Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008575.1 Hibiscus syriacus cultivar Beakdansim tig00111504_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: 896659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:576486 original size:26 final size:25
Alignment explanation
Indices: 576457--576863 Score: 252
Period size: 26 Copynumber: 16.5 Consensus size: 25
576447 TTTGATGATT
576457 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
576483 TAGTAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
576509 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
576531 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
576555 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
*
576581 TAATAATGATTTTATAATAATCATTA
1 TAGTAATGA-TTTATAATAATCATTA
*
576607 TAATAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
** *
576633 TAAAAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* *
576655 TA--AAT-ATTTAATAATTTGATGATT-
1 TAGTAATGATTT-ATAA--TAATCATTA
576679 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
576705 TAGTAATGATTTAGTAATAATCATTA
1 TAGTAATGATTTA-TAATAATCATTA
* *
576731 TA-AAATGA-TT-TAATAATGATT-
1 TAGTAATGATTTATAATAATCATTA
* * *
576752 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTT-AT-A-ATAATCATTA
576776 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTT-ATAATAATCATTA
* *
576802 TAATAATGATTTTATAATAATTATTA
1 TAGTAATGA-TTTATAATAATCATTA
* * *
576828 T-GTTATTATTTAGTAATTAT--TTA
1 TAGTAATGATTTA-TAATAATCATTA
*
576851 TAATAATGATTTA
1 TAGTAATGATTTA
576864 ATACTAATTA
Statistics
Matches: 314, Mismatches: 33, Indels: 70
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.01
20 15 0.05
21 2 0.01
22 19 0.06
23 26 0.08
24 41 0.13
25 43 0.14
26 139 0.44
27 26 0.08
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (25 bp):
TAGTAATGATTTATAATAATCATTA
Found at i:576571 original size:98 final size:98
Alignment explanation
Indices: 576402--576828 Score: 491
Period size: 98 Copynumber: 4.1 Consensus size: 98
576392 ATGTATTTAT
576402 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
576467 TTGATAATAATCATTATAGTAATGA-TTTAGTAA
66 TTGATAATAATCATTATAATAATGATTTTA-TAA
576500 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
576565 TTGATAATAATCATTATAATAATGATTTTATAA
66 TTGATAATAATCATTATAATAATGATTTTATAA
* * *
576598 TAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAAT-AT
1 TAATCATTATAAAAATGA-TT--TAATAATGATT-T--AAAT-A-TT--TAATGATTT-GATGAT
* * * * *
576662 TTAATAATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAA
55 TTAGTAA--TGAT--TTGA-TAAT-A-ATCATTATAAT-A--AT-G--AT--TTTA-TAA
576722 TAATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
576786 TTGATAATAATCATTATAATAATGATTTTATAA
66 TTGATAATAATCATTATAATAATGATTTTATAA
*
576819 TAATTATTAT
1 TAATCATTAT
576829 GTTATTATTT
Statistics
Matches: 282, Mismatches: 18, Indels: 59
0.79 0.05 0.16
Matches are distributed among these distances:
97 12 0.04
98 113 0.40
99 6 0.02
100 2 0.01
101 10 0.04
102 2 0.01
103 2 0.01
104 4 0.01
105 2 0.01
106 10 0.04
107 1 0.00
108 21 0.07
109 5 0.02
110 4 0.01
111 4 0.01
112 5 0.02
113 21 0.07
114 1 0.00
115 10 0.04
116 2 0.01
117 4 0.01
118 2 0.01
119 2 0.01
120 10 0.04
121 2 0.01
122 2 0.01
123 10 0.04
124 13 0.05
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (98 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAATAATGATTTTATAA
Found at i:576598 original size:124 final size:123
Alignment explanation
Indices: 576460--576747 Score: 497
Period size: 124 Copynumber: 2.3 Consensus size: 123
576450 GATGATTTAG
*
576460 TAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
1 TAATGATTTTATAATAATCATTATA-TAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
*
576525 ATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
65 ATGATTTAAATATTTAATAATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
576584 TAATGATTTTATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
1 TAATGATTTTATAATAATCATTAT-ATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
*
576649 ATGATTTAAATATTTAATAATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
65 ATGATTTAAATATTTAATAATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
* *
576708 TAATGA-TTTAGTAATAATCATTATAAAATGATTTAATAAT
1 TAATGATTTTA-TAATAATCATTATATAATGATTTAGTAAT
576748 GATTTAAATA
Statistics
Matches: 157, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
123 18 0.11
124 138 0.88
125 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (123 bp):
TAATGATTTTATAATAATCATTATATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAA
TGATTTAAATATTTAATAATTTGATGATTTAGTAATGATTTGATAATAATCATTATAA
Found at i:576763 original size:97 final size:98
Alignment explanation
Indices: 576584--576828 Score: 431
Period size: 97 Copynumber: 2.5 Consensus size: 98
576574 ATCATTATAA
*
576584 TAATGATTTTATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
1 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
576649 ATGATTTAAATATTTAATAATTTGATGATTTAG
66 ATGATTTAAATATTTAATAATTTGATGATTTAG
*
576682 TAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTAT-AAAATGATTTAATA
1 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
*
576746 ATGATTTAAATATTTAATGATTTGATGATTTAG
66 ATGATTTAAATATTTAATAATTTGATGATTTAG
*
576779 TAATGATTTGATAATAATCATTATAATAATGATTTTA-TAATAATTATTAT
1 TAATGATTTGATAATAATCATTATAATAATGA-TTTAGTAATAATCATTAT
576829 GTTATTATTT
Statistics
Matches: 141, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
97 89 0.63
98 52 0.37
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (98 bp):
TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
ATGATTTAAATATTTAATAATTTGATGATTTAG
Found at i:576876 original size:14 final size:13
Alignment explanation
Indices: 576841--576883 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
576831 TATTATTTAG
*
576841 TAATTATTTATAA
1 TAATTATTTATAC
*
576854 TAATGATTTAATAC
1 TAATTATTT-ATAC
576868 TAATTATTTGATAC
1 TAATTATTT-ATAC
576882 TA
1 TA
576884 GTAATGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (13 bp):
TAATTATTTATAC
Found at i:576888 original size:17 final size:17
Alignment explanation
Indices: 576868--576900 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
576858 GATTTAATAC
*
576868 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
576885 TAATGATTTGATACTA
1 TAATGATTTGATACTA
576901 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:579180 original size:33 final size:33
Alignment explanation
Indices: 579138--579200 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
579128 CTAAACCCTT
579138 AAACAACTAATAAAATATTCTTT-ATATAACTA
1 AAACAACTAATAAAATATTCTTTCATATAACTA
* *
579170 AAACTAACTAATAAACTATTTTTTCATATAA
1 AAAC-AACTAATAAAATATTCTTTCATATAA
579201 TATACTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.37
Consensus pattern (33 bp):
AAACAACTAATAAAATATTCTTTCATATAACTA
Found at i:579334 original size:46 final size:48
Alignment explanation
Indices: 579257--579347 Score: 134
Period size: 46 Copynumber: 1.9 Consensus size: 48
579247 CAACAAACAA
579257 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAACACAAACTAATT-AATAATTTTTTTT
* *
579306 ATATAAC-TAACTA-TTAAC-AATACAAACTAATTAATTATTTTT
1 ATATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTT
579348 AACTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 9 0.22
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAACACAAACTAATTAATAATTTTTTTT
Found at i:579355 original size:46 final size:48
Alignment explanation
Indices: 579257--579360 Score: 133
Period size: 46 Copynumber: 2.2 Consensus size: 48
579247 CAACAAACAA
**
579257 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAACACAAACTAATTAAATAATTTTTACT
* *
579306 ATATAACTAACTA-TTAAC-AATACAAACTAATT-AATTATTTTTAACT
1 ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTT-ACT
579352 ATATAACTA
1 ATATAACTA
579361 TCAAACATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 9 0.18
46 23 0.46
47 5 0.10
48 6 0.12
49 7 0.14
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTACT
Found at i:579415 original size:40 final size:39
Alignment explanation
Indices: 579329--579415 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
579319 TTAACAATAC
*
579329 AAACTAATTAATTATTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATATTTTTAACTATATAACTAT-AAACAT
* * * *
579369 ATACTAATTAAATATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATATTTTTAA-CTATATA-ACTATAAACAT
579409 AAACTAA
1 AAACTAA
579416 CAATCATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 29 0.74
41 5 0.13
42 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (39 bp):
AAACTAATTAAATATTTTTAACTATATAACTATAAACAT
Found at i:579578 original size:21 final size:21
Alignment explanation
Indices: 579548--579606 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
579538 CCCTTTCTTC
579548 TTCTTACTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
579569 TTCTTCCTTTCCTTTCTCCCT
1 TTCTTACTTTCCTTTCTCCCT
*
579590 TTCTTTCTTT-CTTTCTC
1 TTCTTACTTTCCTTTCTC
579607 GGCTGCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (21 bp):
TTCTTACTTTCCTTTCTCCCT
Found at i:579636 original size:22 final size:23
Alignment explanation
Indices: 579609--579653 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
579599 TCTTTCTCGG
579609 CTGCAATCTC-TCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
579631 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
579654 TCTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.09, C:0.40, G:0.04, T:0.47
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:579773 original size:18 final size:18
Alignment explanation
Indices: 579750--579784 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
579740 GTACCAATAA
579750 TCAAATGGTTCACATGCC
1 TCAAATGGTTCACATGCC
579768 TCAAATGGTTCACATGC
1 TCAAATGGTTCACATGC
579785 ATGCATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TCAAATGGTTCACATGCC
Found at i:579836 original size:36 final size:37
Alignment explanation
Indices: 579789--579862 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
579779 ACATGCATGC
579789 ATTGGGAGGTGTAGGC-ATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
579825 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
579862 A
1 A
579863 GGATCTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
Found at i:579944 original size:29 final size:29
Alignment explanation
Indices: 579911--580019 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
579901 GATGGAATGG
579911 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
579940 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
579969 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
579998 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
580020 CTCTATTCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 75 0.97
30 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:580092 original size:28 final size:28
Alignment explanation
Indices: 580052--580217 Score: 188
Period size: 28 Copynumber: 5.6 Consensus size: 28
580042 TATGGCTCGT
580052 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* *
580080 TGCATGCTCCCCATTGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
580113 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
* * * *
580141 TGCATGCTCCCCGTGGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTC-TCTAT---TC-C
580174 TGCATGCTCCCCATTGGCTCTCTATTCC
1 TGCATGCTCCCCATTGGCTCTCTATTCC
580202 TGCATGCTCCCCATTG
1 TGCATGCTCCCCATTG
580218 CCTCGTTGCA
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
28 54 0.47
29 12 0.10
32 12 0.10
33 38 0.33
ACGTcount: A:0.11, C:0.36, G:0.20, T:0.34
Consensus pattern (28 bp):
TGCATGCTCCCCATTGGCTCTCTATTCC
Found at i:580108 original size:61 final size:61
Alignment explanation
Indices: 580033--580223 Score: 355
Period size: 61 Copynumber: 3.1 Consensus size: 61
580023 TATTCCTGCA
580033 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
580094 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCGT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
580155 GGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
580216 TGCCTCGT
1 TGGCTCGT
580224 TGCATCCTCC
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 125 1.00
ACGTcount: A:0.10, C:0.35, G:0.21, T:0.34
Consensus pattern (61 bp):
TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
Found at i:580191 original size:22 final size:22
Alignment explanation
Indices: 580166--580245 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 22
580156 GGCTCGTATA
580166 TGGCTCGTTGCATGCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
*
580188 TGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGG--CTC--GT--TGCATGCTCCCCAT
* *
580216 TGCCTCGTTGCATCCTCCCCAT
1 TGGCTCGTTGCATGCTCCCCAT
580238 TGGCTCGT
1 TGGCTCGT
580246 ATGACTCGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 23 0.49
24 4 0.09
26 4 0.09
28 16 0.34
ACGTcount: A:0.09, C:0.39, G:0.19, T:0.34
Consensus pattern (22 bp):
TGGCTCGTTGCATGCTCCCCAT
Found at i:580264 original size:11 final size:11
Alignment explanation
Indices: 580245--580278 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
580235 CATTGGCTCG
*
580245 TATGACTCGTA
1 TATGGCTCGTA
580256 TATGGCTCGTA
1 TATGGCTCGTA
580267 TATGGCTCGTA
1 TATGGCTCGTA
580278 T
1 T
580279 GTCACCCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (11 bp):
TATGGCTCGTA
Found at i:580304 original size:12 final size:13
Alignment explanation
Indices: 580272--580306 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
580262 TCGTATATGG
580272 CTCGTATGTCACC
1 CTCGTATGTCACC
580285 CTCGTATGTCACC
1 CTCGTATGTCACC
580298 C-CGTATGTC
1 CTCGTATGTC
580307 GCCAGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (13 bp):
CTCGTATGTCACC
Found at i:582812 original size:31 final size:31
Alignment explanation
Indices: 582772--582831 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
582762 GGTGGACACT
**
582772 ATCCATAAAATAGGTAAATAATCGAAGAATC
1 ATCCATAAAATAAATAAATAATCGAAGAATC
* *
582803 ATCCCTAAAATAAATAACTAATCGAAGAA
1 ATCCATAAAATAAATAAATAATCGAAGAA
582832 AATTCAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.10, T:0.22
Consensus pattern (31 bp):
ATCCATAAAATAAATAAATAATCGAAGAATC
Found at i:583149 original size:58 final size:58
Alignment explanation
Indices: 583059--583174 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
583049 TTCTTCGCAA
583059 CCGTTGCCTAAACTGACTTCCTCGAGCCAAAATTCAAGTGGCAACGAAATTCAGATTC
1 CCGTTGCCTAAACTGACTTCCTCGAGCCAAAATTCAAGTGGCAACGAAATTCAGATTC
583117 CCGTTGCCTAAACTGACTTCCTCGAGCCAAAATTCAAGTGGCAACGAAATTCAGATTC
1 CCGTTGCCTAAACTGACTTCCTCGAGCCAAAATTCAAGTGGCAACGAAATTCAGATTC
583175 ATATATTCAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (58 bp):
CCGTTGCCTAAACTGACTTCCTCGAGCCAAAATTCAAGTGGCAACGAAATTCAGATTC
Found at i:588538 original size:29 final size:29
Alignment explanation
Indices: 588492--588556 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
588482 ATAGAATCCA
* *
588492 CATTCTCCCGTTTTGTTAGCCGGGAATGT
1 CATTCCCCCGTTTGGTTAGCCGGGAATGT
588521 CATTCCCCCGTTTGGTTAGCCGGGAATGT
1 CATTCCCCCGTTTGGTTAGCCGGGAATGT
588550 CATTCCC
1 CATTCCC
588557 GGTAATCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.23, T:0.34
Consensus pattern (29 bp):
CATTCCCCCGTTTGGTTAGCCGGGAATGT
Found at i:592229 original size:2 final size:2
Alignment explanation
Indices: 592224--592271 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
592214 AGAGAGTCAC
592224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
592266 AT AT AT
1 AT AT AT
592272 CATAAATCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:595194 original size:96 final size:96
Alignment explanation
Indices: 595089--595279 Score: 321
Period size: 96 Copynumber: 2.0 Consensus size: 96
595079 TCTGCCTACA
* *
595089 AGATCTTTTTTTATGTCCAT-AAAATAAAATGGATTTAAATTGTAAAGAGTGTTAGATCTAGAAA
1 AGATCTTTTTTGATGTCCATAAAAATAAAATGGATTTAAATTGTAAAGAGTATTAGATCTAGAAA
* * *
595153 TATAGTTTGACTGTTACCTGATCGGGAATAT
66 TATAGTTTGACTGGTAACTGATCGAGAATAT
*
595184 AGATCTTTTTTGATGTCCATAAAAATAAAATGGATTTAAGTTGTAAAGAGTATTAGATCTAGAAA
1 AGATCTTTTTTGATGTCCATAAAAATAAAATGGATTTAAATTGTAAAGAGTATTAGATCTAGAAA
595249 TATAGTTTGACTGGTAACTGATCGAGAATAT
66 TATAGTTTGACTGGTAACTGATCGAGAATAT
595280 TAAATTAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 19 0.21
96 70 0.79
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (96 bp):
AGATCTTTTTTGATGTCCATAAAAATAAAATGGATTTAAATTGTAAAGAGTATTAGATCTAGAAA
TATAGTTTGACTGGTAACTGATCGAGAATAT
Found at i:597784 original size:2 final size:2
Alignment explanation
Indices: 597777--597814 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
597767 TTCTTCATTC
597777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
597815 GATGCAGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:598443 original size:2 final size:2
Alignment explanation
Indices: 598436--598507 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
598426 TAATCATTAT
598436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
598478 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
598508 CCATAGCTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:599407 original size:40 final size:40
Alignment explanation
Indices: 599331--599408 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
599321 ATATACGAAT
* * **
599331 TTTAAATCACTATAACAAATATCATATATATTTAAATATG
1 TTTAAATCACTAAAACAAATATCATACATACATAAATATG
* * *
599371 TTTAAGTCACTAAAATAAATATCATACATCCATAAATA
1 TTTAAATCACTAAAACAAATATCATACATACATAAATA
599409 ATTTACTGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (40 bp):
TTTAAATCACTAAAACAAATATCATACATACATAAATATG
Found at i:605809 original size:2 final size:2
Alignment explanation
Indices: 605802--605831 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
605792 CAAGTAATTC
605802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
605832 GTGTGTGTGT
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):
AT
Found at i:606857 original size:2 final size:2
Alignment explanation
Indices: 606850--606910 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
606840 TGAAGAAAGC
606850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
606892 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
606911 ATTTCATGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:621259 original size:20 final size:20
Alignment explanation
Indices: 621233--621289 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
621223 TTGGTTAACG
*
621233 GAATGTAAGATTATCAGTG-
1 GAATGTAAGATTACCAGTGA
621252 GCAATGTAAGATTACCAGTGA
1 G-AATGTAAGATTACCAGTGA
621273 GAATGTAAGATTACCAG
1 GAATGTAAGATTACCAG
621290 GGAATAGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.26
Consensus pattern (20 bp):
GAATGTAAGATTACCAGTGA
Found at i:621514 original size:34 final size:34
Alignment explanation
Indices: 621450--621515 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
621440 AAAAAATTTA
*
621450 TATATATTTTTTTAAAAATTAAATTCATAAAATT
1 TATATATTTTTTTAAAAATTAAAATCATAAAATT
621484 TATAT-TTTTTTTACAAAATTGAAAAT-ATAAAA
1 TATATATTTTTTTA-AAAATT-AAAATCATAAAA
621516 AGGTTTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 8 0.28
34 17 0.59
35 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (34 bp):
TATATATTTTTTTAAAAATTAAAATCATAAAATT
Found at i:621911 original size:2 final size:2
Alignment explanation
Indices: 621904--621928 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
621894 TTAATAGATA
621904 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
621929 AAGTAGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:628089 original size:106 final size:106
Alignment explanation
Indices: 627895--629936 Score: 3186
Period size: 106 Copynumber: 19.3 Consensus size: 106
627885 GAGTAAATTT
*
627895 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
627960 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * * *
628001 TAATTTCCTAATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
628066 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
628107 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
628172 TGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
*
628213 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
628278 TGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
628319 CAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
628384 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCTACAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
628425 CAAATTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
628490 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* *
628531 CAACTTCCAAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
628596 TGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
628637 CAA-TTTCCATATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCAC
1 CAACTTCCCA-ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGC
*
628701 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA
65 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * *
628743 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
628808 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * *
628849 CAACTTCCAAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
628914 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * *
628955 CAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGTATATTGGACTCCAGACAACACA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
629020 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
629061 -AACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
629125 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * *
629166 CAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
629231 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
*
629272 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
629337 AGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
629378 CAACTTCTCAATTTCAGAGTCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
629443 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
629484 CAATTTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGTA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
629549 AGTTCAACATCACGACGAAGGGACCACTGATTGTCAATAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * *
629590 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACAC
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGC
* * * * *
629654 AAGCTCAACTTCACGACAAAGGGGCGGCTGATTGTC----AA
65 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * ** * * * * * *
629692 CAAATT-TC-A-TTCAGAGTTAATTTTAACTTCACAGCGAATGATATTAGACTCGAGACAGCACA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
629754 AGTTCAACTTCACAAACGAAGGGACGGCTGGTTGTCAACAAA
66 AGTTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAATAAA
* * * *
629796 CAACTTCCCAATTTCAGAGCCAATCTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACA
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * *
629861 AGTTCAACTTCACAACAAAGGGACGGCTGGTTGTCAACAAA
66 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
* * ** *
629902 TAATTTCCCGGTTTCAGAACCAATTTCAACTTCAC
1 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC
629937 GACAGAGGTA
Statistics
Matches: 1785, Mismatches: 138, Indels: 26
0.92 0.07 0.01
Matches are distributed among these distances:
99 54 0.03
100 20 0.01
101 1 0.00
102 7 0.00
104 7 0.00
105 108 0.06
106 1526 0.85
107 62 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA
Found at i:636575 original size:12 final size:12
Alignment explanation
Indices: 636558--636596 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
636548 CCATAATACT
*
636558 ATTAAATATTAA
1 ATTAAATAATAA
636570 ATTAAATAAATAA
1 ATTAAAT-AATAA
*
636583 ATCAAATAATAA
1 ATTAAATAATAA
636595 AT
1 AT
636597 AATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAATAATAA
Found at i:654247 original size:60 final size:60
Alignment explanation
Indices: 654134--654249 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
654124 AAATAGTTGG
* * * * **
654134 TGATCATTTTGTAACTTTTAATAGTCTATGGACTTAGCAAAGTAATATTCTATAATTAGA
1 TGATCATTTTATAACTTTTAATAGTCAATGGACTTAACAAAGCAATACCCTATAATTAGA
* *
654194 TGATCATTTTATAACTTTTAATAGTCAAAT-GACTTAATAGAGCAATACCCTATAAT
1 TGATCATTTTATAACTTTTAATAGTC-AATGGACTTAACAAAGCAATACCCTATAAT
654250 CAAGGGACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (60 bp):
TGATCATTTTATAACTTTTAATAGTCAATGGACTTAACAAAGCAATACCCTATAATTAGA
Found at i:655432 original size:29 final size:29
Alignment explanation
Indices: 655343--655439 Score: 176
Period size: 29 Copynumber: 3.3 Consensus size: 29
655333 AAAATCAAAC
655343 ACGCTGAATGTTGAACGGTTCAGCATTCA
1 ACGCTGAATGTTGAACGGTTCAGCATTCA
*
655372 ACACTGAATGTTGAACGGTTCAGCATTCA
1 ACGCTGAATGTTGAACGGTTCAGCATTCA
655401 ACGCTGAATGTTGAACGGTTCAGCATTCA
1 ACGCTGAATGTTGAACGGTTCAGCATTCA
*
655430 ACGTTGAATG
1 ACGCTGAATG
655440 GTTCCATTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (29 bp):
ACGCTGAATGTTGAACGGTTCAGCATTCA
Found at i:655449 original size:20 final size:21
Alignment explanation
Indices: 655410--655451 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
655400 AACGCTGAAT
655410 GTTGAACGGTTCAGCATTCAAC
1 GTTGAACGGTTCA-CATTCAAC
*
655432 GTTGAATGGTTC-CATTCAAC
1 GTTGAACGGTTCACATTCAAC
655452 AGTAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (21 bp):
GTTGAACGGTTCACATTCAAC
Found at i:657276 original size:21 final size:21
Alignment explanation
Indices: 657250--657306 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
657240 GACGAACTGT
* *
657250 CATGTCAATATCGTGTACCGC
1 CATGTCAACATCGTGGACCGC
*
657271 CATGTCAGCATCGTGGACCGC
1 CATGTCAACATCGTGGACCGC
*
657292 CATGTCAGCATCGTG
1 CATGTCAACATCGTG
657307 AAACTGTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (21 bp):
CATGTCAACATCGTGGACCGC
Found at i:661351 original size:33 final size:33
Alignment explanation
Indices: 661268--661339 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
661258 AACACAAATG
* * * **
661268 AACGAACATATACGAACACAATAAATAAGTATA
1 AACGAACACAAACGAATACAATAAATAAACATA
661301 AACGAACACAAACGAATACAATAAATAAACATA
1 AACGAACACAAACGAATACAATAAATAAACATA
661334 AACGAA
1 AACGAA
661340 GGTAAACGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (33 bp):
AACGAACACAAACGAATACAATAAATAAACATA
Found at i:661558 original size:19 final size:19
Alignment explanation
Indices: 661534--661584 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
661524 ACCAACTAAA
*
661534 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
661553 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
661572 TCGCAACGCGATC
1 TCGCAACGCGATC
661585 TCCGGTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:661638 original size:21 final size:21
Alignment explanation
Indices: 661612--661702 Score: 164
Period size: 21 Copynumber: 4.3 Consensus size: 21
661602 GTTTCCAGAT
*
661612 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
661633 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
661654 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
661675 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
661696 TCGCAAT
1 TCGCAAT
661703 TTACATATTC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:661735 original size:21 final size:20
Alignment explanation
Indices: 661709--661772 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
661699 CAATTTACAT
*
661709 ATTCGCATTGCGATAGTCGAA
1 ATTCGC-TTGCGATAGTCCAA
*
661730 ATTCGCGTTGCGATTTATTCCAA
1 ATTCGC-TTGCGA--TAGTCCAA
661753 ATTCG-TTGCGATAGTCCAA
1 ATTCGCTTGCGATAGTCCAA
661772 A
1 A
661773 ATCGTATGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 8 0.22
21 18 0.49
23 11 0.30
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
ATTCGCTTGCGATAGTCCAA
Found at i:662455 original size:41 final size:41
Alignment explanation
Indices: 662405--662483 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
662395 GAATTTGGAA
* *
662405 TAAATCGCAACGCGA-ACTTTGACTATCGCAATGCGATTATG
1 TAAATCGCAACGCGATA-GTCGACTATCGCAATGCGATTATG
* *
662446 TAAATCGCAATGCGATAGTCGACTATCGCATTGCGATT
1 TAAATCGCAACGCGATAGTCGACTATCGCAATGCGATT
662484 TACATATTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
TAAATCGCAACGCGATAGTCGACTATCGCAATGCGATTATG
Found at i:662475 original size:21 final size:19
Alignment explanation
Indices: 662424--662482 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
662414 ACGCGAACTT
662424 TGACTATCGCAATGCGATTA
1 TGACTATCGCAATGCGA-TA
*
662444 TGTA-AATCGCAATGCGATA
1 TG-ACTATCGCAATGCGATA
*
662463 GTCGACTATCGCATTGCGAT
1 -T-GACTATCGCAATGCGAT
662483 TTACATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 16 0.50
21 14 0.44
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (19 bp):
TGACTATCGCAATGCGATA
Found at i:662516 original size:21 final size:21
Alignment explanation
Indices: 662490--662543 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
662480 GATTTACATA
662490 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
662511 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
662532 TTCGCGTTGCGA
1 TTCGCATTGCGA
662544 ATCTGGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:664300 original size:43 final size:41
Alignment explanation
Indices: 664195--664300 Score: 110
Period size: 43 Copynumber: 2.6 Consensus size: 41
664185 GCTTAATGAG
* *
664195 AATTTTTAAA-TTAAGGTTT--AAAATTAAAAATTAATATG
1 AATTTTTAAATTTAAGGTTTAAAAAAATAAAAATTAATATC
* * *
664233 AATTTATAAATTTAAGAATATTAAAAAAATAAAAGTTAATATC
1 AATTTTTAAATTTAAG-GT-TTAAAAAAATAAAAATTAATATC
664276 AATTTTTAAATTTTAAAGGTTTAAA
1 AATTTTTAAA-TTT-AAGGTTTAAA
664301 CTTTATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
38 9 0.17
39 5 0.09
40 1 0.02
41 2 0.04
43 30 0.56
44 4 0.07
45 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.41
Consensus pattern (41 bp):
AATTTTTAAATTTAAGGTTTAAAAAAATAAAAATTAATATC
Found at i:669762 original size:20 final size:21
Alignment explanation
Indices: 669737--669775 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
669727 GGCTGCTGGA
669737 AACCGGTT-TGACCGGTTTTT
1 AACCGGTTCTGACCGGTTTTT
669757 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
669776 GACCGGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTT
Found at i:669782 original size:19 final size:19
Alignment explanation
Indices: 669738--669836 Score: 62
Period size: 19 Copynumber: 5.2 Consensus size: 19
669728 GCTGCTGGAA
* *
669738 ACCGGTTTGACCGGTTTTTA
1 ACCGGTTTGACCGG-TTCTG
669758 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
* *
669777 ACCGGTTTCAACTGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
*
669796 AACGTGTTTGACCGG-TCTG
1 ACCG-GTTTGACCGGTTCTG
* *
669815 AATCGGTTTGACCAG-TCTG
1 -ACCGGTTTGACCGGTTCTG
669834 ACC
1 ACC
669837 CGACCCGACC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
18 5 0.08
19 36 0.56
20 16 0.25
21 7 0.11
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.32
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:669804 original size:29 final size:29
Alignment explanation
Indices: 669740--669811 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
669730 TGCTGGAAAC
* *
669740 CGGTTTGACCGGTTTTTAACCGGTTCTGAC
1 CGGTTTGACCGG-TTTCAACCGGTTCTGAA
*
669770 CGGTTTGACCGGTTTCAACTGGTTC-GAA
1 CGGTTTGACCGGTTTCAACCGGTTCTGAA
669798 CGTGTTTGACCGGT
1 CG-GTTTGACCGGT
669812 CTGAATCGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 22 0.58
30 12 0.32
ACGTcount: A:0.14, C:0.22, G:0.29, T:0.35
Consensus pattern (29 bp):
CGGTTTGACCGGTTTCAACCGGTTCTGAA
Found at i:669843 original size:5 final size:5
Alignment explanation
Indices: 669833--669885 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
669823 TGACCAGTCT
* *
669833 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
669882 GACC
1 GACC
669886 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:669854 original size:17 final size:17
Alignment explanation
Indices: 669832--669892 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
669822 TTGACCAGTC
669832 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
669849 TGACCCGACCCGACCCGACCGT
1 T-----GACCCGACCCGACCGT
669871 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
669888 TGACC
1 TGACC
669893 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 22 0.56
22 17 0.44
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:669858 original size:22 final size:22
Alignment explanation
Indices: 669833--669899 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
669823 TGACCAGTCT
669833 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
669855 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
669877 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
669900 GTTGACTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 31 0.74
24 11 0.26
ACGTcount: A:0.18, C:0.46, G:0.24, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:670843 original size:63 final size:63
Alignment explanation
Indices: 670775--670898 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
670765 CTAATGTGAC
* ** * *
670775 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
670838 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
670899 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:677111 original size:10 final size:9
Alignment explanation
Indices: 677076--677167 Score: 85
Period size: 10 Copynumber: 9.6 Consensus size: 9
677066 GCTGCTGGAA
677076 ACCGGTTTG
1 ACCGGTTTG
*
677085 ACCGGTTTTCA
1 ACCGG-TTT-G
677096 ACCGGTTCTG
1 ACCGGTT-TG
677106 ACCGGTTTG
1 ACCGGTTTG
*
677115 ACCGGTTTTA
1 ACCGG-TTTG
*
677125 ACCGGTTCG
1 ACCGGTTTG
677134 AACCGGTTTG
1 -ACCGGTTTG
*
677144 ACCGGTCTG
1 ACCGGTTTG
*
677153 AATCGGTTTG
1 -ACCGGTTTG
677163 ACCGG
1 ACCGG
677168 GTCTGACCCG
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
9 26 0.39
10 35 0.52
11 6 0.09
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:677120 original size:19 final size:19
Alignment explanation
Indices: 677076--677175 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
677066 GCTGCTGGAA
* *
677076 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
677096 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
677115 ACCGGTTTTAACCGGTTC-G
1 ACCGG-TTTGACCGGTTCTG
677134 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
* *
677153 AATCGGTTTGACCGGGTCTG
1 -ACCGGTTTGACCGGTTCTG
677173 ACC
1 ACC
677176 CGGCCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.03
19 39 0.57
20 19 0.28
21 9 0.13
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:677138 original size:29 final size:31
Alignment explanation
Indices: 677075--677149 Score: 129
Period size: 29 Copynumber: 2.5 Consensus size: 31
677065 GGCTGCTGGA
677075 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
677106 -ACCGGTTTGACCGGTTTT-AACCGGTTC-G
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
677134 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
677150 CTGAATCGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 1 0.02
29 24 0.56
30 18 0.42
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:677193 original size:17 final size:17
Alignment explanation
Indices: 677171--677239 Score: 129
Period size: 17 Copynumber: 4.1 Consensus size: 17
677161 TGACCGGGTC
*
677171 TGACCCGGCCCGACCGT
1 TGACCCGACCCGACCGT
677188 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
677205 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
677222 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
677239 T
1 T
677240 AACCGTTGAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.16, C:0.46, G:0.25, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:678192 original size:63 final size:63
Alignment explanation
Indices: 678124--678247 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
678114 CTAATGTGAC
* ** * *
678124 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
678187 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
678248 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:682023 original size:2 final size:2
Alignment explanation
Indices: 682016--682042 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
682006 ATTATTAGGG
682016 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
682043 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:683752 original size:84 final size:85
Alignment explanation
Indices: 683637--683796 Score: 304
Period size: 84 Copynumber: 1.9 Consensus size: 85
683627 TACTTTACTA
*
683637 CCTCTAAAGCTCTCTTTTCTCTAGCTCACACTTTTGGCACCATTTTCTTACTTCTTCACTCTTAC
1 CCTCTAAAGCTCTCTTTTCTCTAGCTCACACTTTTGGCACCATTTTCTCACTTCTTCACTCTTAC
683702 TACAATGGTAAAAACTTACC
66 TACAATGGTAAAAACTTACC
683722 CCTCTAAAGCTCTC-TTTCTCTAGCTCACACTTTTGGCACCATTTTCTCACTTCTTCACTCTTAC
1 CCTCTAAAGCTCTCTTTTCTCTAGCTCACACTTTTGGCACCATTTTCTCACTTCTTCACTCTTAC
683786 TACAATGGTAA
66 TACAATGGTAA
683797 TATGTAACAC
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
84 60 0.81
85 14 0.19
ACGTcount: A:0.23, C:0.31, G:0.07, T:0.39
Consensus pattern (85 bp):
CCTCTAAAGCTCTCTTTTCTCTAGCTCACACTTTTGGCACCATTTTCTCACTTCTTCACTCTTAC
TACAATGGTAAAAACTTACC
Found at i:684931 original size:20 final size:19
Alignment explanation
Indices: 684845--684935 Score: 57
Period size: 20 Copynumber: 4.9 Consensus size: 19
684835 GTTGCAGCCT
* *
684845 TGATGCATGGATGCATGGCA
1 TGATGCATCGATGCATTG-A
* *
684865 GGATGCATCGATGCACT-A
1 TGATGCATCGATGCATTGA
* *
684883 AG-TGCATTCGATG-TTTGA
1 TGATGCA-TCGATGCATTGA
*
684901 -G-TGCATGGATGCATTGCA
1 TGATGCATCGATGCATTG-A
684919 TGATGCATCGATGCATT
1 TGATGCATCGATGCATT
684936 AGTGCAGGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
16 5 0.09
17 13 0.24
18 10 0.18
19 1 0.02
20 26 0.47
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (19 bp):
TGATGCATCGATGCATTGA
Found at i:685433 original size:25 final size:25
Alignment explanation
Indices: 685399--685458 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
685389 TATCCAAGAC
*
685399 TAAAATATTTTATGCAATACCAATTGT
1 TAAAAT-TTATAT-CAATACCAATTGT
* *
685426 TGAAATTTGATATCAATACCATTTGT
1 TAAAATTT-ATATCAATACCAATTGT
685452 TAAAATT
1 TAAAATT
685459 AAGTGCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (25 bp):
TAAAATTTATATCAATACCAATTGT
Found at i:687986 original size:214 final size:206
Alignment explanation
Indices: 687515--688100 Score: 1065
Period size: 214 Copynumber: 2.8 Consensus size: 206
687505 AAATAATATT
687515 AAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTCAATG
1 AAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTCAATG
687580 CCCCTTGTTCCCTTAGGAACCCATACTTGTCTAA-TTT-AAATGTTTTACTTTCTTTAAAGGACA
66 CCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAGGACA
687643 AGTATG-TCCAAATGACCAT-AAAATGACAATGTGGAGCATCTTGAATATCATCACTTTCATCAC
131 AGTATGTTCCAAATGACCATAAAAATGACAATGTGGAGCATCTTGAATATCATCACTTTCATCAC
687706 CATTACTCCCA
196 CATTACTCCCA
687717 AAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTCAATG
1 AAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTCAATG
687782 CCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAGGACA
66 CCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAGGACA
687847 AGTATGTTCCAAATGACCATAAAAATGACAATGTGGAGCATCTTGAATATCATCACTTTCATCAC
131 AGTATGTTCCAAATGACCATAAAAATGACAATGTGGAGCATCTTGAATATCATCACTTTCATCAC
687912 CATTACTCCCACACA
196 CATTACT--C-C-CA
687927 CCTACAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTC
1 ---A-AAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTC
687992 AATGCCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAG
62 AATGCCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAG
688057 GACAAGTATGTTCCAAATGACCATAAAAATGACAATGT-GAGCAT
127 GACAAGTATGTTCCAAATGACCATAAAAATGACAATGTGGAGCAT
688101 TTTTCCATTT
Statistics
Matches: 372, Mismatches: 0, Indels: 13
0.97 0.00 0.03
Matches are distributed among these distances:
202 99 0.27
203 3 0.01
204 32 0.09
205 13 0.03
206 51 0.14
208 1 0.00
209 1 0.00
210 2 0.01
213 7 0.02
214 163 0.44
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (206 bp):
AAAGAGACATTTAAGTAGCTTTTGGTATCCAAATTGCTTTGGATCCTTGAACATTAGTTTCAATG
CCCCTTGTTCCCTTAGGAACCCATACTTGTCTAATTTTAAAATGTTTTACTTTCTTTAAAGGACA
AGTATGTTCCAAATGACCATAAAAATGACAATGTGGAGCATCTTGAATATCATCACTTTCATCAC
CATTACTCCCA
Found at i:689947 original size:31 final size:31
Alignment explanation
Indices: 689912--690056 Score: 247
Period size: 31 Copynumber: 4.7 Consensus size: 31
689902 AGCCCATAGA
689912 TCCCGAAGAATC-TAGGTAAACAGTCCATATG
1 TCCCGAAGAA-CATAGGTAAACAGTCCATATG
*
689943 TCCCGAATAACATAGGTAAACAGTCCATATG
1 TCCCGAAGAACATAGGTAAACAGTCCATATG
**
689974 TATCGAAGAACATAGGTAAACAGTCCATATG
1 TCCCGAAGAACATAGGTAAACAGTCCATATG
690005 TCCCGAAGAACATAGGTAAACAGTCCATATG
1 TCCCGAAGAACATAGGTAAACAGTCCATATG
690036 TCCCGAAGAACATAGGTAAAC
1 TCCCGAAGAACATAGGTAAAC
690057 CCTCGACCCT
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 1 0.01
31 106 0.99
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (31 bp):
TCCCGAAGAACATAGGTAAACAGTCCATATG
Found at i:690757 original size:64 final size:64
Alignment explanation
Indices: 690651--690816 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 64
690641 ATATTATTGC
* * *
690651 TGGGATACATCGATGCTCTCCTTATGCATCGATGCACCAATTGAATTCAATGT-TTCATTATTAA
1 TGGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGAATTCAATGTATTCATT-TTAA
** * * *
690715 TGGGATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATTTATTTTAA
1 TGGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGAATTCAATGTATTCATTTTAA
** * * * *
690779 -AAGAGTGCATCGATGCACTTCCTGTGCATCGATACACC
1 TGGGA-TGCATCGATGCACTACTTATGCATCGATGCACC
690817 TTCAAACGAT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
63 2 0.02
64 77 0.92
65 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (64 bp):
TGGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGAATTCAATGTATTCATTTTAA
Found at i:692550 original size:29 final size:29
Alignment explanation
Indices: 692518--692580 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
692508 GAAACTTTTT
692518 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
692548 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
692578 AAA
1 AAA
692581 CAATTTTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:693675 original size:9 final size:9
Alignment explanation
Indices: 693630--693692 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
693620 ACTTAAATTT
*
693630 TAAATACCA
1 TAAATTCCA
*
693639 GAAATTCCA
1 TAAATTCCA
693648 -ATAATTCCA
1 TA-AATTCCA
693657 -ATAATTCCA
1 TA-AATTCCA
693666 TAAATTCCA
1 TAAATTCCA
*
693675 TAAATTCGA
1 TAAATTCCA
*
693684 GAAATTCCA
1 TAAATTCCA
693693 GTAATGGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
8 1 0.02
9 45 0.96
10 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.29
Consensus pattern (9 bp):
TAAATTCCA
Found at i:694902 original size:30 final size:30
Alignment explanation
Indices: 694868--694946 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
694858 CGTTTTAAAA
* *
694868 TTATATTTTGGTCCCTAAACTTT-TCAAAGT
1 TTATAATTTGGTCCCTAAACTTTACCAAA-T
* *
694898 TTATACTTTGATCACC-AAACTTTACCAAAT
1 TTATAATTTGGTC-CCTAAACTTTACCAAAT
*
694928 TTATAATTTGGTCACTAAA
1 TTATAATTTGGTCCCTAAA
694947 TAAATCTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.03
30 33 0.82
31 6 0.15
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.42
Consensus pattern (30 bp):
TTATAATTTGGTCCCTAAACTTTACCAAAT
Found at i:699862 original size:30 final size:29
Alignment explanation
Indices: 699821--699907 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
699811 ATAACCGCTC
*
699821 AGGGCCCCTAATTTTTTTATATTTATAATT
1 AGGGCCCCTAA-TTATTTATATTTATAATT
*
699851 AGGGTCCCTAATTATTTATATTTATAATT
1 AGGGCCCCTAATTATTTATATTTATAATT
** *
699880 AGCACCCTTAATT-TTTATAATTTCATAA
1 AGGGCCCCTAATTATTTAT-ATTT-ATAA
699908 AATCTTTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.10
29 30 0.61
30 14 0.29
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (29 bp):
AGGGCCCCTAATTATTTATATTTATAATT
Found at i:699872 original size:29 final size:30
Alignment explanation
Indices: 699821--699881 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
699811 ATAACCGCTC
*
699821 AGGGCCCCTAATTTTTTTATATTTATAATT
1 AGGGCCCCTAATTTATTTATATTTATAATT
*
699851 AGGGTCCCTAA-TTATTTATATTTATAATT
1 AGGGCCCCTAATTTATTTATATTTATAATT
699880 AG
1 AG
699882 CACCCTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (30 bp):
AGGGCCCCTAATTTATTTATATTTATAATT
Found at i:704310 original size:30 final size:30
Alignment explanation
Indices: 704270--704328 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
704260 GAACCGACGG
*
704270 TTCACACCGATTTTATCGGTTTTCAGCCGA
1 TTCACACCGATTTTACCGGTTTTCAGCCGA
* *
704300 TTCACCCCGATTTTGCCGGTTTTCAGCCG
1 TTCACACCGATTTTACCGGTTTTCAGCCG
704329 GTTCTACCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.36
Consensus pattern (30 bp):
TTCACACCGATTTTACCGGTTTTCAGCCGA
Found at i:706438 original size:186 final size:184
Alignment explanation
Indices: 706230--706618 Score: 622
Period size: 186 Copynumber: 2.1 Consensus size: 184
706220 TAAAATTTTT
* * *
706230 AATATGAAATATATTTTATATAACATATGGGCTCAACCCAAATCATTTAAAACTCAATTAATAAT
1 AATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAAT
*
706295 TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
66 TTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
*
706360 TATTTTATAATTATATATTATTTAAATTAATTGTAAA-TTATTTTTCCGAATTAAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTT-TTTTT--GAATTAAAA
**
706416 AATATTAAATATATTATATATAACATATGGGCTCAGTCCAAACCATTTAAAACTCAATTAATAAT
1 AATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAAT
* *
706481 TTAATATAGAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
66 TTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
* *
706546 TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTAATTATAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAAA
706600 AATATTTAAAT-T-TTATATA
1 AATA-TTAAATATATTATATA
706619 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
183 7 0.04
184 12 0.06
185 6 0.03
186 163 0.86
187 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (184 bp):
AATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACTCAATTAATAAT
TTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAAA
Found at i:714993 original size:186 final size:185
Alignment explanation
Indices: 714792--715182 Score: 642
Period size: 186 Copynumber: 2.1 Consensus size: 185
714782 ATAAAATTTT
* *
714792 AAATATTAAATATATTTTATATAACATATGAGCTCAACCCAAATCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
*
714857 TTTAAGATCCAATAACTTTTAAACCTAAATCATTATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
714922 TTATTTTATAATTATATATTATTTAAATTAATTTTAAATTGTTTTTCTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTT-TGAATTAAA
* **
714978 AAATATTAAATATATTATATATAACATATGGGCTCAGTCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
* *
715043 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
715108 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTATA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAAA
715163 AAATATTTAAAT-T-TTATATA
1 AAATA-TTAAATATATTATATA
715183 AATTAGAAAA
Statistics
Matches: 192, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
184 7 0.04
185 13 0.07
186 172 0.90
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTGAATTAAA
Found at i:715828 original size:28 final size:28
Alignment explanation
Indices: 715788--715850 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
715778 CTCACACAAG
715788 TTAACTGCACTGTAAATCCAACTTCATA
1 TTAACTGCACTGTAAATCCAACTTCATA
715816 TTAACTGCACTGTAAATCCAACTTCATA
1 TTAACTGCACTGTAAATCCAACTTCATA
*
715844 TTTACTG
1 TTAACTG
715851 AGGAAGCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (28 bp):
TTAACTGCACTGTAAATCCAACTTCATA
Found at i:716948 original size:15 final size:16
Alignment explanation
Indices: 716909--716952 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
716899 TTAGTTTTTT
*
716909 CAAATTCATAATGTACA
1 CAAAATCAT-ATGTACA
716926 CAAAAATCATATGTA-A
1 C-AAAATCATATGTACA
716942 CAAAATCATAT
1 CAAAATCATAT
716953 ATACTTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 6 0.24
18 7 0.28
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (16 bp):
CAAAATCATATGTACA
Found at i:721354 original size:22 final size:21
Alignment explanation
Indices: 721326--721376 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
721316 GATTTAACCT
*
721326 AATTTTTT-TTATGTTTTATTA
1 AATTTTTTGGTAT-TTTTATTA
*
721347 AATGTTTTTGGTATTTTTATTT
1 AAT-TTTTTGGTATTTTTATTA
721369 AATTTTTT
1 AATTTTTT
721377 AAATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 15 0.58
23 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (21 bp):
AATTTTTTGGTATTTTTATTA
Found at i:726976 original size:2 final size:2
Alignment explanation
Indices: 726969--727021 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
726959 ACAGAAAAGG
726969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
727011 AT AT AT AT AT A
1 AT AT AT AT AT A
727022 CTTTAAAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:729503 original size:6 final size:6
Alignment explanation
Indices: 729492--729521 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
729482 TTCATTGAGC
*
729492 TTTCCT TTTCCT TTTCCT TTTCCA TTTCCT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT
729522 CTGATATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTCCT
Found at i:738436 original size:16 final size:15
Alignment explanation
Indices: 738415--738451 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
738405 AGGTTAAATG
738415 ATGTATTTTAATTTTA
1 ATGTATTTTAA-TTTA
738431 ATGTA-TTTAATTTA
1 ATGTATTTTAATTTA
738445 AT-TATTT
1 ATGTATTT
738452 ATCTTCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 8 0.40
15 5 0.25
16 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
ATGTATTTTAATTTA
Found at i:747698 original size:35 final size:35
Alignment explanation
Indices: 747652--747724 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
747642 TCAAAGTAAA
747652 ACTTCAAGATAACTGTGATCAAGGAACTCATTTGC
1 ACTTCAAGATAACTGTGATCAAGGAACTCATTTGC
*
747687 ACTTCAAGATAACTGTGATCAAGGAACTCCTTTGC
1 ACTTCAAGATAACTGTGATCAAGGAACTCATTTGC
747722 ACT
1 ACT
747725 GTCAGTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (35 bp):
ACTTCAAGATAACTGTGATCAAGGAACTCATTTGC
Found at i:747765 original size:29 final size:29
Alignment explanation
Indices: 747733--747825 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
747723 CTGTCAGTAC
747733 CATACAATGTTAAGTTGCAAAGTTAGCAT
1 CATACAATGTTAAGTTGCAAAGTTAGCAT
* *** ** * * *
747762 CATATCACT-TACTCCTTTGCACTGTCAGTAC
1 CATA-CAATGT--TAAGTTGCAAAGTTAGCAT
747793 CATACAATGTTAAGTTGCAAAGTTAGCAT
1 CATACAATGTTAAGTTGCAAAGTTAGCAT
747822 CATA
1 CATA
747826 TCACTTATCA
Statistics
Matches: 42, Mismatches: 18, Indels: 8
0.62 0.26 0.12
Matches are distributed among these distances:
29 20 0.48
30 6 0.14
31 16 0.38
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (29 bp):
CATACAATGTTAAGTTGCAAAGTTAGCAT
Found at i:747780 original size:60 final size:60
Alignment explanation
Indices: 747712--747832 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
747702 TGATCAAGGA
747712 ACTCCTTTGCACTGTCAGTACCATACAATGTTAAGTTGCAAAGTTAGCATCATATCACTT
1 ACTCCTTTGCACTGTCAGTACCATACAATGTTAAGTTGCAAAGTTAGCATCATATCACTT
747772 ACTCCTTTGCACTGTCAGTACCATACAATGTTAAGTTGCAAAGTTAGCATCATATCACTT
1 ACTCCTTTGCACTGTCAGTACCATACAATGTTAAGTTGCAAAGTTAGCATCATATCACTT
747832 A
1 A
747833 TCAATCCCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (60 bp):
ACTCCTTTGCACTGTCAGTACCATACAATGTTAAGTTGCAAAGTTAGCATCATATCACTT
Found at i:751160 original size:22 final size:23
Alignment explanation
Indices: 751135--751185 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
751125 TCTTTTAATT
* *
751135 TATGTTGA-GTACGTTAAATGAA
1 TATGTTGATGAACGTTAAATAAA
*
751157 TATGTTTATGAACGTTAAATAAA
1 TATGTTGATGAACGTTAAATAAA
*
751180 CATGTT
1 TATGTT
751186 CAGAAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (23 bp):
TATGTTGATGAACGTTAAATAAA
Found at i:755000 original size:72 final size:71
Alignment explanation
Indices: 754884--755086 Score: 257
Period size: 72 Copynumber: 2.8 Consensus size: 71
754874 TTAATGCATC
* * *
754884 TAAATTCCCAATCTCTTGGGAATAGAACC-AGTTAATAGGTTTGAATGAAGATCCAAGT-GGCTC
1 TAAATTCCCAATCTCTTGGGAATAGAACCTTG-TAATAGATTTGAATGAAGATCCAAGTAAG-TC
*
754947 AAGTTGGA
64 AACTTGGA
* * ***
754955 TAAATTCCCAATCTGTCTGGGAGTAGAACCTTGTAATAGATTTGAATGAAGCGACAAGTAAGTCA
1 TAAATTCCCAATCTCT-TGGGAATAGAACCTTGTAATAGATTTGAATGAAGATCCAAGTAAGTCA
755020 ACTTGGA
65 ACTTGGA
* *
755027 TAAGTTCCCAATCTCTTGGGGAATAGAACCTTGTAATCGATTTGAATGAAGATCCAAGTA
1 TAAATTCCCAATCTCTT-GGGAATAGAACCTTGTAATAGATTTGAATGAAGATCCAAGTA
755087 TCCCAAGAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
71 16 0.14
72 94 0.84
73 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (71 bp):
TAAATTCCCAATCTCTTGGGAATAGAACCTTGTAATAGATTTGAATGAAGATCCAAGTAAGTCAA
CTTGGA
Found at i:758254 original size:20 final size:20
Alignment explanation
Indices: 758208--758259 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
758198 GAAATAATAA
* * *
758208 AAAAAATATTATTTTTATTC
1 AAAAAATAATAATTTAATTC
*
758228 AATAAAATAATAATTTAATTG
1 AA-AAAATAATAATTTAATTC
758249 AAAAAATAATA
1 AAAAAATAATA
758260 TATATAGAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAAATAATAATTTAATTC
Found at i:763058 original size:29 final size:28
Alignment explanation
Indices: 763021--763105 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
763011 CTCTTTCATT
*
763021 TAAGTACCTAAAGTATTTGTTGGTCAAAA
1 TAAGTACCTAAAGTATTT-TTGATCAAAA
* *
763050 TAAGTACCTAAAATTATTTTTTATCAAAA
1 TAAGTACCT-AAAGTATTTTTGATCAAAA
763079 TAAGTACCTAAAGTATTTTATG-TCAAA
1 TAAGTACCTAAAGTATTTT-TGATCAAA
763106 GTAGATGCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.29
29 27 0.55
30 8 0.16
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
TAAGTACCTAAAGTATTTTTGATCAAAA
Found at i:764515 original size:32 final size:31
Alignment explanation
Indices: 764450--764674 Score: 140
Period size: 32 Copynumber: 7.2 Consensus size: 31
764440 ACCGGAAAAT
* * *
764450 AATAATAATTAAATTTATTAATTTATTATAA
1 AATAATAATTAAATTTAATAAATTATTACAA
*
764481 AATAATCATTAAATTTTAATAAATTATTACAA
1 AATAATAATTAAA-TTTAATAAATTATTACAA
* * * *
764513 AATGATAA-T-AATTAAAAATAATAATTA-AA
1 AATAATAATTAAATTTAATA-AATTATTACAA
** * * *** *
764542 TTTATTAATTTATTAAGTTCCGAGAA-TATTATAA
1 AATAATAA-TTA--AATTTAATA-AATTATTACAA
764576 TAATAATAA-TAAATTT-ATAAGATTATTA-AA
1 -AATAATAATTAAATTTAATAA-ATTATTACAA
* * *
764606 AATAATAATTAAATTTATTAATTTATTATAA
1 AATAATAATTAAATTTAATAAATTATTACAA
*
764637 AATAATCATTAAATTTTAATAAATTATTACAA
1 AATAATAATTAAA-TTTAATAAATTATTACAA
764669 AATAAT
1 AATAAT
764675 TAATAAAGTC
Statistics
Matches: 147, Mismatches: 32, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
29 20 0.14
30 26 0.18
31 40 0.27
32 42 0.29
33 6 0.04
34 8 0.05
35 5 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (31 bp):
AATAATAATTAAATTTAATAAATTATTACAA
Found at i:764535 original size:13 final size:13
Alignment explanation
Indices: 764517--764541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
764507 TTACAAAATG
764517 ATAATAATTAAAA
1 ATAATAATTAAAA
764530 ATAATAATTAAA
1 ATAATAATTAAA
764542 TTTATTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATTAAAA
Found at i:772072 original size:10 final size:10
Alignment explanation
Indices: 772043--772082 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
772033 TTGTTATTTT
772043 TAAAATATTTA
1 TAAAATA-TTA
*
772054 AATAAATATTA
1 TA-AAATATTA
772065 TAAAATATTA
1 TAAAATATTA
772075 TAAAATAT
1 TAAAATAT
772083 CAAAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 16 0.62
11 5 0.19
12 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAATATTA
Found at i:783791 original size:60 final size:60
Alignment explanation
Indices: 783712--783863 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 60
783702 TTAGATAAAC
* * * * *
783712 TATAGCTT-GGGATGAAATTAGAATGTTCAAAAAGCTTG-GGA-TCAATTTAGAATGA-AGGT
1 TATAGTTTAGGGATAAAATTAAAATATTCAAAAA-CTTGAGGACT-AATTTAAAATGATA-GT
*
783771 TATAGTTTAGGGATAAAATTAAAATATTCAAAAATTTGAGGACTAATTTAAAATGATAGT
1 TATAGTTTAGGGATAAAATTAAAATATTCAAAAACTTGAGGACTAATTTAAAATGATAGT
* * * *
783831 CATAGTTTAGGGATGATATTAAAATATTTAAAA
1 TATAGTTTAGGGATAAAATTAAAATATTCAAAA
783864 TTTAGGGGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
59 10 0.13
60 67 0.85
61 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.34
Consensus pattern (60 bp):
TATAGTTTAGGGATAAAATTAAAATATTCAAAAACTTGAGGACTAATTTAAAATGATAGT
Found at i:784051 original size:20 final size:20
Alignment explanation
Indices: 784026--784063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
784016 TTACTAATTG
784026 AATTTTATATAAATATTAAT
1 AATTTTATATAAATATTAAT
* *
784046 AATTTTATTTATATATTA
1 AATTTTATATAAATATTA
784064 TATTAACTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTATATAAATATTAAT
Found at i:784055 original size:25 final size:25
Alignment explanation
Indices: 784010--784069 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
784000 AATAATTGTA
*
784010 ATAATATTACTAATTGAATTT-TAT
1 ATAATATTAATAATTGAATTTATAT
**
784034 ATAAATATTAATAATTTTATTTATAT
1 AT-AATATTAATAATTGAATTTATAT
*
784060 ATTATATTAA
1 ATAATATTAA
784070 CTAGTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 23 0.77
26 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAATATTAATAATTGAATTTATAT
Found at i:784838 original size:29 final size:30
Alignment explanation
Indices: 784779--784874 Score: 106
Period size: 29 Copynumber: 3.1 Consensus size: 30
784769 AAAAAAATTG
*
784779 AATACTTTAGGTATCTATTTTGATC-AAAA
1 AATACTTTAGGTACCTATTTTGATCAAAAA
784808 AATACTTTAGGTACCTATTTTGA-CAAAAAAAA
1 AATACTTTAGGTACCTATTTTGATC---AAAAA
* *
784840 AGATAACTTTAGATACTTATTTTGATCAAAAA
1 A-AT-ACTTTAGGTACCTATTTTGATCAAAAA
784872 AAT
1 AAT
784875 TTATACTTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 1 0.02
29 22 0.39
31 2 0.04
32 11 0.19
33 2 0.04
34 18 0.32
35 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (30 bp):
AATACTTTAGGTACCTATTTTGATCAAAAA
Found at i:786983 original size:59 final size:59
Alignment explanation
Indices: 786920--787032 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 59
786910 GATGAAATCA
*
786920 AAATGATCAAAAAATT-AGAGACCAATTTAG-ATGA-AGGTCATAGTTTGAGGATGAAAATG
1 AAATGATC-AAAAATTGAGA-ACCAATTTAGAATGATA-GTCATAGTTTAAGGATGAAAATG
* * * *
786979 AAATGCTCAAAAGTTGAGAACTAATTTAGAATGATATTCATAGTTTAAGGATGA
1 AAATGATCAAAAATTGAGAACCAATTTAGAATGATAGTCATAGTTTAAGGATGA
787033 CATTAGAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
58 15 0.33
59 30 0.65
60 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.28
Consensus pattern (59 bp):
AAATGATCAAAAATTGAGAACCAATTTAGAATGATAGTCATAGTTTAAGGATGAAAATG
Found at i:788868 original size:14 final size:14
Alignment explanation
Indices: 788849--788885 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
788839 TTCTGCATAA
788849 GGACAGCTGGCACT
1 GGACAGCTGGCACT
788863 GGACAGCTGGCACT
1 GGACAGCTGGCACT
788877 GGACAGCTG
1 GGACAGCTG
788886 TCTCTGCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.38, T:0.14
Consensus pattern (14 bp):
GGACAGCTGGCACT
Found at i:798887 original size:171 final size:172
Alignment explanation
Indices: 798602--798945 Score: 672
Period size: 171 Copynumber: 2.0 Consensus size: 172
798592 CATGACATTA
798602 TGCTTATGTAACTGCTATCCATTGCTTGAGGACAAGCAATAGCTTAAGTTTGGGGGTGTGTTAAC
1 TGCTTATGTAACTGCTATCCATTGCTTGAGGACAAGCAATAGCTTAAGTTTGGGGGTGTGTTAAC
798667 TTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGCTCATTTT
66 TTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGCTCATTTT
798732 AGTCA-TTTAGGATCATATAGTTGCAGTTGTGGTGGTTGTAC
131 AGTCATTTTAGGATCATATAGTTGCAGTTGTGGTGGTTGTAC
798773 TGCTTATGTAACTGCTATCCATTGCTTGAGGACAAGCAATAGCTTAAGTTTGGGGGTGTGTTAAC
1 TGCTTATGTAACTGCTATCCATTGCTTGAGGACAAGCAATAGCTTAAGTTTGGGGGTGTGTTAAC
798838 TTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGCTCATTTT
66 TTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGCTCATTTT
*
798903 AGTCATTTTAGGATCATATAGTTGCATTTGTGGTGGTTGTAC
131 AGTCATTTTAGGATCATATAGTTGCAGTTGTGGTGGTTGTAC
798945 T
1 T
798946 ATTTTATTTC
Statistics
Matches: 171, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
171 135 0.79
172 36 0.21
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (172 bp):
TGCTTATGTAACTGCTATCCATTGCTTGAGGACAAGCAATAGCTTAAGTTTGGGGGTGTGTTAAC
TTCCTAAAAAGGCTACTTTTAAAGCCTTTTTCACTTAAGTTATTGTTTGTTTAAAAGCTCATTTT
AGTCATTTTAGGATCATATAGTTGCAGTTGTGGTGGTTGTAC
Found at i:800196 original size:17 final size:16
Alignment explanation
Indices: 800165--800198 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
800155 CACGTGAGGA
800165 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
800181 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
800198 T
1 T
800199 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:802086 original size:22 final size:22
Alignment explanation
Indices: 802061--802103 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
802051 GTGATTAGAT
802061 TGATATAATTTA-AATAATTAAG
1 TGATATAATTTATAA-AATTAAG
* *
802083 TGATTTGATTTATAAAATTAA
1 TGATATAATTTATAAAATTAA
802104 AAAAATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
TGATATAATTTATAAAATTAAG
Found at i:805822 original size:18 final size:18
Alignment explanation
Indices: 805801--805836 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
805791 TGAAGAGTAG
805801 CATTTGATAAAGACTCGA
1 CATTTGATAAAGACTCGA
*
805819 CATTTGATAAAGATTCGA
1 CATTTGATAAAGACTCGA
805837 TCGTGAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
CATTTGATAAAGACTCGA
Found at i:811495 original size:54 final size:54
Alignment explanation
Indices: 811413--811526 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
811403 CTAATCTATT
* * *
811413 TCATTCGCGACGTTAGTATTCGAATTCATGATATTATTGAGGGATTCCAACGTC
1 TCATTCGCGACGTTAATATTCGAATTCATGATATTATTAAGGGATCCCAACGTC
811467 TCATTCGCGACGTTAATATTCGAATTCATGATATTATTAAGGGATCCCAACGTC
1 TCATTCGCGACGTTAATATTCGAATTCATGATATTATTAAGGGATCCCAACGTC
811521 TCATTC
1 TCATTC
811527 CACTATATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
TCATTCGCGACGTTAATATTCGAATTCATGATATTATTAAGGGATCCCAACGTC
Found at i:813393 original size:21 final size:21
Alignment explanation
Indices: 813367--813418 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
813357 GTTATAGTAA
* *
813367 TGACGTGTCAGTTTACAGTGC
1 TGACGTGACAGTTCACAGTGC
*
813388 TGACGTGACAGTTCACGGTGC
1 TGACGTGACAGTTCACAGTGC
*
813409 TGACGGGACA
1 TGACGTGACA
813419 ATCCATAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (21 bp):
TGACGTGACAGTTCACAGTGC
Found at i:814344 original size:30 final size:30
Alignment explanation
Indices: 814296--814389 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
814286 ATCGGCGGAT
* *
814296 TAGGCGGTTTGGGCGGCGGAGTTGGAGGTG
1 TAGGCGGTTTAGGCGGCGGAGTTGGAGGTC
* * * *
814326 TAGGTGGTTTAGGAGGCGGGGTTGGTGGTC
1 TAGGCGGTTTAGGCGGCGGAGTTGGAGGTC
* * *
814356 TAGGCGGCTTAGGCGGCGGAGTTGGCGGTT
1 TAGGCGGTTTAGGCGGCGGAGTTGGAGGTC
814386 TAGG
1 TAGG
814390 AGGCGGAACT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.11, C:0.11, G:0.53, T:0.26
Consensus pattern (30 bp):
TAGGCGGTTTAGGCGGCGGAGTTGGAGGTC
Found at i:814402 original size:21 final size:21
Alignment explanation
Indices: 814358--814404 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
814348 TGGTGGTCTA
* **
814358 GGCGGCTTAGGCGGCGGAGTT
1 GGCGGCTTAGGAGGCGGAACT
*
814379 GGCGGTTTAGGAGGCGGAACT
1 GGCGGCTTAGGAGGCGGAACT
814400 GGCGG
1 GGCGG
814405 AGGAGTTGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.53, T:0.17
Consensus pattern (21 bp):
GGCGGCTTAGGAGGCGGAACT
Found at i:814419 original size:42 final size:42
Alignment explanation
Indices: 814373--814458 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
814363 CTTAGGCGGC
* * *
814373 GGAGTTGGCGGTTTAGGAGGCGGAACTGGCGGAGGAGTTGGG
1 GGAGTAGGCGGTCTAGGAGGCCGAACTGGCGGAGGAGTTGGG
* * * *
814415 GGAGTAGGTGGTCTAGGCGGCCGAACTGGTGGCGGAGTTGGG
1 GGAGTAGGCGGTCTAGGAGGCCGAACTGGCGGAGGAGTTGGG
814457 GG
1 GG
814459 TCTAGATGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.15, C:0.12, G:0.55, T:0.19
Consensus pattern (42 bp):
GGAGTAGGCGGTCTAGGAGGCCGAACTGGCGGAGGAGTTGGG
Found at i:823981 original size:2 final size:2
Alignment explanation
Indices: 823974--824002 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
823964 ACCTTAGCAA
823974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
824003 GAAAAGTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:829784 original size:2 final size:2
Alignment explanation
Indices: 829779--829808 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
829769 ATATATATAT
829779 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
829809 TGGTACCTCA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:834800 original size:26 final size:26
Alignment explanation
Indices: 834771--834825 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
834761 GAAAAAGTCA
834771 ATAAAAGAACCATTTTCACAAACAAC
1 ATAAAAGAACCATTTTCACAAACAAC
834797 ATAAAAGAACCATTTTCACAAACAAC
1 ATAAAAGAACCATTTTCACAAACAAC
834823 ATA
1 ATA
834826 TGAAAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.22, G:0.04, T:0.20
Consensus pattern (26 bp):
ATAAAAGAACCATTTTCACAAACAAC
Found at i:837484 original size:28 final size:26
Alignment explanation
Indices: 837457--837509 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
837447 ATTGTAGGCA
837457 CAATC-CAAGTACAATTATACAAAAGG
1 CAATCACAA-TACAATTATACAAAAGG
837483 CAATCGAACAATACAATTATACAAAAG
1 CAATC--ACAATACAATTATACAAAAG
837510 CCAACCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.21
28 16 0.67
29 3 0.12
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (26 bp):
CAATCACAATACAATTATACAAAAGG
Found at i:837583 original size:23 final size:23
Alignment explanation
Indices: 837553--837598 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
837543 TAACTTATTA
837553 AACTATGTAAAAAGTGCAGCTTC
1 AACTATGTAAAAAGTGCAGCTTC
837576 AACTATGTAAAAAGTGCAGCTTC
1 AACTATGTAAAAAGTGCAGCTTC
837599 CCAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (23 bp):
AACTATGTAAAAAGTGCAGCTTC
Found at i:843878 original size:18 final size:18
Alignment explanation
Indices: 843855--843892 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
843845 AGGTGGTCGT
*
843855 ATCCTCTAAAAATTTCTA
1 ATCCTCTAAAAACTTCTA
843873 ATCCTCTAAAAACTTCTA
1 ATCCTCTAAAAACTTCTA
843891 AT
1 AT
843893 ATAAGTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (18 bp):
ATCCTCTAAAAACTTCTA
Found at i:844815 original size:22 final size:22
Alignment explanation
Indices: 844787--844828 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
844777 CAAAGAGGTT
844787 TTATATT-TAATTTAATTTTATA
1 TTATATTAT-ATTTAATTTTATA
*
844809 TTATATTATATTTGATTTTA
1 TTATATTATATTTAATTTTA
844829 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATATTATATTTAATTTTATA
Found at i:844849 original size:14 final size:14
Alignment explanation
Indices: 844830--844878 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
844820 TTGATTTTAA
844830 TTTTAATATTAATT
1 TTTTAATATTAATT
844844 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
844854 ATTAAATATTAATT
1 TTTTAATATTAATT
844868 TTTTAATATTA
1 TTTTAATATTA
844879 TATTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.15
11 1 0.04
12 6 0.22
13 1 0.04
14 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:844954 original size:20 final size:19
Alignment explanation
Indices: 844894--844955 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
844884 TAGATATTTA
*
844894 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
844913 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
844931 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
844951 ATTTT
1 ATTTT
844956 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:845306 original size:62 final size:57
Alignment explanation
Indices: 845240--845361 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
845230 TGAATATATA
*
845240 TTTAAAAAAATTAAAAGTATTACATAATTGCA-TATTTAATAATAGTTTAATGATAATTAATG
1 TTTAAAAAAA-TAAAAGT-GT--ATAATT-CATTA-TTAATAATAGTTTAATGATAATTAATG
* * *
845302 TTTAAAAAAATAGAGGTGTATGATTCATTGATTAATAATAGTTTAATGATAATTAATG
1 TTTAAAAAAATAAAAGTGTATAATTCATT-ATTAATAATAGTTTAATGATAATTAATG
845360 TT
1 TT
845362 GTTGTGCCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
57 2 0.04
58 35 0.65
59 1 0.02
60 1 0.02
61 5 0.09
62 10 0.19
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (57 bp):
TTTAAAAAAATAAAAGTGTATAATTCATTATTAATAATAGTTTAATGATAATTAATG
Found at i:845604 original size:31 final size:31
Alignment explanation
Indices: 845567--845626 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
845557 TAGTTGTATG
* *
845567 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
845598 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
845627 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:846382 original size:60 final size:59
Alignment explanation
Indices: 846243--846411 Score: 153
Period size: 60 Copynumber: 2.8 Consensus size: 59
846233 CATCTCCAAT
* * * * ** *
846243 CTATAACCCTTATTTTAAATTAGTCTCTAAACTGTTAAACA-TTCAATTTCATCCTTACA
1 CTATAA-CTTTATTTTAAATTAGTCTCAAAACTTTTGAACATTTCAATTTCATCCACAAA
* * *
846302 CTATGACTATCATTTTAAATTAGTTCTC-AAACTTTTGAACATTTCATTTTCATCCACAAA
1 CTATAACT-TTATTTTAAATTAG-TCTCAAAACTTTTGAACATTTCAATTTCATCCACAAA
* * * *
846362 CTATAATCTTTATTCTAAATTGGTCCCAAAACTTTTTGAATATTTCAATT
1 CTATAA-CTTTATTTTAAATTAGTCTCAAAAC-TTTTGAACATTTCAATT
846412 CTATCCTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
58 1 0.01
59 32 0.36
60 38 0.43
61 17 0.19
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (59 bp):
CTATAACTTTATTTTAAATTAGTCTCAAAACTTTTGAACATTTCAATTTCATCCACAAA
Found at i:865902 original size:22 final size:22
Alignment explanation
Indices: 865874--865926 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
865864 TATAGATACA
865874 ATAAAATTTTAGGATGGGCACG
1 ATAAAATTTTAGGATGGGCACG
*
865896 ATAAAATTTTAGGATGGGTACG
1 ATAAAATTTTAGGATGGGCACG
865918 ATAAAATTT
1 ATAAAATTT
865927 CAGGGGACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (22 bp):
ATAAAATTTTAGGATGGGCACG
Found at i:865982 original size:20 final size:22
Alignment explanation
Indices: 865944--865983 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
865934 CACACATATA
*
865944 TTAAGAGAAAAAACTTCAAATT
1 TTAAGAGAAAAAACATCAAATT
865966 TTAAGA-AAAAAA-ATCAAA
1 TTAAGAGAAAAAACATCAAA
865984 CTATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
TTAAGAGAAAAAACATCAAATT
Found at i:867812 original size:20 final size:21
Alignment explanation
Indices: 867766--867812 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
867756 AATCATTTCC
867766 ATTTAATATTTTCATAATCAA
1 ATTTAATATTTTCATAATCAA
* * *
867787 A-ATAATATTTT-TTATTCAA
1 ATTTAATATTTTCATAATCAA
867806 ATTTAAT
1 ATTTAAT
867813 GATAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.33
20 13 0.62
21 1 0.05
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAATATTTTCATAATCAA
Done.