Indels: 21
0.74 0.15 0.12
Matches are distributed among these distances:
40 2 0.02
41 27 0.21
42 2 0.02
43 30 0.23
44 35 0.27
46 35 0.27
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCAATCTACTCCACTGTAATCTCAAGGAGATAAGATCCTAT
Found at i:21255847 original size:87 final size:87
Alignment explanation
Indices: 21255641--21255863 Score: 206
Period size: 87 Copynumber: 2.6 Consensus size: 87
21255631 GGATCTATAG
** **
21255641 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTGCTCCACTGT
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCT-AAATTCTTCAATCCACTCCACTGT
* * *
21255705 AATCTCAGGGAGATAAGACCTGG
65 AATCTCAAGGAGATAAGAACTGC
* * * ** * *
21255728 TGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TATT-TT-AATCCACTCCACTGT
1 TTCAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCCTAAATTCTTCAATCCACTCCACTGT
* *
21255789 AATCTCAAGGAGATAGGATTACTATC
65 AATCTCAAGGAGATAAGA--ACT-GC
21255815 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTC
1 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCT-AAATTCTTC
21255864 GGTCTGTTCC
Statistics
Matches: 103, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
84 27 0.26
85 2 0.02
86 8 0.08
87 58 0.56
88 6 0.06
89 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (87 bp):
TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTAAATTCTTCAATCCACTCCACTGTA
ATCTCAAGGAGATAAGAACTGC
Found at i:21262213 original size:2 final size:2
Alignment explanation
Indices: 21262206--21262233 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21262196 GCTGACACTC
21262206 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
21262234 TTAAAAATAC
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:21262312 original size:16 final size:16
Alignment explanation
Indices: 21262291--21262343 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
21262281 TTGGTTCGCT
21262291 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
21262307 GTAATGGAATAGAAGC
1 GTAATGGAATAGAGGC
21262323 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
21262339 GTAAT
1 GTAAT
21262344 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:21262374 original size:45 final size:44
Alignment explanation
Indices: 21262323--21262419 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
21262313 GAATAGAAGC
21262323 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
21262368 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
21262412 GGAATGGA
1 GTAATGGA
21262420 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:21262595 original size:18 final size:17
Alignment explanation
Indices: 21262573--21262607 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21262563 TAATTATTAA
*
21262573 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21262591 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21262608 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21262700 original size:16 final size:14
Alignment explanation
Indices: 21262670--21262721 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
21262660 CAATAAAATA
21262670 TAATTTAAAATAAT
1 TAATTTAAAATAAT
21262684 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
21262700 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
21262713 ATAATTTAA
1 -TAATTTAA
21262722 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:21262774 original size:117 final size:120
Alignment explanation
Indices: 21262567--21262787 Score: 351
Period size: 117 Copynumber: 1.9 Consensus size: 120
21262557 TTAACATAAT
*
21262567 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATAT
*
21262632 GGATTTACTAAAATCATAATATATAATACAAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACAATGAAAATATAATTTAAAATAATTAA
*
21262687 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATAT
* *
21262749 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACAATGAAAATA
21262788 ATATATAATC
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
116 2 0.02
117 42 0.45
118 9 0.10
120 41 0.44
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATG
AATTTACTAAAATCATAATATATAATACAATGAAAATATAATTTAAAATAATTAA
Found at i:21265480 original size:46 final size:46
Alignment explanation
Indices: 21265413--21265505 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
21265403 CCTCAAAGAA
*
21265413 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
*
21265459 CAAAGACTTGCAATCAGAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
21265505 C
1 C
21265506 TCGGATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:21269412 original size:46 final size:46
Alignment explanation
Indices: 21269355--21269448 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
21269345 ACAATGCTAT
* * *
21269355 AACTCAGTATGGTTTCCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
21269401 AACTCAATATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
21269447 AA
1 AA
21269449 TTTTCCATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (46 bp):
AACTCAATATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:21273531 original size:14 final size:14
Alignment explanation
Indices: 21273510--21273551 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
21273500 GTTTGATTGC
21273510 CAGTAAAATATTTT
1 CAGTAAAATATTTT
*
21273524 CCGTAAAATGA-TTT
1 CAGTAAAAT-ATTTT
*
21273538 CAGGAAAATATTTT
1 CAGTAAAATATTTT
21273552 TCTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (14 bp):
CAGTAAAATATTTT
Found at i:21273564 original size:34 final size:35
Alignment explanation
Indices: 21273520--21273586 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21273510 CAGTAAAATA
21273520 TTTTCCGTAAAATGATTT-CAGGAAAATATTTTTC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTTC
* *
21273554 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
21273587 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTTC
Found at i:21287113 original size:11 final size:11
Alignment explanation
Indices: 21287093--21287122 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21287083 CTGACTTTGG
*
21287093 AAAATCATAAA
1 AAAATTATAAA
21287104 AAAATTATAAA
1 AAAATTATAAA
21287115 AAAATTAT
1 AAAATTAT
21287123 TAGGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:21296731 original size:12 final size:12
Alignment explanation
Indices: 21296714--21296738 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21296704 ATTAATGTAA
21296714 AATTATTTTGTT
1 AATTATTTTGTT
21296726 AATTATTTTGTT
1 AATTATTTTGTT
21296738 A
1 A
21296739 GTAATTTATG
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:21296878 original size:105 final size:105
Alignment explanation
Indices: 21296761--21296955 Score: 306
Period size: 103 Copynumber: 1.9 Consensus size: 105
21296751 AGTGTTTTGT
* * *
21296761 GTTTTGTGA-TTTTTTAGTAATATAAAATATTTAAAAAAATTATTTTTATAGTTATTTTGTTAGT
1 GTTTTGTAATTTTTTTAGTAATAT--AAT-TTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
21296825 AATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAATTTAGG
63 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGG
*
21296866 GTTTTGTAATTTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
1 GTTTTGTAATTTTTTTAGTAATATAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
21296931 TTATGATTAGGTTATATAAATTGTT
66 TTATGATTAGGTTATATAAATTGTT
21296956 GGTGCTTTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
103 45 0.54
104 6 0.07
105 19 0.23
106 13 0.16
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (105 bp):
GTTTTGTAATTTTTTTAGTAATATAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
TTATGATTAGGTTATATAAATTGTTAGTGTTTAATTTAGG
Found at i:21297010 original size:94 final size:96
Alignment explanation
Indices: 21296898--21297156 Score: 296
Period size: 102 Copynumber: 2.6 Consensus size: 96
21296888 GTAATTTTAA
21296898 AAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTT-G-GT-G
1 AAAAAA-AATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTAG
* *
21296960 CTTTT-TGACTTATTAGTAACGTA-AATTCTTTTT
65 ATTTTGTGACTTATTAATAA--TATAATT-TTTTT
* *
21296993 AAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATA-AATTATTAGTGTTTAG
1 AAAAAAAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAA--A-T--TG-TTAG
* * *
21297057 TTTAGGATTTTGTGATTTTTTAATAATATAATTTTTTT
60 TGTA-GATTTTGTGACTTATTAATAATATAATTTTTTT
* *
21297095 AAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATTAATTGTTAGTGT
1 AAAAAAAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGT
21297157 TTAATTTAGT
Statistics
Matches: 139, Mismatches: 12, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
93 2 0.01
94 40 0.29
95 7 0.05
96 1 0.01
97 6 0.04
98 4 0.03
99 2 0.01
100 2 0.01
101 2 0.01
102 52 0.37
103 10 0.07
104 11 0.08
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.52
Consensus pattern (96 bp):
AAAAAAAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTAGA
TTTTGTGACTTATTAATAATATAATTTTTTT
Found at i:21297097 original size:102 final size:105
Alignment explanation
Indices: 21296983--21297200 Score: 318
Period size: 102 Copynumber: 2.1 Consensus size: 105
21296973 TAGTAACGTA
21296983 AATTCTTTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTA
1 AATT-TTTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTA
*
21297046 TTAGTGTTTAGTTTAG-GATTTTGTGATTTTTTAAT-AATAT
65 TTAGTGTTTAATTTAGTG-TTTTGTGATTTTTTAATAAATAT
* * * *
21297086 AATTTTTTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATTAATTGT
1 AATTTTTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTAT
* *
21297151 TAGTGTTTAATTTAGTGTTTTGTGATTTTTTTATAAATGT
66 TAGTGTTTAATTTAGTGTTTTGTGATTTTTTAATAAATAT
*
21297191 AAATTTTTTA
1 AATTTTTTTA
21297201 TAATGTAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
102 44 0.43
103 7 0.07
104 38 0.37
105 14 0.14
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (105 bp):
AATTTTTTTAAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTAT
TAGTGTTTAATTTAGTGTTTTGTGATTTTTTAATAAATAT
Found at i:21297102 original size:15 final size:17
Alignment explanation
Indices: 21297072--21297106 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21297062 GATTTTGTGA
21297072 TTTTTTAATAATATAAT
1 TTTTTTAATAATATAAT
21297089 TTTTTTAA-AA-ATAAT
1 TTTTTTAATAATATAAT
21297104 TTT
1 TTT
21297107 ATAGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTTAATAATATAAT
Found at i:21297205 original size:16 final size:16
Alignment explanation
Indices: 21297177--21297212 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
21297167 GTTTTGTGAT
21297177 TTTTTTATAAATGTAAA
1 TTTTTTATAAATGT-AA
21297194 TTTTTTAT-AATGTAA
1 TTTTTTATAAATGTAA
21297209 TTTT
1 TTTT
21297213 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTTTATAAATGTAA
Found at i:21306476 original size:38 final size:38
Alignment explanation
Indices: 21306434--21306508 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
21306424 AGGTTGTTGG
* **
21306434 ATAGTTTTTGTGCCCTACAGGGAAAGGTCCCTTATGAC
1 ATAGTTTTGGTGCCCTACAGGGAAACATCCCTTATGAC
* *
21306472 ATAGTTTTGGTGCTCTGCAGGGAAACATCCCTTATGA
1 ATAGTTTTGGTGCCCTACAGGGAAACATCCCTTATGA
21306509 GGACTTTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
ATAGTTTTGGTGCCCTACAGGGAAACATCCCTTATGAC
Found at i:21314240 original size:7 final size:7
Alignment explanation
Indices: 21314228--21314255 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
21314218 CATTCACGCC
21314228 TCGCCTT
1 TCGCCTT
21314235 TCGCCTT
1 TCGCCTT
21314242 TCGCCTT
1 TCGCCTT
21314249 TCGCCTT
1 TCGCCTT
21314256 GTTTTCACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.14, T:0.43
Consensus pattern (7 bp):
TCGCCTT
Found at i:21314427 original size:16 final size:16
Alignment explanation
Indices: 21314406--21314438 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21314396 TTTGGTTCGC
21314406 TGTATTAGATTAAAGG
1 TGTATTAGATTAAAGG
*
21314422 TGTATTAGATTAGAGG
1 TGTATTAGATTAAAGG
21314438 T
1 T
21314439 TTAATAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAAAGG
Found at i:21314810 original size:120 final size:121
Alignment explanation
Indices: 21314655--21314945 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 121
21314645 ATTTAATCAT
* *
21314655 ATTTAAACATAATTATTATTAAATATTTTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
21314720 ATTAATATTCTTATATGAATTTACTCAGATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATCA-AA
*
21314777 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
21314840 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATCAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATCAAA
* *
21314896 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
21314946 AATAATTTAA
Statistics
Matches: 160, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 148 0.93
121 4 0.03
122 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATCAAA
Found at i:21314825 original size:14 final size:15
Alignment explanation
Indices: 21314776--21314827 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21314766 GTAAAATATA
21314776 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
21314791 TATTAAATATATTAT
1 AATTAAATATATTAT
21314806 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
21314819 AATTTAATA
1 AATTAAATA
21314828 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:21314877 original size:61 final size:61
Alignment explanation
Indices: 21314692--21314879 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
21314682 TTTTAATTAA
*
21314692 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAGATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
21314753 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
21314811 A
61 T
21314812 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
21314873 AATATAT
1 AATATAT
21314880 GATACTGTAA
Statistics
Matches: 94, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 26 0.28
60 16 0.17
61 34 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:21315039 original size:24 final size:25
Alignment explanation
Indices: 21314993--21315040 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
21314983 TATGAATTTG
21314993 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
21315019 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
21315041 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Done.