Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1560
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: 123219
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:6740 original size:49 final size:48
Alignment explanation
Indices: 6565--7048 Score: 733
Period size: 47 Copynumber: 10.3 Consensus size: 48
6555 AGAGAGCGTA
6565 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
6612 TGTA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
6657 TGTATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
6704 GTATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 -TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
6753 ATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-
1 -TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
6800 TATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
6846 ATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 -TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
6894 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-
1 -TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
6942 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
6989 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA-
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
7036 TAAATGTGATAAG
1 TATATGTGATAAG
7049 TCCCGAAGGG
Statistics
Matches: 409, Mismatches: 17, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
44 4 0.01
45 81 0.20
46 43 0.11
47 104 0.25
48 89 0.22
49 88 0.22
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (48 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:6839 original size:93 final size:94
Alignment explanation
Indices: 6563--7048 Score: 722
Period size: 93 Copynumber: 5.2 Consensus size: 94
6553 CAAGAGAGCG
*
6563 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGATAAGGCCTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTA
6628 ATGGCCGATGTGATGAATGTGAAAGTG--
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
* *
6655 TATGTATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--TATA--TGATAAGG
6719 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
62 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
6752 TATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTA
6816 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
*
6845 TATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--TGATAAGG
6909 CCTAATGGCCGATGTGATGAATGTGAAAGTG--
62 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
6940 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG-TGACAGGGC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAT-A-A-GGC
* * * * *
7004 CGAGTGGCCAACGTGATGGATGTGAAAGTGTA
63 CTAATGGCCGATGTGATGAATGTGAAAGTGTA
7036 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
7049 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 12, Indels: 32
0.89 0.03 0.08
Matches are distributed among these distances:
91 40 0.11
92 11 0.03
93 89 0.24
94 44 0.12
95 61 0.17
96 36 0.10
97 82 0.22
98 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:6855 original size:142 final size:142
Alignment explanation
Indices: 6563--7046 Score: 770
Period size: 142 Copynumber: 3.4 Consensus size: 142
6553 CAAGAGAGCG
* *
6563 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATGTA--TGATAAGG
1 TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGG
*
6624 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTATAAGGCCTAATGGCCGATGTGATG
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG-ATAAGGCCTAATGGCCGATGTGATG
6689 AATGTGAAAGTGTA
129 AATGTGAAAGTGTA
*
6703 TGTATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGC
1 TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGC
6768 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAA
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAA
6833 TGTGAAAGTGTA
131 TGTGAAAGTGTA
6845 TATATATGTGATA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGG
1 TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA-GG
6909 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGAT
6974 GAATGTGAAAGTG--
128 GAATGTGAAAGTGTA
* * * * * *
6987 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
7047 AGTCCCGAAG
Statistics
Matches: 325, Mismatches: 11, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
140 45 0.14
141 56 0.17
142 108 0.33
143 73 0.22
144 43 0.13
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (142 bp):
TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTA
Found at i:7222 original size:36 final size:37
Alignment explanation
Indices: 7167--7244 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
7157 CCGAGGTCTA
* *
7167 AAGACCCGATGACTACGTGTGGGGATT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
7203 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
7240 AAGAC
1 AAGAC
7245 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 24 0.63
37 14 0.37
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15385 original size:17 final size:18
Alignment explanation
Indices: 15351--15396 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
15341 CCGTTATGTC
15351 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
15366 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
15383 CGCGACCGCGACCG
1 CGCGACCGCGACCG
15397 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:25389 original size:12 final size:13
Alignment explanation
Indices: 25365--25391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25355 AAAATAGTAT
25365 AAAGCTAAAAAAA
1 AAAGCTAAAAAAA
25378 AAAGCTAAAAAAA
1 AAAGCTAAAAAAA
25391 A
1 A
25392 GGCAGCAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAGCTAAAAAAA
Found at i:25598 original size:14 final size:14
Alignment explanation
Indices: 25579--25639 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
25569 CTCCTTCGGG
25579 AAGAAAGGAAAGAA
1 AAGAAAGGAAAGAA
*
25593 AAGAAAGGAGAGAA
1 AAGAAAGGAAAGAA
25607 AAGAAA-GAAGAGAA
1 AAGAAAGGAA-AGAA
*
25621 GAAGAAAAG-AAGAA
1 -AAGAAAGGAAAGAA
25635 AAGAA
1 AAGAA
25640 GAGAAGAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.17
14 27 0.64
15 7 0.17
16 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAGAAAGGAAAGAA
Found at i:25623 original size:3 final size:3
Alignment explanation
Indices: 25611--25654 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
25601 AGAGAAAAGA
25611 AAG AAG -AG AAG AAG AA- AAG AAG AA- AAG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25655 GAGCAACCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25624 original size:8 final size:8
Alignment explanation
Indices: 25589--25654 Score: 68
Period size: 8 Copynumber: 8.6 Consensus size: 8
25579 AAGAAAGGAA
25589 AGAA-AAG
1 AGAAGAAG
*
25596 A-AAGGAG
1 AGAAGAAG
25603 AGAA-AAG
1 AGAAGAAG
25610 A-AAGAAG
1 AGAAGAAG
25617 AGAAGAAG
1 AGAAGAAG
*
25625 AAAAGAAG
1 AGAAGAAG
*
25633 AAAAGAAG
1 AGAAGAAG
25641 AGAAGAAG
1 AGAAGAAG
25649 AAGAAG
1 -AGAAG
25655 GAGCAACCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
6 4 0.08
7 11 0.22
8 30 0.60
9 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:25651 original size:19 final size:18
Alignment explanation
Indices: 25596--25653 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
25586 GAAAGAAAAG
*
25596 AAAGGAGAGAAAAGAAAGA
1 AAAGAAGAGAAAAG-AAGA
*
25615 AGAGAAGAAGAAAAGAAGA
1 AAAGAAG-AGAAAAGAAGA
25634 AAAGAAGAGAAGAAGAAGA
1 AAAGAAGAGAA-AAGAAGA
25653 A
1 A
25654 GGAGCAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.12
19 23 0.68
20 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAAGAAGAGAAAAGAAGA
Found at i:25824 original size:11 final size:11
Alignment explanation
Indices: 25792--25824 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25782 TATTATTGTT
25792 GATTTGAATTT-
1 GATTT-AATTTA
25803 GATTTAATTTA
1 GATTTAATTTA
25814 GATTTAATTTA
1 GATTTAATTTA
25825 TAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (11 bp):
GATTTAATTTA
Found at i:26265 original size:138 final size:137
Alignment explanation
Indices: 26089--27104 Score: 1614
Period size: 138 Copynumber: 7.4 Consensus size: 137
26079 AAATAGTATA
* * *
26089 AAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAAATAAAATCCAAAAGTTTTA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCCAATA-TTTTA
* * * *
26154 AAAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTAAAACA
64 GAAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACA
26219 TTATGTACT
129 TTATGTACT
26228 AAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AATATTTTAG
*
26292 AAATACAAACAAAGGGTCAAAATCAGGGTTATTTTAAAAACAC-----TAA-ACATTTGAAACAT
65 AAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
26351 TATGTACT
130 TATGTACT
*
26359 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCTAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TCCAATATTTTAG
* *
26424 AAATACAAACAAAGGGACAAAATTAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
65 AAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
26489 TATGTACT
130 TATGTACT
*
26497 TAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AATATTTTAG
* *
26562 AAATATAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACAGTAAAATAATACATTTGAAACAT
65 AAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
26627 TATGTACT
130 TATGTACT
* *
26635 AAAATAAAATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAGAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AATATTTTAG
* *
26700 AAATATAAACAAAGTGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
65 AAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
26765 TATGTACT
130 TATGTACT
* *
26773 AAAATAAGATAAAAAAATAAAATACGAAAAATAGTATATTTTAAAAAATAAAATCTGAATATTCT
1 AAAATAAGAT-AAAAAATAAAATACG-AAAATAGTATATTTTAAAAAATAAAATC-CAATATTTT
* * *
26838 AAAAATACAAACAAAGGGAAAAAATCGGGGTTATTTTAAAAACACTAAAATAATACATTTGAAAC
63 AGAAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAAC
26903 ATTATGTACT
128 ATTATGTACT
26913 AAAATAAGATAAAAAATAAAATACGAAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
1 AAAATAAGATAAAAAATAAAATACG-AAAATAGTATATTTTAAAAAATAAAATCC-AATATTTTA
* * * *
26978 GAAATACAAACAAATGGACAAAATCAGAGTTTTTTTAAAAACACTAAATTAATACATTTGAAACA
64 GAAATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACA
27043 TTATGTACT
129 TTATGTACT
* * *
27052 AAAATAAGATAAAAAATAAAATTCGGAAATAGTATATTTTAAAAAATAGAATC
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC
27105 TGAAAATTTT
Statistics
Matches: 818, Mismatches: 45, Indels: 29
0.92 0.05 0.03
Matches are distributed among these distances:
131 30 0.04
132 93 0.11
133 2 0.00
137 64 0.08
138 348 0.43
139 167 0.20
140 114 0.14
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.28
Consensus pattern (137 bp):
AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAATATTTTAGA
AATACAAACAAAGGGACAAAATCAGGGTTATTTTAAAAACACTAAAATAATACATTTGAAACATT
ATGTACT
Found at i:29250 original size:72 final size:72
Alignment explanation
Indices: 29153--29293 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
29143 AGTCTGAGCG
* * *
29153 ATCGTATTCATATTCGGCTAATACTTCTTATCATCCGAATTT-CCAGAGCAATGACTATTTACCG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCGAATTTACC-GAGCAATGACTATTTACCG
29217 GGCTCGTC
65 GGCTCGTC
* * * *
29225 ATCGCATTCACATTCGGCCGATACTTCTTATCATCCGGATTTACCGGGCAATGACTATTTCCCGG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCGAATTTACCGAGCAATGACTATTTACCGG
29290 GCTC
66 GCTC
29294 ATCAGGGGGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 59 0.97
73 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (72 bp):
ATCGCATTCACATTCGGCCAATACTTCTTATCATCCGAATTTACCGAGCAATGACTATTTACCGG
GCTCGTC
Found at i:33790 original size:25 final size:25
Alignment explanation
Indices: 33756--33807 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
33746 TTAATTTATA
33756 TAAAATAAAAGTTTGGTTGCTACAC
1 TAAAATAAAAGTTTGGTTGCTACAC
33781 TAAAATAAAAGTTTGGTTGCTACAC
1 TAAAATAAAAGTTTGGTTGCTACAC
33806 TA
1 TA
33808 TTACTACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (25 bp):
TAAAATAAAAGTTTGGTTGCTACAC
Found at i:35883 original size:19 final size:19
Alignment explanation
Indices: 35859--35901 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35849 CTCCAATAGT
*
35859 AAAAAAAATTGAAAAA-GAA
1 AAAAAAAACT-AAAAACGAA
*
35878 AAAAAACACTAAAAACGAA
1 AAAAAAAACTAAAAACGAA
35897 AAAAA
1 AAAAA
35902 TAAAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAAAAAACTAAAAACGAA
Found at i:36081 original size:3 final size:3
Alignment explanation
Indices: 36073--36131 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
36063 GGAACAAAGG
* *
36073 AGA AGA AGA AGA AAA AGA GAGA AGA AGG A-A AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
36117 AGAA AGA AAA AGA AG
1 AG-A AGA AGA AGA AG
36132 GAGAGGAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:36097 original size:16 final size:18
Alignment explanation
Indices: 36072--36124 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
36062 GGGAACAAAG
36072 GAGAAGAAGAAGAAA-AA
1 GAGAAGAAGAAGAAAGAA
36089 GAG-AGAAGAAGGAAAGAA
1 GAGAAGAAGAA-GAAAGAA
36107 GAGAAGAAGAAGAAAGAA
1 GAGAAGAAGAAGAAAGAA
36125 AAAGAAGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.21
17 7 0.21
18 12 0.36
19 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
GAGAAGAAGAAGAAAGAA
Found at i:36129 original size:16 final size:17
Alignment explanation
Indices: 36075--36131 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
36065 AACAAAGGAG
36075 AAGAAGAAGAAA-AAGA
1 AAGAAGAAGAAAGAAGA
*
36091 GAGAAGAAGGAAAGAAGA
1 AAGAAGAA-GAAAGAAGA
36109 GAAGAAGAAGAAAGAA-A
1 -AAGAAGAAGAAAGAAGA
36126 AAGAAG
1 AAGAAG
36132 GAGAGGAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 11 0.31
19 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGAAGA
Found at i:36130 original size:19 final size:19
Alignment explanation
Indices: 36068--36131 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
36058 TTTTGGGAAC
*
36068 AAAGGAGAAGAAG-AAGAA
1 AAAGAAGAAGAAGAAAGAA
36086 AAAGAGAGAAGAAGGAAAG-A
1 AAAGA-AGAAGAA-GAAAGAA
*
36106 AGAGAAGAAGAAGAAAGAA
1 AAAGAAGAAGAAGAAAGAA
36125 AAAGAAG
1 AAAGAAG
36132 GAGAGGAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.23
19 21 0.54
20 6 0.15
21 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AAAGAAGAAGAAGAAAGAA
Found at i:36206 original size:3 final size:3
Alignment explanation
Indices: 36162--36215 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
36152 GGCGGTTGAG
* * * *
36162 AGA AGA A-A A-A AGA AAA AGA AAA AGA AAA AG- AGA AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
36207 AGA AGA AGA
1 AGA AGA AGA
36216 GGGAAGGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:36229 original size:20 final size:18
Alignment explanation
Indices: 36161--36242 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 18
36151 CGGCGGTTGA
*
36161 GAGAAGAAAAAAGAAAAAG
1 GAGAAG-AAAAAGAAGAAG
* *
36180 AAAAAGAAAAAG-AGAAG
1 GAGAAGAAAAAGAAGAAG
*
36197 GAGAAGAAGAAGAAGAAG
1 GAGAAGAAAAAGAAGAAG
* *
36215 AGGGAAG-GAAA-AAGAAG
1 -GAGAAGAAAAAGAAGAAG
36232 GA-AAGAAAAAG
1 GAGAAGAAAAAG
36243 GTATTTTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.06
16 4 0.08
17 19 0.40
18 13 0.27
19 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GAGAAGAAAAAGAAGAAG
Found at i:36229 original size:23 final size:24
Alignment explanation
Indices: 36173--36242 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
36163 GAAGAAAAAA
*
36173 GAAAAAGAAAAAGAAAAAGAGAAG
1 GAAAAAGAAGAAGAAAAAGAGAAG
* *
36197 GAGAAGAAGAAGAAG-AAGAGGGAAG
1 GA-AA-AAGAAGAAGAAAAAGAGAAG
36222 GAAAAAGAAGGAAAGAAAAAG
1 GAAAAAGAA-G-AAGAAAAAG
36243 GTATTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 5 0.14
24 5 0.14
25 15 0.41
26 12 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAGAAGAAAAAGAGAAG
Found at i:36234 original size:14 final size:13
Alignment explanation
Indices: 36164--36242 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 13
36154 CGGTTGAGAG
*
36164 AAGAAAAAAGAAA
1 AAGAAGAAAGAAA
36177 AAGAA-AAAGAAA
1 AAGAAGAAAGAAA
* *
36189 AAG-AG-AAGGAG
1 AAGAAGAAAGAAA
*
36200 AAGAAG-AAGAAG
1 AAGAAGAAAGAAA
* *
36212 AAGAGGGAAGGAAA
1 AAGA-AGAAAGAAA
36226 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
36240 AAG
1 AAG
36243 GTATTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
11 8 0.15
12 21 0.40
13 6 0.11
14 18 0.34
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:36837 original size:130 final size:128
Alignment explanation
Indices: 36712--36973 Score: 312
Period size: 131 Copynumber: 2.0 Consensus size: 128
36702 ATAAAATATG
* * *
36712 AAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAGGTGCCAAAGTCA-
1 AAAATAATATATTTTAAAAAAT--AAT--GAAAA-AAAAAAATACGAACAAAGTGCCAAAATCAG
*
36776 GGTTATTTATTAAATTAATATAAAAA-AATTAAATAATACATTTGAAAGATTTTATGCTAAAATA
61 GGTTATTTATTAAA-AAATATAAAAACAATTAAATAATACATTTGAAAGATTTTATGCTAAAAT-
36840 AAATACC
124 -AATA-C
* * * *
36847 AAAATAATATATTTTAAAAAATAATGTACAAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTA
1 AAAATAATATATTTTAAAAAATAATGAAAAAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
* * * * *
36912 TTTATTAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
66 TTTATTAAAAAATATAAAAACAATTAAATAATACATTTGAAAGATTTTATGCTAAAATAATA
36974 TAAAGAAATA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
129 4 0.04
130 35 0.31
131 49 0.44
133 3 0.03
135 21 0.19
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (128 bp):
AAAATAATATATTTTAAAAAATAATGAAAAAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTA
TTTATTAAAAAATATAAAAACAATTAAATAATACATTTGAAAGATTTTATGCTAAAATAATAC
Found at i:36967 original size:131 final size:133
Alignment explanation
Indices: 36699--37266 Score: 459
Period size: 144 Copynumber: 4.1 Consensus size: 133
36689 ATAATATAAA
* * * * * *
36699 AAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAG
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT----ACATAAAAAAATACGAATAAA
* * * * *
36764 GTGCCAAAGTCA-GGTTATTTATTAAATTAATATAAAAA-AATTAAATAATACATTTGAAAGATT
62 GTGCTAAAATCAGGGTTATTTATTAAATAAATATAAAAACACTTAAATAATACATTTGAAACATT
* * *
36827 TTATGCT
127 ATGTACT
* *
36834 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATGTACA-AAAAAAATACGAATAAAGTGC
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACATAAAAAAATACGAATAAAGTGC
36898 TAAAATCAGGGTTATTTATTAAA-AAATATAAAAACACTTAAATAATACATTTGAAACATTATGT
66 TAAAATCAGGGTTATTTATTAAATAAATATAAAAACACTTAAATAATACATTTGAAACATTATGT
36962 ACTAAAATAATAT
131 AC----------T
36975 AAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAA
1 --A-AAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC----ATAAAAAAA-TACGAA
* * * * *
37040 GAAAGT-ATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTG
58 TAAAGTGCT-AAAATCAGGGTTATTTATTAAATAAATAT-AA-AAACACTTAAATAATACATTTG
* * * *
37104 AAA-TTTTTTTGCT
120 AAACATTATGTACT
* ** * *
37117 AAAATAATATAAAAAAAAATAAGAAAATAATATATTTTAAAAAATAATATAC-GAAAAAAATACG
1 AAAATAA-A-ATACGAAAAT-----AAT-ATAT-TTTAAAA-AATAATATACATAAAAAAATACG
*
37181 AATAAAGTGCTAAAATCAGGGTTATTTATTGAAA-AAATATTAAAAATACTTAAATAATACATTT
56 AATAAAGTGCTAAAATCAGGGTTATTTATT-AAATAAATA-TAAAAACACTTAAATAATACATTT
37245 GAAACATTATGTACT
119 GAAACATTATGTACT
*
37260 TAAATAA
1 AAAATAA
37267 TATGAAGAAA
Statistics
Matches: 351, Mismatches: 43, Indels: 70
0.76 0.09 0.15
Matches are distributed among these distances:
130 35 0.10
131 42 0.12
135 35 0.10
139 6 0.02
140 2 0.01
141 8 0.02
142 24 0.07
143 48 0.14
144 51 0.15
146 3 0.01
147 4 0.01
148 7 0.02
149 18 0.05
150 32 0.09
151 5 0.01
152 7 0.02
153 24 0.07
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.30
Consensus pattern (133 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACATAAAAAAATACGAATAAAGTGC
TAAAATCAGGGTTATTTATTAAATAAATATAAAAACACTTAAATAATACATTTGAAACATTATGT
ACT
Found at i:36996 original size:144 final size:143
Alignment explanation
Indices: 36835--37276 Score: 595
Period size: 144 Copynumber: 3.0 Consensus size: 143
36825 TTTTATGCTA
* *
36835 AAATAAAATACCAAAATAATATATTTTAAAAAATAATGTACAAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGCTA
36900 AAATCAGGGTTATTTATTAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACT
66 AAATCAGGGTTATTTATTAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACT
36965 AAAATAATATAAAG
131 AAAATAATAT-AAG
*
36979 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC----A-AAAAAAA-TACGAATAAA
* * * *
37044 GT-ATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTGAAA-
60 GTGCT-AAAATCAGGGTTATTTATTAAA-AAATAT-AA-AAACACTTAAATAATACATTTGAAAC
* * * *
37107 TTTTTTTGCTAAAATAATATAA-
121 ATTATGTACTAAAATAATATAAG
* *
37129 AAA-AAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGCTA
*
37193 AAATCAGGGTTATTTATTGAAAAAATATTAAAAATACTTAAATAATACATTTGAAACATTATGTA
66 AAATCAGGGTTATTTATT-AAAAAATA-TAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
37258 CTTAAATAATATGAAG
129 CTAAAATAATAT-AAG
37274 AAA
1 AAA
37277 GTGTCAAAAT
Statistics
Matches: 258, Mismatches: 24, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
142 23 0.09
143 50 0.19
144 53 0.21
145 3 0.01
148 1 0.00
149 44 0.17
150 35 0.14
151 7 0.03
152 18 0.07
153 24 0.09
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (143 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACAAAAAAAATACGAATAAAGTGCTA
AAATCAGGGTTATTTATTAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACT
AAAATAATATAAG
Found at i:37154 original size:293 final size:281
Alignment explanation
Indices: 36685--37276 Score: 839
Period size: 293 Copynumber: 2.1 Consensus size: 281
36675 AGTTTTTTGT
* * * *
36685 TAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAA
* * * *
36750 AAAATACGAACAAGGTGCCAAAGTCAGGTTATTTATTAAATTAATATAAAAAAATTAAATAATAC
66 AAAATACGAACAAAGTACCAAAATCAGGTTATTTAGTAAATTAATATAAAAAAATTAAATAATAC
* *
36815 ATTTGAAAGATTTTATGCTAAAATAAAATACCAAAATAATATATTTTAAAAAATAATGTACAAAA
131 ATTTGAAAGATTTTATGCTAAAATAAAATAACAAAATAATATATTTTAAAAAATAATATACAAAA
36880 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAATA-TAAAAACACTTAAATAA
196 AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATTAAAAACACTTAAATAA
36943 TACATTTGAAACATTATGTAC
261 TACATTTGAAACATTATGTAC
*
36964 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAA
* * *
37029 AAAATTACGAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGT
66 AAAA-TACGAACAAAGTACCAAAATCA-GGTTATTTAGTAAATTAATATAAA-AAA-A-TTAAAT
* * *
37094 AATACATTTGAAA-TTTTTTTGCTAAAATAATATAAAAAAAAATAAGAAAATAATATATTTTAAA
126 AATACATTTGAAAGATTTTATGCT---A-AA-AT-----AAAATAACAAAATAATATATTTTAAA
*
37158 AAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATTA
181 AAATAATATACAAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATTA
*
37223 AAAATACTTAAATAATACATTTGAAACATTATGTAC
246 AAAACACTTAAATAATACATTTGAAACATTATGTAC
* *
37259 TTAAATAATATGAAGAAA
1 TAAAATAATATAAAGAAA
37277 GTGTCAAAAT
Statistics
Matches: 275, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
279 64 0.23
280 17 0.06
281 23 0.08
282 3 0.01
283 9 0.03
284 18 0.07
286 1 0.00
287 2 0.01
288 2 0.01
293 75 0.27
294 8 0.03
295 53 0.19
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (281 bp):
TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATACGAAAATAAA
AAAATACGAACAAAGTACCAAAATCAGGTTATTTAGTAAATTAATATAAAAAAATTAAATAATAC
ATTTGAAAGATTTTATGCTAAAATAAAATAACAAAATAATATATTTTAAAAAATAATATACAAAA
AAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATTAAAAACACTTAAATAA
TACATTTGAAACATTATGTAC
Found at i:37236 original size:91 final size:90
Alignment explanation
Indices: 37141--37331 Score: 197
Period size: 90 Copynumber: 2.1 Consensus size: 90
37131 AAAAATAAGA
* *
37141 AAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTG-CTAAAATCAGGGTTA
1 AAATAATATA-TTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTGTC-AAAATCAAGGTTA
* *
37205 TTTATTGAAA-AAATATTAAAAATACTT
64 TTTATT-AAATAAATATAAAAAACACTT
* * * * * ** * *
37232 AAATAATACATTTGAAACATTATGTACTTAAATAATATGAAGAAAGTGTCAAAATCAAGGTTATT
1 AAATAATATATTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATT
* *
37297 TATTAAATTAGTATAAAAAACACTT
66 TATTAAATAAATATAAAAAACACTT
*
37322 ACATAATATA
1 AAATAATATA
37332 CCTAATACAT
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
89 3 0.04
90 68 0.84
91 10 0.12
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (90 bp):
AAATAATATATTTAAAAAATAATATACGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATT
TATTAAATAAATATAAAAAACACTT
Found at i:37374 original size:12 final size:13
Alignment explanation
Indices: 37359--37394 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
37349 ATTTTTTGCT
37359 AAAATAATATA-A
1 AAAATAATATACA
*
37371 AAAATAAAATACA
1 AAAATAATATACA
37384 AAAATAATATA
1 AAAATAATATA
37395 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:37417 original size:15 final size:14
Alignment explanation
Indices: 37359--37421 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 14
37349 ATTTTTTGCT
37359 AAAATAATAT--AA
1 AAAATAATATACAA
*
37371 AAAATAAAATAC-A
1 AAAATAATATACAA
*
37384 AAAATAATATATTTTAA
1 AAAATAATATA---CAA
37401 AAAATAATATACGAA
1 AAAATAATATAC-AA
37416 AAAATA
1 AAAATA
37422 CGAATAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 9 0.22
13 11 0.28
15 8 0.20
17 12 0.30
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (14 bp):
AAAATAATATACAA
Found at i:37447 original size:243 final size:233
Alignment explanation
Indices: 37037--37519 Score: 736
Period size: 243 Copynumber: 2.0 Consensus size: 233
37027 AAAAAATTAC
* * *
37037 GAAGAAAGTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATT
1 GAAGAAAGTATCAAAATCAAGGTTATTTAGTAAATTAATATAAAAAAACACTTAACTAATACATT
*
37102 TGAAATTTTTTTGCTAAAATAATATAAAAAAAAATAAGAAAATAATATATTTTAAAAAATAATAT
66 TGAAAATTTTTTGCTAAAATAATATAAAAAAAAATAAGAAAATAATATATTTTAAAAAATAATAT
* * *
37167 ACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATTAAAAATACTT
131 ACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTT
*
37232 AAATAATACATTTGAAACATTATGTACTTAAATAATAT
196 AAATAATACATTTGAAACATTATGTACTAAAATAATAT
* * *
37270 GAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAGTATAAAAAACACTTACATAATATACCT
1 GAAGAAAGTATCAAAATCAAGGTTATTTAGTAAATTAATATAAAAAA-AC--AC-T--TA-A-CT
37335 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATACA-AAAATAATATATTTT
58 AATACATTTGAAA-ATTTTTTGCTAAAATAATAT-AAAAA-AAAATA-AGAAAATAATATATTTT
37399 AAAAAATAATATACG-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
119 AAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
37463 TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
184 TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
37513 AAAGAAA
1 GAAGAAA
37520 TAAAATACGA
Statistics
Matches: 226, Mismatches: 12, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
233 42 0.19
234 2 0.01
236 2 0.01
237 1 0.00
239 2 0.01
240 1 0.00
241 14 0.06
242 19 0.08
243 106 0.47
244 36 0.16
245 1 0.00
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (233 bp):
GAAGAAAGTATCAAAATCAAGGTTATTTAGTAAATTAATATAAAAAAACACTTAACTAATACATT
TGAAAATTTTTTGCTAAAATAATATAAAAAAAAATAAGAAAATAATATATTTTAAAAAATAATAT
ACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTT
AAATAATACATTTGAAACATTATGTACTAAAATAATAT
Found at i:37487 original size:144 final size:145
Alignment explanation
Indices: 37334--37831 Score: 689
Period size: 144 Copynumber: 3.4 Consensus size: 145
37324 ATAATATACC
* * * *
37334 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTT
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTT
37399 AAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT
66 AAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT
37464 -AAAAAACACTTAAA
131 AAAAAAACACTTAAA
37478 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTT
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAA-AAATAAAATACGAAAATAATATATTT
* * *
37543 TAAAAAA-AAGATACGAAAAAATACAAATAAGGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
65 TAAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
37607 TAAAAAAACACTTAAA
130 TAAAAAAACACTTAAA
*
37623 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATTAAATAATACGAAAGTAATATA
1 TAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAA-T-AA-AATACGAAAATAATATA
* * **
37688 TTTTAAAAAAT-ATGATACGAAAATAAAAAATACGAAAAAAGTGCCAAAATCAATGTTATTTATT
62 TTTTAAAAAATAAT-ATACG-----AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT
** *
37752 AAATTAATATAAAAAAACACTTACA
121 AAAAAAATATAAAAAAACACTTAAA
* * * * *
37777 TAATACATTTGAAACATT-TTTGCTAAAATAATAAAAAAAATAATATAGGAAAATA
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
37832 TTTTACTTAT
Statistics
Matches: 317, Mismatches: 24, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
144 90 0.28
145 84 0.26
146 4 0.01
147 2 0.01
148 27 0.09
149 14 0.04
150 2 0.01
151 1 0.00
152 6 0.02
153 13 0.04
154 74 0.23
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (145 bp):
TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTT
AAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT
AAAAAAACACTTAAA
Found at i:37635 original size:145 final size:146
Alignment explanation
Indices: 37334--37831 Score: 693
Period size: 145 Copynumber: 3.4 Consensus size: 146
37324 ATAATATACC
* * * *
37334 TAATACATTTGAAACATTTTTTGCTAAAATAATAT-AAAAAATAAAATACAAAAATAATATATTT
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTT
* *
37398 TAAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
66 TAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
37463 T-AAAAAACACTTAAA
131 TAAAAAAACACTTAAA
*
37478 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTT
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTT
*
37543 TAAAAAA-AAGATACGAAAAAATACAAATAAGGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
66 TAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
37607 TAAAAAAACACTTAAA
131 TAAAAAAACACTTAAA
*
37623 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATTAAATAATACGAAAGTAATATA
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAA-T-AA-AATACGAAAATAATATA
* * **
37688 TTTTAAAAAATATGATACGAAAATAAAAAATACGAAA-AAAGTGCCAAAATCAATGTTATTTATT
63 TTTTAAAAAATAAGATACG-----AAAAAATAC-AAATAAAGTGCTAAAATCAGGGTTATTTATT
** *
37752 AAATTAATATAAAAAAACACTTACA
122 AAAAAAATATAAAAAAACACTTAAA
* * * *
37777 TAATACATTTGAAACATT-TTTGCTAAAATAATA-AAAAAAATAATATAGGAAAATA
1 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATA
37832 TTTTACTTAT
Statistics
Matches: 319, Mismatches: 23, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
144 87 0.27
145 89 0.28
146 1 0.00
147 2 0.01
148 26 0.08
149 16 0.05
150 2 0.01
151 1 0.00
152 7 0.02
153 13 0.04
154 72 0.23
155 3 0.01
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (146 bp):
TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTT
TAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
TAAAAAAACACTTAAA
Found at i:45099 original size:23 final size:26
Alignment explanation
Indices: 45069--45134 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
45059 AATAATAATG
*
45069 ACTAACAATAATTAT-A-G-TTTTTT
1 ACTAACAATAATAATAAGGATTTTTT
45092 ACTAACAATAATAATAAGGATTTTTT
1 ACTAACAATAATAATAAGGATTTTTT
*
45118 ACTAACAATATTAATAA
1 ACTAACAATAATAATAA
45135 CTAACAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 14 0.37
24 1 0.03
25 1 0.03
26 22 0.58
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGATTTTTT
Found at i:45261 original size:17 final size:17
Alignment explanation
Indices: 45227--45261 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45217 AAATTATACC
* *
45227 TTCTTTTTTTCTTTTCT
1 TTCTTTTTTCCTTCTCT
45244 TTCTTTTTTCCTTCTCT
1 TTCTTTTTTCCTTCTCT
45261 T
1 T
45262 CTCCTTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTCTTTTTTCCTTCTCT
Found at i:45482 original size:19 final size:19
Alignment explanation
Indices: 45438--45481 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
45428 CATTTTTTTA
45438 TTTTTTTCGTTTTCAGTGT
1 TTTTTTTCGTTTTCAGTGT
*
45457 TTTTTTTCTTTTTCAGT-T
1 TTTTTTTCGTTTTCAGTGT
45475 TTTTTTT
1 TTTTTTT
45482 TTATTGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTTTTCGTTTTCAGTGT
Found at i:50734 original size:16 final size:16
Alignment explanation
Indices: 50713--50747 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50703 GAGAAGAACC
50713 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* *
50729 AAATAATAATAATAAT
1 AAATAAAAATAAAAAT
50745 AAA
1 AAA
50748 GAAATTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:57579 original size:22 final size:22
Alignment explanation
Indices: 57554--57598 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57544 TGTAAAATTG
57554 AAATTC-GGTCATCTGTTAGTAT
1 AAATTCTGGT-ATCTGTTAGTAT
* *
57576 AAATTCTGGTATTTGTTCGTAT
1 AAATTCTGGTATCTGTTAGTAT
57598 A
1 A
57599 TTTGAGACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (22 bp):
AAATTCTGGTATCTGTTAGTAT
Found at i:62015 original size:86 final size:85
Alignment explanation
Indices: 61961--62132 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 85
61951 GATTATTAAA
*
61961 AAAAAATTAAAAGTGTATATTTTTAATACATTAAACTTGTGTTGAAATCAAAAAAAAATTGTTAA
1 AAAAAATTAAAAGTGTATATTTTTAATACATTAAACTTGTGTTGAAATCAAAAAAAAA-TGATAA
** *
62026 TTAATGATTAAGGGTGCAAAT
65 GAAATGATTAAGAGTGCAAAT
* * * * *
62047 AGACAGTTAAAAGTGTATATTTTTAATACATTAAACTTGTGTTGAAATCAATAAAAAATTGTTAA
1 AAAAAATTAAAAGTGTATATTTTTAATACATTAAACTTGTGTTGAAATCAA-AAAAAAATGATAA
** *
62112 TTAATAATTAAG-GTGCAAAT
65 GAAATGATTAAGAGTGCAAAT
62132 A
1 A
62133 GACATACTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 9 0.11
86 65 0.81
87 6 0.08
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (85 bp):
AAAAAATTAAAAGTGTATATTTTTAATACATTAAACTTGTGTTGAAATCAAAAAAAAATGATAAG
AAATGATTAAGAGTGCAAAT
Found at i:62268 original size:17 final size:17
Alignment explanation
Indices: 62216--62269 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
62206 TCTTGGATTT
62216 TTTTCTTTAAAGTAGAC
1 TTTTCTTTAAAGTAGAC
* ***
62233 -TTT-TTTAACGTATTT
1 TTTTCTTTAAAGTAGAC
62248 TTTTCTTTAAAGTAGAC
1 TTTTCTTTAAAGTAGAC
62265 TTTTC
1 TTTTC
62270 CAACATTTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 13 0.48
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTTCTTTAAAGTAGAC
Found at i:66966 original size:15 final size:16
Alignment explanation
Indices: 66935--66967 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
66925 TATAAGACCA
66935 TAAAATTAATAGAAAT
1 TAAAATTAATAGAAAT
*
66951 TAAAATT-ATCGAAAT
1 TAAAATTAATAGAAAT
66966 TA
1 TA
66968 TTAAAGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAATTAATAGAAAT
Found at i:70356 original size:17 final size:17
Alignment explanation
Indices: 70334--70367 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70324 ATCCACTAAT
*
70334 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
70351 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
70368 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:74985 original size:17 final size:17
Alignment explanation
Indices: 74963--74996 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74953 ATCCACTAAT
*
74963 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
74980 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
74997 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:75188 original size:16 final size:17
Alignment explanation
Indices: 75150--75188 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
75140 GAATTTGATA
*
75150 ACTTATATTTATTTGGT
1 ACTTAAATTTATTTGGT
*
75167 ACTTAAATTTTTTTGG-
1 ACTTAAATTTATTTGGT
75183 ACTTAA
1 ACTTAA
75189 CTGGTATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (17 bp):
ACTTAAATTTATTTGGT
Found at i:76891 original size:13 final size:13
Alignment explanation
Indices: 76873--76909 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
76863 TTAACATTGT
76873 TTTTGAGAAATAC
1 TTTTGAGAAATAC
*
76886 TTTTGAGAAATAT
1 TTTTGAGAAATAC
*
76899 TTTTGAAAAAT
1 TTTTGAGAAAT
76910 TTAGTAGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (13 bp):
TTTTGAGAAATAC
Found at i:89243 original size:13 final size:13
Alignment explanation
Indices: 89225--89252 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89215 ATATAAATTT
89225 TTTTGCATAATGA
1 TTTTGCATAATGA
89238 TTTTGCATAATGA
1 TTTTGCATAATGA
89251 TT
1 TT
89253 ACCCATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTTTGCATAATGA
Found at i:90384 original size:17 final size:16
Alignment explanation
Indices: 90362--90409 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
90352 AACCTGTAAT
90362 ATTTTAAACTTAAAATG
1 ATTTT-AACTTAAAATG
90379 ATTTTAA-TTAAAATG
1 ATTTTAACTTAAAATG
*
90394 AATTTGAACTTAAAAT
1 -ATTTTAACTTAAAAT
90410 AAACAGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.29
16 8 0.29
17 12 0.43
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTTAACTTAAAATG
Found at i:90391 original size:15 final size:17
Alignment explanation
Indices: 90368--90409 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
90358 TAATATTTTA
*
90368 AACTTAAAATG-ATTTT
1 AACTTAAAATGAATTTG
90384 AA-TTAAAATGAATTTG
1 AACTTAAAATGAATTTG
90400 AACTTAAAAT
1 AACTTAAAAT
90410 AAACAGATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 8 0.35
17 7 0.30
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (17 bp):
AACTTAAAATGAATTTG
Found at i:92619 original size:17 final size:17
Alignment explanation
Indices: 92597--92630 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
92587 AGGGTCACAC
92597 GGTCGTGTCGC-AGGCCA
1 GGTCGTGT-GCTAGGCCA
92614 GGTCGTGTGCTAGGCCA
1 GGTCGTGTGCTAGGCCA
92631 TATAACTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (17 bp):
GGTCGTGTGCTAGGCCA
Found at i:94811 original size:24 final size:24
Alignment explanation
Indices: 94784--94833 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
94774 CTTTTAAACT
94784 AATAGAACTCATGTAACTCCCCAA
1 AATAGAACTCATGTAACTCCCCAA
94808 AATAGAACTCATGTAACTCCCCAA
1 AATAGAACTCATGTAACTCCCCAA
94832 AA
1 AA
94834 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (24 bp):
AATAGAACTCATGTAACTCCCCAA
Found at i:97788 original size:18 final size:18
Alignment explanation
Indices: 97765--97801 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
97755 TGAGAATGAG
*
97765 AGAAAGAACGTGAGGGAA
1 AGAAAGAAAGTGAGGGAA
*
97783 AGAAAGAAAGTGGGGGAA
1 AGAAAGAAAGTGAGGGAA
97801 A
1 A
97802 ACGTGGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.41, T:0.05
Consensus pattern (18 bp):
AGAAAGAAAGTGAGGGAA
Found at i:98403 original size:21 final size:19
Alignment explanation
Indices: 98350--98395 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
98340 TGTTATCGAT
98350 AAATATAATATTTTTTTGG
1 AAATATAATATTTTTTTGG
98369 AAATATAATATTTTTTTGG
1 AAATATAATATTTTTTTGG
98388 AAATATAA
1 AAATATAA
98396 AATATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (19 bp):
AAATATAATATTTTTTTGG
Found at i:100609 original size:19 final size:19
Alignment explanation
Indices: 100585--100682 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
100575 AATCTTTAAG
100585 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100604 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100623 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100640 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100659 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
100680 GAT
1 GAT
100683 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:100615 original size:36 final size:35
Alignment explanation
Indices: 100575--100682 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
100565 ATGGAAATAT
100575 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
100611 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
100647 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
100683 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:111061 original size:26 final size:26
Alignment explanation
Indices: 111032--111139 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
111022 TTATACAAAT
111032 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
111058 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111084 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111110 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111136 TGAT
1 TGAT
111140 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:114957 original size:3 final size:3
Alignment explanation
Indices: 114944--114973 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
114934 ATTAGTTTAA
*
114944 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
114974 TTAGATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:119622 original size:18 final size:19
Alignment explanation
Indices: 119599--119636 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
119589 GGAAGCAAGC
*
119599 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
119617 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
119636 A
1 A
119637 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:123081 original size:41 final size:44
Alignment explanation
Indices: 123031--123141 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 44
123021 TGGAAAAAAC
123031 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-AGAAAAG-C-
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGAGAAAAGCCA
* *
123072 GCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCCA
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGAGAAAAGCCA
*
123116 CCCCT-AAGGTCAAGGCTTTTAGCGGC
1 CCGCTAAAGGTCAAGGCTTTTAGCGGC
123142 CCTTTTTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 32 0.51
42 6 0.10
43 22 0.35
44 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (44 bp):
CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGAGAAAAGCCA
Done.