Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 50 of 221
Found at i:14376679 original size:30 final size:29
Alignment explanation
Indices: 14376654--14376733 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
14376644 GAATTGGATT
*
14376654 AAACCAAAATTTCTTGTATAAAATTGAACA
1 AAACCAAAA-TTCATGTATAAAATTGAACA
* *
14376684 AAATCAAAATTCATGTATAAAATTGCACA
1 AAACCAAAATTCATGTATAAAATTGAACA
* *
14376713 TTAAACTAAAGTTCATGTATA
1 --AAACCAAAATTCATGTATA
14376734 GTTTAAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.43
30 8 0.19
31 16 0.38
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.31
Consensus pattern (29 bp):
AAACCAAAATTCATGTATAAAATTGAACA
Found at i:14377129 original size:20 final size:20
Alignment explanation
Indices: 14377101--14377162 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
14377091 ATAATTTCAA
14377101 AAAATAAAAAATGTT-AAAATT
1 AAAA-AAAAAAT-TTAAAAATT
*
14377122 AAAAAAAATATTTAAAAATT
1 AAAAAAAAAATTTAAAAATT
14377142 AAAAAAATCAAA-TTAAAAATT
1 AAAAAAA--AAATTTAAAAATT
14377163 TATTAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 19 0.53
21 13 0.36
22 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAAAAAATTTAAAAATT
Found at i:14377157 original size:21 final size:20
Alignment explanation
Indices: 14377116--14377162 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
14377106 AAAAAATGTT
*
14377116 AAAATTAAAAAAAATATTTA
1 AAAATTAAAAAAAATAATTA
14377136 AAAATT-AAAAAAATCAAATTA
1 AAAATTAAAAAAAAT--AATTA
14377157 AAAATT
1 AAAATT
14377163 TATTAGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTAAAAAAAATAATTA
Found at i:14377464 original size:26 final size:28
Alignment explanation
Indices: 14377424--14377480 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
14377414 AAAAATATCT
14377424 AATATATTTTGTATA-A-TTATAAATTTAA
1 AATATATTTTGTATACACTTA-AAA-TTAA
14377452 AATATA-TTT-TATACACTTAAAATTAA
1 AATATATTTTGTATACACTTAAAATTAA
14377478 AAT
1 AAT
14377481 TGCATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 11 0.41
27 7 0.26
28 9 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
AATATATTTTGTATACACTTAAAATTAA
Found at i:14390487 original size:13 final size:13
Alignment explanation
Indices: 14390469--14390493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14390459 ATTATTAATA
14390469 TTATTTTGTGTGT
1 TTATTTTGTGTGT
14390482 TTATTTTGTGTG
1 TTATTTTGTGTG
14390494 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:14392194 original size:41 final size:41
Alignment explanation
Indices: 14392149--14392310 Score: 245
Period size: 41 Copynumber: 4.0 Consensus size: 41
14392139 AAATTATTCA
*
14392149 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
14392190 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
14392231 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * * *
14392273 G-CTACAAGCCTAGCAGACTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAAT
14392311 TAAACTATAA
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 111 0.98
42 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:14392323 original size:41 final size:41
Alignment explanation
Indices: 14392146--14392345 Score: 240
Period size: 41 Copynumber: 4.9 Consensus size: 41
14392136 GTGAAATTAT
*
14392146 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
14392187 TCGGACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
14392228 TCGGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * * *
14392269 TCAGGCTACAAGCCTAGCAGACTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * * * *
14392310 TTAAACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATACGTCTAGCAGGCT-AAGTGCCGGTGAA
14392346 TCTGTTTAAA
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:14395365 original size:31 final size:31
Alignment explanation
Indices: 14395322--14395383 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
14395312 ATGGATTTCC
* *
14395322 CTTTTTGCATCTTTCAAATTTGAAAACCTCA
1 CTTTTTGAATCTTCCAAATTTGAAAACCTCA
14395353 CTTTTTGAATCTTCCAAATTTGAAAACCTCA
1 CTTTTTGAATCTTCCAAATTTGAAAACCTCA
14395384 TGAAATCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (31 bp):
CTTTTTGAATCTTCCAAATTTGAAAACCTCA
Found at i:14403734 original size:20 final size:20
Alignment explanation
Indices: 14403703--14403740 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14403693 GGTTTTTTTA
14403703 AAGGTCAGATTTTATTATTTC
1 AAGGTCAGATTTT-TTATTTC
14403724 AAGGT-AGATTTTTTATT
1 AAGGTCAGATTTTTTATT
14403741 ATTGTAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
AAGGTCAGATTTTTTATTTC
Found at i:14403736 original size:21 final size:22
Alignment explanation
Indices: 14403703--14403743 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14403693 GGTTTTTTTA
14403703 AAGGTCAGA-TTTTATTATTTC
1 AAGGTCAGATTTTTATTATTTC
14403724 AAGGT-AGATTTTTTATTATT
1 AAGGTCAGA-TTTTTATTATT
14403744 GTAAAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 5 0.28
22 10 0.56
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (22 bp):
AAGGTCAGATTTTTATTATTTC
Found at i:14404600 original size:23 final size:23
Alignment explanation
Indices: 14404569--14404614 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14404559 AAGTTGATAA
*
14404569 AGGAGGAATAACACAATTTAAAG
1 AGGAGGAATAACACAATCTAAAG
* *
14404592 AGGATGAATAACACGATCTAAAG
1 AGGAGGAATAACACAATCTAAAG
14404615 CGCACATTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (23 bp):
AGGAGGAATAACACAATCTAAAG
Found at i:14407933 original size:9 final size:9
Alignment explanation
Indices: 14407919--14407943 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14407909 TTTTTAAAGA
14407919 TAATTTTCT
1 TAATTTTCT
14407928 TAATTTTCT
1 TAATTTTCT
14407937 TAATTTT
1 TAATTTT
14407944 GATGATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATTTTCT
Found at i:14414784 original size:18 final size:18
Alignment explanation
Indices: 14414761--14414795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14414751 ATCCTGCAGG
14414761 AAATTGTCCTTGAGATAT
1 AAATTGTCCTTGAGATAT
* *
14414779 AAATTGTTCTTGTGATA
1 AAATTGTCCTTGAGATA
14414796 GATGTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (18 bp):
AAATTGTCCTTGAGATAT
Found at i:14423762 original size:35 final size:35
Alignment explanation
Indices: 14423565--14423866 Score: 229
Period size: 35 Copynumber: 8.5 Consensus size: 35
14423555 ATACAAATTT
* * * * *
14423565 TTTTTTAAAAAACGAGAATTTTAGAAGCACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
14423600 TTTTTTG-AAACACTG-AAATTTATGAAACACGAGCAA
1 -TTTTTGAAAACAC-GAAAATTTTTGAAACACGA-AAA
* * * * * * *
14423636 TTTTTTAAAACGCAAAAATTTTTAAAAGACGGGAAT
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-GAAAA
* * * *
14423672 TTTTTGCAAACACGGAAATTTATGAAACACGAGAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AA--A
14423710 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
*
14423745 TTTTTGAAAACACGAAAATTTGTGAAACAC-AATAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
*
14423780 TTTTTGAAAACACGAAAATTGTTGAAAACACGAAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACG-AAAA
* * * * *
14423817 ATTTTGAAATAC-CG-GATTTTTTGAAAACATGAAGA
1 TTTTTGAAA-ACACGAAAATTTTTG-AAACACGAAAA
14423852 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
14423867 TTTTTTTATT
Statistics
Matches: 211, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
33 2 0.01
34 6 0.03
35 85 0.40
36 69 0.33
37 15 0.07
38 34 0.16
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:14423873 original size:17 final size:18
Alignment explanation
Indices: 14423565--14423866 Score: 214
Period size: 18 Copynumber: 16.9 Consensus size: 18
14423555 ATACAAATTT
* * *
14423565 TTTTTTAAAAAACGAGAA
1 TTTTTGAAAACACGAAAA
* *
14423583 TTTTAG-AAGCACGAAAA
1 TTTTTGAAAACACGAAAA
14423600 TTTTTTG-AAACACTG-AAA
1 -TTTTTGAAAACAC-GAAAA
* *
14423618 TTTATG-AAACACGAGCAA
1 TTTTTGAAAACACGA-AAA
* * *
14423636 TTTTTTAAAACGCAAAAA
1 TTTTTGAAAACACGAAAA
* * *
14423654 TTTTT-AAAAGACGGGAAT
1 TTTTTGAAAACAC-GAAAA
* *
14423672 TTTTTGCAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
14423690 TTTATG-AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--A
14423710 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
14423728 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
14423745 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
14423763 TTTGTG-AAACAC-AATAA
1 TTTTTGAAAACACGAA-AA
14423780 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
14423798 TTGTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
* * *
14423817 ATTTTGAAATAC-CG-GAT
1 TTTTTGAAA-ACACGAAAA
* *
14423834 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
14423852 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
14423867 TTTTTTTATT
Statistics
Matches: 225, Mismatches: 40, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.02
17 79 0.35
18 97 0.43
19 27 0.12
20 9 0.04
21 8 0.04
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:14424179 original size:5 final size:5
Alignment explanation
Indices: 14424169--14424194 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14424159 TAAAATTATT
14424169 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
14424195 TTGAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:14424179 original size:15 final size:15
Alignment explanation
Indices: 14424159--14424225 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
14424149 CCTTATTTAT
**
14424159 TAAAATTATTTAAAA
1 TAAAATTAAATAAAA
*
14424174 TAAAATAAAATAAAA
1 TAAAATTAAATAAAA
* *
14424189 TAAAATTTGAATTAAA
1 TAAAA-TTAAATAAAA
* *
14424205 TTAAATTAAATTAAAT
1 TAAAATTAAA-TAAAA
14424221 TAAAA
1 TAAAA
14424226 ATATAAGTAC
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
15 21 0.54
16 18 0.46
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (15 bp):
TAAAATTAAATAAAA
Found at i:14424206 original size:5 final size:5
Alignment explanation
Indices: 14424198--14424224 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14424188 ATAAAATTTG
14424198 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
14424225 AATATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:14424397 original size:1 final size:1
Alignment explanation
Indices: 14424393--14424474 Score: 56
Period size: 1 Copynumber: 82.0 Consensus size: 1
14424383 TTTTTCCTTC
* * * * * * * * * *
14424393 TTTTTTTCTTCTTTTTTTTCTTTTTTTTTCTTTTTCTTTTCTTTTTTCTTTTTTCTTTTTTCTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
14424458 TTTTTTCTCTTTTTTTT
1 TTTTTTTTTTTTTTTTT
14424475 CTTCTCTGCT
Statistics
Matches: 57, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:14424397 original size:12 final size:11
Alignment explanation
Indices: 14424380--14424479 Score: 104
Period size: 11 Copynumber: 9.2 Consensus size: 11
14424370 AAATTGAACC
14424380 CTTTTTTTCCTT
1 CTTTTTTT-CTT
14424392 CTTTTTTTCTT
1 CTTTTTTTCTT
14424403 CTTTTTTTTCTT
1 C-TTTTTTTCTT
14424415 -TTTTTTTCTT
1 CTTTTTTTCTT
14424425 -TTTCTTTTCTT
1 CTTT-TTTTCTT
*
14424436 -TTTTCTTTTTT
1 CTTTT-TTTCTT
14424447 C-TTTTTTCTT
1 CTTTTTTTCTT
14424457 C-TTTTTTC-T
1 CTTTTTTTCTT
14424466 CTTTTTTTTCTT
1 C-TTTTTTTCTT
14424478 CT
1 CT
14424480 CTGCTGGGCC
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
9 2 0.03
10 27 0.34
11 30 0.38
12 20 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:14424398 original size:11 final size:10
Alignment explanation
Indices: 14424382--14424477 Score: 93
Period size: 9 Copynumber: 10.2 Consensus size: 10
14424372 ATTGAACCCT
14424382 TTTTTTCCTTC
1 TTTTTT-CTTC
14424393 TTTTTTTCTTC
1 -TTTTTTCTTC
14424404 TTTTTT-TTC
1 TTTTTTCTTC
*
14424413 TTTTTTTTTC
1 TTTTTTCTTC
14424423 -TTTTTCTT-
1 TTTTTTCTTC
14424431 TTCTTTT-TTC
1 TT-TTTTCTTC
14424441 --TTTT-TTC
1 TTTTTTCTTC
14424448 TTTTTTCTTC
1 TTTTTTCTTC
14424458 TTTTTTC-TC
1 TTTTTTCTTC
14424467 TTTTTT-TTC
1 TTTTTTCTTC
14424476 TT
1 TT
14424478 CTCTGCTGGG
Statistics
Matches: 75, Mismatches: 1, Indels: 19
0.79 0.01 0.20
Matches are distributed among these distances:
7 7 0.09
9 35 0.47
10 23 0.31
11 4 0.05
12 6 0.08
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:14424408 original size:21 final size:19
Alignment explanation
Indices: 14424383--14424474 Score: 102
Period size: 19 Copynumber: 4.9 Consensus size: 19
14424373 TTGAACCCTT
14424383 TTTTTCCTTCTTTTTTTCTTC
1 TTTTT-CTTCTTTTTTT-TTC
*
14424404 TTTTTTTTCTTTTTTTTTC
1 TTTTTCTTCTTTTTTTTTC
*
14424423 TTTTTCTT-TTCTTTTTTC
1 TTTTTCTTCTTTTTTTTTC
*
14424441 -TTTT-TTCTTTTTTCTTC
1 TTTTTCTTCTTTTTTTTTC
14424458 TTTTT-TCTCTTTTTTTT
1 TTTTTCT-TCTTTTTTTT
14424475 CTTCTCTGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
16 2 0.03
17 12 0.19
18 14 0.23
19 19 0.31
20 10 0.16
21 5 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTTC
Found at i:14424418 original size:7 final size:7
Alignment explanation
Indices: 14424394--14424461 Score: 72
Period size: 7 Copynumber: 9.9 Consensus size: 7
14424384 TTTTCCTTCT
14424394 TTTTTTC
1 TTTTTTC
*
14424401 -TTCTT-
1 TTTTTTC
14424406 TTTTTTC
1 TTTTTTC
14424413 TTTTTT-
1 TTTTTTC
14424419 TTTCTTT-
1 TTT-TTTC
14424426 TTCTTTTC
1 TT-TTTTC
14424434 TTTTTTC
1 TTTTTTC
14424441 TTTTTTC
1 TTTTTTC
14424448 TTTTTTC
1 TTTTTTC
14424455 TTCTTTT
1 TT-TTTT
14424462 TTCTCTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
6 11 0.21
7 35 0.66
8 7 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:14424439 original size:42 final size:42
Alignment explanation
Indices: 14424394--14424477 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
14424384 TTTTCCTTCT
* *
14424394 TTTTTTC-TTCTT-TTTTTTCTTTTTTTTTCT-TTTTCTTTTC
1 TTTTTTCTTTTTTCTTTTTTCTTCTTTTTTCTCTTTT-TTTTC
14424434 TTTTTTCTTTTTTCTTTTTTCTTCTTTTTTCTCTTTTTTTTC
1 TTTTTTCTTTTTTCTTTTTTCTTCTTTTTTCTCTTTTTTTTC
14424476 TT
1 TT
14424478 CTCTGCTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 7 0.18
41 4 0.10
42 24 0.62
43 4 0.10
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (42 bp):
TTTTTTCTTTTTTCTTTTTTCTTCTTTTTTCTCTTTTTTTTC
Found at i:14424732 original size:19 final size:19
Alignment explanation
Indices: 14424708--14424802 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
14424698 TGTTAAAATT
14424708 TTTTTCTATTTT-TTCTTTC
1 TTTTTCT-TTTTCTTCTTTC
*
14424727 TTTTTCTTTTTCTTTTTTC
1 TTTTTCTTTTTCTTCTTTC
** ** *
14424746 TTTCCCCCTTTCTTCTTCC
1 TTTTTCTTTTTCTTCTTTC
* * *
14424765 TTCTTCTTCTTCTTTTTTC
1 TTTTTCTTTTTCTTCTTTC
14424784 TTTCTTTCTTTTTCCTTCT
1 -TT-TTTCTTTTT-CTTCT
14424803 CCGTTCAGCC
Statistics
Matches: 54, Mismatches: 18, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
18 4 0.07
19 37 0.69
20 2 0.04
21 7 0.13
22 4 0.07
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTTCTTCTTTC
Found at i:14424737 original size:7 final size:7
Alignment explanation
Indices: 14424707--14424796 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 7
14424697 CTGTTAAAAT
14424707 TTTTTTC
1 TTTTTTC
*
14424714 TATTTT-
1 TTTTTTC
*
14424720 TTCTTTC
1 TTTTTTC
14424727 -TTTTTC
1 TTTTTTC
14424733 -TTTTTC
1 TTTTTTC
14424739 TTTTTTC
1 TTTTTTC
***
14424746 TTTCCCCC
1 TTT-TTTC
*
14424754 TTTCTTC
1 TTTTTTC
**
14424761 TTCCTTC
1 TTTTTTC
14424768 TTCTTCTTC
1 TT-TT-TTC
14424777 TTTTTTC
1 TTTTTTC
14424784 TTTCTTTC
1 TTT-TTTC
14424792 TTTTT
1 TTTTT
14424797 CCTTCTCCGT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
6 15 0.23
7 32 0.49
8 13 0.20
9 5 0.08
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTTC
Found at i:14424743 original size:13 final size:13
Alignment explanation
Indices: 14424708--14424748 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14424698 TGTTAAAATT
14424708 TTTTTCTATTTTT-
1 TTTTTCT-TTTTTC
*
14424721 TCTTTC-TTTTTC
1 TTTTTCTTTTTTC
14424733 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
14424746 TTT
1 TTT
14424749 CCCCCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 14 0.58
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:14424908 original size:17 final size:17
Alignment explanation
Indices: 14424888--14424937 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
14424878 CCCCTTTCCC
14424888 CTTTTTTCTTTTTTCTT
1 CTTTTTTCTTTTTTCTT
**
14424905 CTTTGCTC-TTTTTCTTT
1 CTTTTTTCTTTTTTC-TT
*
14424922 CTCTTTT-TTTTTTCTT
1 CTTTTTTCTTTTTTCTT
14424938 TTGCTTGCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (17 bp):
CTTTTTTCTTTTTTCTT
Found at i:14424921 original size:13 final size:12
Alignment explanation
Indices: 14424890--14424939 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
14424880 CCTTTCCCCT
14424890 TTTTTCTTT-T-
1 TTTTTCTTTCTC
*
14424900 TTCTTCTTTGCTC
1 TTTTTCTTT-CTC
14424913 TTTTTCTTTCTC
1 TTTTTCTTTCTC
*
14424925 TTTTT-TTTTTC
1 TTTTTCTTTCTC
14424936 TTTT
1 TTTT
14424940 GCTTGCGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 9 0.26
12 9 0.26
13 8 0.24
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:14424967 original size:22 final size:22
Alignment explanation
Indices: 14424925--14424967 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
14424915 TTTCTTTCTC
*
14424925 TTTTTTTTTTCTTTTGCTTGCGA
1 TTTTTTTTTTCTTCT-CTTGCGA
14424948 TTTTTTTTTTGCTTCT-TTGC
1 TTTTTTTTTT-CTTCTCTTGC
14424968 TTCTTGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTTCTTCTCTTGCGA
Found at i:14425138 original size:33 final size:33
Alignment explanation
Indices: 14425078--14425140 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
14425068 TGCTCAAAAA
* * *
14425078 TTTGTTTTTTTTTTCTTTTTTTGCTTTGCTTTT
1 TTTGTTTTTTTTCTCTGTTTCTGCTTTGCTTTT
14425111 TTTGTTTTTTTTCTCTCGTTTCT-CTTTGCT
1 TTTGTTTTTTTTCTCT-GTTTCTGCTTTGCT
14425141 GCTAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.00, C:0.14, G:0.10, T:0.76
Consensus pattern (33 bp):
TTTGTTTTTTTTCTCTGTTTCTGCTTTGCTTTT
Found at i:14425387 original size:30 final size:29
Alignment explanation
Indices: 14425339--14425437 Score: 128
Period size: 30 Copynumber: 3.4 Consensus size: 29
14425329 TTTTAGGGTC
* *
14425339 AAATGTAA-TTCTAGAAAGTTCAAGGGTTA
1 AAATGTAATTTCAAGAAAGTT-AGGGGTTA
*
14425368 AAATGTAATTTCAAGAAAGTTTAGGGGTTG
1 AAATGTAATTTCAAGAAAG-TTAGGGGTTA
* *
14425398 AAATGTAATTTCAAAAAAGTTAGGGGTCA
1 AAATGTAATTTCAAGAAAGTTAGGGGTTA
14425427 AAATGTAATTT
1 AAATGTAATTT
14425438 TTTTTAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 27 0.44
30 33 0.53
31 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.32
Consensus pattern (29 bp):
AAATGTAATTTCAAGAAAGTTAGGGGTTA
Found at i:14425712 original size:77 final size:77
Alignment explanation
Indices: 14425631--14426358 Score: 649
Period size: 77 Copynumber: 9.2 Consensus size: 77
14425621 TTTTTAACTG
* * * * *
14425631 AAATTGAAAAATACCTCGGCGTGTGACTTGAGGCTCAACCCACCTCTCGTAATATGAGTTGATTT
1 AAATTAAAAAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
14425696 TTAAAAAATAGAA
66 TTGAAAAATAG-A
* * * * *
14425709 AATTTTTATTTAAAAAAAATACATCAGCATGTGACCCGGGGCTCAACTCACATCTCGCAATATGA
1 AA-----A-TT--AAAAAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
14425774 GTTGATTTTTGAAAAACT-GA
58 GTTGATTTTTGAAAAA-TAGA
* * * * *
14425794 AATTTAAAAGAAATACATCGGCATTTGTC-CGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AAATT-AAA-AAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
14425858 ATTTTGAAAAACAG-
64 -TTTTGAAAAATAGA
* *
14425872 AAATTGAAAAATACCTCAGG-ATGTGA-TCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGAT
1 AAATTAAAAAATACCTC-GGCATGTGACTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
14425935 TTTTTTGAAAAACAG-
63 -TTTTTGAAAAATAGA
* * *
14425950 AAACTGAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAATTAAAAAATACCTC-GGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
14426014 TTTGAAAAATA-A
65 TTTGAAAAATAGA
* *
14426026 AAATTTAAAAAAATATCTCGGCATGTGACCCGAGATGTGACCCAATGCTCAACTCACCTCTCGCA
1 AAA-TT-AAAAAATACCTCGGCATGTGACTC--GA---G-------GCTCAACTCACCTCTCGCA
14426091 ATATGAGTTGATTTTTGGAAAAATAG-
52 ATATGAGTTGATTTTT-GAAAAATAGA
* * * *
14426117 AAACTGAAAAATACCTCAAG-ATGTGA-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 AAATTAAAAAATACCTC-GGCATGTGACTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
14426180 TTTTAAAAAATAGA
64 TTTTGAAAAATAGA
* * * *
14426194 AATTTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTT
1 AAATTAAAAAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
14426259 CTTTGAAAAA-AGA
65 -TTTGAAAAATAGA
** * * *
14426272 GAAATTGGAAAATACCTC-G-ACGTGACTCGAGGCTCAACTTACCTCTCGCAATATGAGCTGATT
1 -AAATTAAAAAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
14426335 TTTGAAAAACAG-
65 TTTGAAAAATAGA
14426347 AAATTAAAAAAT
1 AAATTAAAAAAT
14426359 GATTCTTGAA
Statistics
Matches: 546, Mismatches: 60, Indels: 92
0.78 0.09 0.13
Matches are distributed among these distances:
74 10 0.02
75 9 0.02
76 41 0.08
77 158 0.29
78 139 0.25
79 53 0.10
80 2 0.00
83 2 0.00
84 3 0.01
85 3 0.01
86 58 0.11
87 3 0.01
88 1 0.00
89 16 0.03
90 37 0.07
91 11 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (77 bp):
AAATTAAAAAATACCTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGAAAAATAGA
Found at i:14426130 original size:245 final size:246
Alignment explanation
Indices: 14425827--14426268 Score: 705
Period size: 245 Copynumber: 1.8 Consensus size: 246
14425817 TTTGTCCGAG
* * *
14425827 GCTCAACTCACTTCTCGCAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAAATACCTCAGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAAACAGAAACTGAAAAATACCTCAAG
* * *
14425892 ATGTGATCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-CTG
66 ATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAAAAAACAGAAATCTA
*
14425956 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTG
129 AAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTTTG
14426018 AAAAATAAAAATTTAAAAAAATATCTCGGCATGTGACCCGAGATGTGACCCAAT
193 AAAAATAAAAATTTAAAAAAATATCTCGGCATGTGACCCGAGATGTGACCCAAT
*
14426072 GCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGGAAAAATAGAAACTGAAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTT-GAAAAACAGAAACTGAAAAATACCTCAA
* * *
14426136 GATGTGATCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAAAATAGAAATTTAA
65 GATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATCTAA
*
14426201 AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTTCTTTGAA
130 AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTTTGAA
14426266 AAA
195 AAA
14426269 AGAGAAATTG
Statistics
Matches: 180, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
243 17 0.09
244 56 0.31
245 98 0.54
246 9 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (246 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAAACAGAAACTGAAAAATACCTCAAG
ATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATCTAAA
AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTTTGAAA
AATAAAAATTTAAAAAAATATCTCGGCATGTGACCCGAGATGTGACCCAAT
Found at i:14427231 original size:15 final size:15
Alignment explanation
Indices: 14427211--14427258 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
14427201 GATTTTTTTA
14427211 TTTTTTTTTGTTTCT
1 TTTTTTTTTGTTTCT
*
14427226 TTTTTTTGTTGTTTCG
1 TTTTTTT-TTGTTTCT
*
14427242 TTTTTTGTTGTTT-T
1 TTTTTTTTTGTTTCT
14427256 TTT
1 TTT
14427259 AGGCATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
16 13 0.45
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTGTTTCT
Found at i:14427232 original size:16 final size:17
Alignment explanation
Indices: 14427211--14427253 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
14427201 GATTTTTTTA
14427211 TTTTTTT-TTGTTTC-T
1 TTTTTTTGTTGTTTCGT
14427226 TTTTTTTGTTGTTTCGT
1 TTTTTTTGTTGTTTCGT
14427243 TTTTTGTTGTT
1 TTTTT-TTGTT
14427254 TTTTTAGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.28
16 7 0.28
17 6 0.24
18 5 0.20
ACGTcount: A:0.00, C:0.05, G:0.14, T:0.81
Consensus pattern (17 bp):
TTTTTTTGTTGTTTCGT
Found at i:14432925 original size:4 final size:4
Alignment explanation
Indices: 14432916--14432940 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14432906 ATGTACATGC
14432916 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
14432941 CCAATGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:14434654 original size:18 final size:18
Alignment explanation
Indices: 14434633--14434925 Score: 72
Period size: 18 Copynumber: 16.5 Consensus size: 18
14434623 AATACAAATT
14434633 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
* *
14434651 --TTTTAGAAACACAAAAA
1 TTTTTTA-AAACACGAGAA
* *
14434668 TTTTTTGAAATACG-GAA
1 TTTTTTAAAACACGAGAA
* * * *
14434685 ATTTATGAAACACGGGCAA
1 TTTTTTAAAACACGAG-AA
* *
14434704 TTTTTGAAAACAC-AAAA
1 TTTTTTAAAACACGAGAA
* * *
14434721 ATTTTTGAAAGACG-GTAA
1 TTTTTTAAAACACGAG-AA
*
14434739 TTTTTTGCAAACACG-GAA
1 TTTTTT-AAAACACGAGAA
* * * *
14434757 ATTTATGAAACACGGGAA
1 TTTTTTAAAACACGAGAA
*
14434775 TTTTTTTTGAAAACATGA-AA
1 --TTTTTT-AAAACACGAGAA
* **
14434795 ATTTTCGAAACAC---AA
1 TTTTTTAAAACACGAGAA
**
14434810 TTTTCGAAAACACGA-AA
1 TTTTTTAAAACACGAGAA
* * * *
14434827 ATTTGTGAAACATGAGAA
1 TTTTTTAAAACACGAGAA
* *
14434845 TTTTTGAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
* * *
14434863 TTGTTGAAAACACGAAAA
1 TTTTTTAAAACACGAGAA
** * *
14434881 AATTTTGAAACATC-AGAG
1 TTTTTTAAAACA-CGAGAA
*
14434899 TTTTTGAAAACACGA-AGA
1 TTTTTTAAAACACGAGA-A
14434917 TTTTTTAAA
1 TTTTTTAAA
14434926 CACAATTTTT
Statistics
Matches: 193, Mismatches: 64, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
15 11 0.06
16 5 0.03
17 59 0.31
18 83 0.43
19 23 0.12
20 6 0.03
21 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:14434820 original size:32 final size:32
Alignment explanation
Indices: 14434778--14434864 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 32
14434768 ACGGGAATTT
* *
14434778 TTTTTGAAAACATGAAAATTT-TCGAAACACAA
1 TTTTCGAAAACACGAAAATTTGT-GAAACACAA
*
14434810 TTTTCGAAAACACGAAAATTTGTGAAACATGAGAA
1 TTTTCGAAAACACGAAAATTTGTGAAAC---ACAA
*
14434845 TTTTTGAAAACACGAAAATT
1 TTTTCGAAAACACGAAAATT
14434865 GTTGAAAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 24 0.51
33 1 0.02
35 22 0.47
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (32 bp):
TTTTCGAAAACACGAAAATTTGTGAAACACAA
Found at i:14434871 original size:35 final size:35
Alignment explanation
Indices: 14434632--14434877 Score: 193
Period size: 36 Copynumber: 6.9 Consensus size: 35
14434622 AAATACAAAT
* * * *
14434632 TTTTTTTAAAACACGAGAATTTTAGAAACACAAAAA
1 TTTTTTGAAAACACGAAAATTTT-GAAACACGAGAA
* * *
14434668 TTTTTTG-AAATACGGAAATTTATGAAACACGGGCAA
1 TTTTTTGAAAACACGAAAATTT-TGAAACACGAG-AA
* *
14434704 -TTTTTGAAAACACAAAAATTTTTGAAAGACG-GTAA
1 TTTTTTGAAAACACGAAAA-TTTTGAAACACGAG-AA
* * *
14434739 TTTTTTGCAAACACGGAAATTTATGAAACACGGGAA
1 TTTTTTGAAAACACGAAAATTT-TGAAACACGAGAA
*
14434775 TTTTTTTTGAAAACATGAAAATTTTCGAAACAC---AA
1 --TTTTTTGAAAACACGAAAATTTT-GAAACACGAGAA
* *
14434810 -TTTTCGAAAACACGAAAATTTGTGAAACATGAGAA
1 TTTTTTGAAAACACGAAAATTT-TGAAACACGAGAA
14434845 -TTTTTGAAAACACGAAAATTGTTGAAAACACGA
1 TTTTTTGAAAACACGAAAATT-TTG-AAACACGA
14434878 AAAAATTTTG
Statistics
Matches: 170, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
32 25 0.15
33 1 0.01
35 55 0.32
36 58 0.34
37 5 0.03
38 26 0.15
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (35 bp):
TTTTTTGAAAACACGAAAATTTTGAAACACGAGAA
Found at i:14434892 original size:36 final size:36
Alignment explanation
Indices: 14434808--14434890 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
14434798 TTCGAAACAC
* *
14434808 AATTTTCGAAAACACGAAAATTTGTG-AAACATG-AGA
1 AATTTT-GAAAACACGAAAATTT-TGAAAACACGAAAA
*
14434844 ATTTTTGAAAACACGAAAATTGTTGAAAACACGAAAA
1 AATTTTGAAAACACGAAAATT-TTGAAAACACGAAAA
14434881 AATTTTGAAA
1 AATTTTGAAA
14434891 CATCAGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 17 0.43
36 12 0.30
37 11 0.28
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (36 bp):
AATTTTGAAAACACGAAAATTTTGAAAACACGAAAA
Found at i:14435172 original size:16 final size:16
Alignment explanation
Indices: 14435148--14435194 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14435138 TTATTTAAAA
*
14435148 TAAAATAAAATTATAT
1 TAAATTAAAATTATAT
14435164 TAAATTAAAATTGA-AT
1 TAAATTAAAATT-ATAT
*
14435180 TAAATTAAAAATATA
1 TAAATTAAAATTATA
14435195 AATACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATTAAAATTATAT
Found at i:14435172 original size:21 final size:21
Alignment explanation
Indices: 14435133--14435198 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
14435123 CTTTATTTAT
14435133 TAAAATTAT-TTAAAATAAAA
1 TAAAATTATATTAAAATAAAA
*
14435153 TAAAATTATATTAAATTAAAA
1 TAAAATTATATTAAAATAAAA
** *
14435174 TTGAATTAAATTAAAAATATAAA
1 TAAAATTATATT-AAAATA-AAA
14435197 TA
1 TA
14435199 CAAAAATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.24
21 19 0.51
22 5 0.14
23 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAATTATATTAAAATAAAA
Found at i:14435365 original size:13 final size:12
Alignment explanation
Indices: 14435346--14435457 Score: 63
Period size: 12 Copynumber: 9.2 Consensus size: 12
14435336 AATTGAACCC
*
14435346 CTTTTTTCCCTT
1 CTTTTTTTCCTT
14435358 CTTTTTTT-CTT
1 CTTTTTTTCCTT
14435369 CTTTTTTTTCCTT
1 C-TTTTTTTCCTT
**
14435382 -TTTTTCTTTTTT
1 CTTTTT-TTCCTT
14435394 CTTTTTGTT--TT
1 CTTTTT-TTCCTT
*
14435405 CTTTTTGTTTTCTT
1 C-TTTT-TTTCCTT
* *
14435419 TTTGTTTTTTCTT
1 CTT-TTTTTCCTT
14435432 C-TTTTTTCCTCT
1 CTTTTTTTCCT-T
*
14435444 CTTTTTTTTCTT
1 CTTTTTTTCCTT
14435456 CT
1 CT
14435458 CTGCTGGGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
11 19 0.23
12 30 0.37
13 28 0.35
14 4 0.05
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.79
Consensus pattern (12 bp):
CTTTTTTTCCTT
Found at i:14435369 original size:11 final size:11
Alignment explanation
Indices: 14435355--14435457 Score: 76
Period size: 11 Copynumber: 9.5 Consensus size: 11
14435345 CCTTTTTTCC
14435355 CTTCTTTTTTT
1 CTTCTTTTTTT
14435366 CTTC-TTTTTT
1 CTTCTTTTTTT
*
14435376 -TTC-CTTTTT
1 CTTCTTTTTTT
14435385 -TTC-TTTTTT
1 CTTCTTTTTTT
14435394 CTT-TTTGTTTT
1 CTTCTTT-TTTT
14435405 CTT-TTTGTTTT
1 CTTCTTT-TTTT
*
14435416 CTTTTTGTTTTTT
1 C-TTCT-TTTTTT
*
14435429 CTTCTTTTTTC
1 CTTCTTTTTTT
14435440 CTCTCTTTTTTTT
1 CT-TC-TTTTTTT
14435453 CTTCT
1 CTTCT
14435458 CTGCTGGGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
9 16 0.20
10 10 0.13
11 28 0.35
12 9 0.11
13 14 0.18
14 2 0.03
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (11 bp):
CTTCTTTTTTT
Found at i:14435381 original size:24 final size:24
Alignment explanation
Indices: 14435347--14435457 Score: 102
Period size: 24 Copynumber: 4.5 Consensus size: 24
14435337 ATTGAACCCC
*
14435347 TTTTTTCCCTTCTTTTTTTCTTCT
1 TTTTTTTCCTTCTTTTTTTCTTCT
* *
14435371 TTTTTTTCCTTTTTTTCTTTTTTCT
1 TTTTTTTCCTTCTTTT-TTTCTTCT
*
14435396 TTTTGTTTTCTT-TTTGTTTTCTT-T
1 TTTT-TTTCCTTCTTT-TTTTCTTCT
* *
14435420 TTGTTTTTTCTTCTTTTTTCCTCTCT
1 TT-TTTTTCCTTCTTTTTTTCT-TCT
14435446 TTTTTTT-CTTCT
1 TTTTTTTCCTTCT
14435458 CTGCTGGGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
24 34 0.46
25 30 0.41
26 10 0.14
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (24 bp):
TTTTTTTCCTTCTTTTTTTCTTCT
Found at i:14435389 original size:29 final size:30
Alignment explanation
Indices: 14435356--14435441 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 30
14435346 CTTTTTTCCC
14435356 TTCTTTTTTTCTTCTTTTTTTTCCTTT-TT
1 TTCTTTTTTTCTTCTTTTTTTTCCTTTGTT
* *
14435385 TTC-TTTTTTCTT-TTTGTTTTCTTTTTGTT
1 TTCTTTTTTTCTTCTTTTTTTTC-CTTTGTT
*
14435414 TTCTTTTTGTTTTTTCTTCTTTTTTCCT
1 TTC-TTTT-TTTCTTCTT-TTTTTTCCT
14435442 CTCTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 8 0.18
28 12 0.27
29 8 0.18
31 3 0.07
32 5 0.11
33 3 0.07
34 6 0.13
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.81
Consensus pattern (30 bp):
TTCTTTTTTTCTTCTTTTTTTTCCTTTGTT
Found at i:14435393 original size:16 final size:16
Alignment explanation
Indices: 14435361--14435439 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 16
14435351 TTCCCTTCTT
14435361 TTTTTCTTCTTTTTTTTCC
1 TTTTTCTTC--TTTTTT-C
14435380 TTTTT-TTCTTTTTTC
1 TTTTTCTTCTTTTTTC
* *
14435395 TTTTTGTT-TTCTTT-
1 TTTTTCTTCTTTTTTC
*
14435409 TTGTT-TTCTTTTTGT-
1 TTTTTCTTCTTTTT-TC
14435424 TTTTTCTTCTTTTTTC
1 TTTTTCTTCTTTTTTC
14435440 CTCTCTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.04
14 8 0.16
15 17 0.33
16 16 0.31
18 3 0.06
19 5 0.10
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTTCTTCTTTTTTC
Found at i:14435849 original size:6 final size:6
Alignment explanation
Indices: 14435838--14435889 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
14435828 CCCTTTCCCC
* * *
14435838 CTTTTT CTTTTT -TTCTT CTTTCCT CTTTTT CTTTCT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
14435885 CTTTT
1 CTTTT
14435890 GCTTGCGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 9 0.24
6 23 0.62
7 5 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:14435871 original size:13 final size:12
Alignment explanation
Indices: 14435838--14435889 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 12
14435828 CCCTTTCCCC
14435838 CTTTTTCTTT-T
1 CTTTTTCTTTCT
14435849 -TTTCTTCTTTCCT
1 CTTT-TTCTTT-CT
14435862 CTTTTTCTTTCT
1 CTTTTTCTTTCT
*
14435874 CTTTTT-TTTTT
1 CTTTTTCTTTCT
14435885 CTTTT
1 CTTTT
14435890 GCTTGCGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 3 0.08
11 15 0.42
12 8 0.22
13 7 0.19
14 3 0.08
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTTTCTTTCT
Found at i:14436379 original size:29 final size:29
Alignment explanation
Indices: 14436281--14436386 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
14436271 CGAAATTTTA
* *
14436281 GAGTCAAAATATAA-TTCTAGAAAAGTTCAA
1 GAGTCAAAATATAATTTC-AAAAAAGTT-AG
*
14436311 GAGTTAAAATATAATTTCAAAAAAGTTTAG
1 GAGTCAAAATATAATTTCAAAAAAG-TTAG
* *
14436341 G-GATTAAAATATAATTTCATAAAAGTTAG
1 GAG-TCAAAATATAATTTCAAAAAAGTTAG
*
14436370 GAGTCAAAATACAATTT
1 GAGTCAAAATATAATTT
14436387 TTTTTAAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
29 18 0.27
30 43 0.65
31 5 0.08
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (29 bp):
GAGTCAAAATATAATTTCAAAAAAGTTAG
Found at i:14445226 original size:2 final size:2
Alignment explanation
Indices: 14445219--14445244 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14445209 CCTAAAAAGA
14445219 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
14445245 CTGCAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14447596 original size:29 final size:29
Alignment explanation
Indices: 14447541--14447597 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14447531 TTCAGAAAAT
* *
14447541 TTAAAAATTCTAATTAAGCCTTTAATTTG
1 TTAAAAATTCTAATTAAACCTTAAATTTG
*
14447570 TTAAAAATTTTAATTAAAACC-TAAATTT
1 TTAAAAATTCTAATT-AAACCTTAAATTT
14447598 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (29 bp):
TTAAAAATTCTAATTAAACCTTAAATTTG
Found at i:14447889 original size:18 final size:18
Alignment explanation
Indices: 14447866--14447903 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14447856 TAGGGCGAGA
*
14447866 CAAAAAGTAAGGTAAAGG
1 CAAAAAGTAAGCTAAAGG
14447884 CAAAAAGTAAGCTAAAGG
1 CAAAAAGTAAGCTAAAGG
14447902 CA
1 CA
14447904 GTCTACGGCG
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:0.55, C:0.11, G:0.24, T:0.11
Consensus pattern (18 bp):
CAAAAAGTAAGCTAAAGG
Found at i:14454137 original size:29 final size:27
Alignment explanation
Indices: 14454073--14454137 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
14454063 GTTTTATATG
*
14454073 TATAATTATACTAAATTAAAATTCATG
1 TATAATTATACTAAATTAAAATTCATA
*
14454100 TATTAAATTATACATTAAATTAAAGTTCATA
1 TA-T-AATTATAC--TAAATTAAAATTCATA
14454131 TATAATT
1 TATAATT
14454138 TTGAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 12 0.38
30 1 0.03
31 16 0.50
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (27 bp):
TATAATTATACTAAATTAAAATTCATA
Found at i:14459006 original size:41 final size:41
Alignment explanation
Indices: 14458955--14459037 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
14458945 AATACGGGTA
14458955 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
1 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
* *
14458996 GGGGTTAGAGAGCATTAGGCAGAGGTGCTAATCAGAATGAG
1 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
14459037 G
1 G
14459038 CTAGGCAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.40, T:0.17
Consensus pattern (41 bp):
GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
Found at i:14475308 original size:17 final size:17
Alignment explanation
Indices: 14475286--14475341 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
14475276 AAAATATGGA
*
14475286 ATGTAATCTTCTAAGAT
1 ATGTAATCTTATAAGAT
*
14475303 ATGTAATCTTAGATATGAT
1 ATGTAATCTT--ATAAGAT
*
14475322 ATGTAATCTTAGAAGAT
1 ATGTAATCTTATAAGAT
14475339 ATG
1 ATG
14475342 ATTCTTGAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 18 0.55
19 15 0.45
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (17 bp):
ATGTAATCTTATAAGAT
Found at i:14482685 original size:3 final size:3
Alignment explanation
Indices: 14482679--14482813 Score: 71
Period size: 3 Copynumber: 45.0 Consensus size: 3
14482669 ACTAATAAAC
* * **
14482679 TAA TAA TAA GAA TAA TAA -AA TACA GTAA -AA TAA TAG TAA TCC TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA
* * * * ** * * *
14482724 AAA TAC TAA GAA TAC TAA TGT TAA TAA TAA AAA TAA TAT TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
14482772 TAA TAA TAAA TAA TAA TAA -AA GTAA AAA CAA T-A TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
14482814 ATGAATAAAA
Statistics
Matches: 95, Mismatches: 29, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
2 8 0.08
3 78 0.82
4 7 0.07
5 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:14493788 original size:30 final size:30
Alignment explanation
Indices: 14493725--14493789 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
14493715 GAGATACTGT
*
14493725 TTGAGACATATATAGAAGGTTCATCTAGAA
1 TTGAGACATATATAGAAGGTTCATCCAGAA
*
14493755 TTGAGAC-TCATATAGAAGGTGT-ATCCAGTA
1 TTGAGACAT-ATATAGAAGGT-TCATCCAGAA
14493785 TTGAG
1 TTGAG
14493790 GATCTAGTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 1 0.03
30 29 0.94
31 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (30 bp):
TTGAGACATATATAGAAGGTTCATCCAGAA
Found at i:14509165 original size:23 final size:23
Alignment explanation
Indices: 14509135--14509181 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
14509125 TTAGCACATG
* *
14509135 TTAGACACATCTTTCATATTGTA
1 TTAGACACATCCTTCATAGTGTA
14509158 TTAGACACATCCTTCATAGTGTA
1 TTAGACACATCCTTCATAGTGTA
14509181 T
1 T
14509182 GATTTTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (23 bp):
TTAGACACATCCTTCATAGTGTA
Found at i:14515959 original size:23 final size:24
Alignment explanation
Indices: 14515909--14515959 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
14515899 AACACCGCTG
*
14515909 AAGCGGATAAACTGACCACCGTCA
1 AAGCGGATAAACTGACCACCGCCA
* *
14515933 AAGCGGAT-AACTGAGCACCGCCC
1 AAGCGGATAAACTGACCACCGCCA
14515956 AAGC
1 AAGC
14515960 AAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.35, C:0.31, G:0.24, T:0.10
Consensus pattern (24 bp):
AAGCGGATAAACTGACCACCGCCA
Found at i:14518171 original size:13 final size:13
Alignment explanation
Indices: 14518153--14518206 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
14518143 AATAAAAAAA
14518153 TAATAATTTTTTT
1 TAATAATTTTTTT
*
14518166 TAATAAAATATTTTT
1 TAAT--AATTTTTTT
14518181 T-AT-A-TTTTTT
1 TAATAATTTTTTT
14518191 TAATAATTTTTTT
1 TAATAATTTTTTT
14518204 TAA
1 TAA
14518207 AAAAATACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 1 0.03
13 13 0.38
14 2 0.06
15 9 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TAATAATTTTTTT
Found at i:14518297 original size:27 final size:27
Alignment explanation
Indices: 14518267--14518333 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
14518257 CCTATCAGGT
*
14518267 AGGCGCCAATGAAGGTGCCTTACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
* *
14518294 AGGCGCTAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
14518321 AGGCGCCAATGAA
1 AGGCGCCAATGAA
14518334 TATTGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:14518432 original size:21 final size:21
Alignment explanation
Indices: 14518403--14518446 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14518393 TGGATTAGTA
*
14518403 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
14518424 TTTTATATGAATATTGTAATT
1 TTTTATATGAATATTGTAATT
14518445 TT
1 TT
14518447 GTGTTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTATATGAATATTGTAATT
Found at i:14518578 original size:16 final size:16
Alignment explanation
Indices: 14518535--14518578 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
14518525 AAAATCAAAT
*
14518535 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
14518551 AAAGTTACATTATATA
1 AAAATTAAATTATATA
14518567 AAAATTAAATTA
1 AAAATTAAATTA
14518579 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:14518653 original size:38 final size:38
Alignment explanation
Indices: 14518611--14518692 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
14518601 AAAAAGTCAG
*
14518611 TTATAATTAAATTTTTAATAAAATAATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
* *
14518649 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
14518687 TTATAA
1 TTATAA
14518693 ACTTTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
Found at i:14518818 original size:60 final size:59
Alignment explanation
Indices: 14518725--14518845 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 59
14518715 ATATTAAACT
* * * * *
14518725 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTAC-AAAAAATT-AATTATAAAATAATTAC
*
14518785 AAACACAAAAATTTATAACATAATCCTAAATTACAAAAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACAAAAAATTAATTATAAAATAATTAC
14518844 AA
1 AA
14518846 TATTCATACA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
58 4 0.07
59 20 0.37
60 30 0.56
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (59 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACAAAAAATTAATTATAAAATAATTAC
Found at i:14518863 original size:21 final size:21
Alignment explanation
Indices: 14518833--14518999 Score: 104
Period size: 27 Copynumber: 7.2 Consensus size: 21
14518823 AATTAATTAT
14518833 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
14518855 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
14518881 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
14518902 --AAAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
14518925 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
*
14518952 ATACAAAATTACAATATTCATAT
1 A-A-AAAATTACAATATTCATAC
14518975 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
14518996 AAAA
1 AAAA
14519000 TACTAATCCA
Statistics
Matches: 122, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
19 12 0.10
20 1 0.01
21 38 0.31
22 9 0.07
23 2 0.02
25 7 0.06
26 14 0.11
27 39 0.32
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:14518873 original size:8 final size:8
Alignment explanation
Indices: 14518860--14518990 Score: 61
Period size: 8 Copynumber: 15.4 Consensus size: 8
14518850 CATACAAAAA
14518860 ATTACAAT
1 ATTACAAT
14518868 ATTACAAT
1 ATTACAAT
* * *
14518876 ATATCCCGAC
1 AT-T-ACAAT
14518886 ATTACAAT
1 ATTACAAT
*
14518894 ATTCATACAAA
1 A-T--TACAAT
14518905 ATTACAAT
1 ATTACAAT
14518913 ATTACAAT
1 ATTACAAT
*
14518921 ATTCATACAAA
1 A-T--TACAAT
*
14518932 ATTATAAT
1 ATTACAAT
14518940 ATTACAAT
1 ATTACAAT
*
14518948 ATTCATACAAA
1 A-T--TACAAT
14518959 ATTACAAT
1 ATTACAAT
14518967 ATT-C-AT
1 ATTACAAT
* *
14518973 A-TAAAAA
1 ATTACAAT
14518980 ATTACAAT
1 ATTACAAT
14518988 ATT
1 ATT
14518991 CATACAAAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
5 1 0.01
6 3 0.03
7 3 0.03
8 54 0.59
9 5 0.05
10 7 0.08
11 18 0.20
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:14518910 original size:19 final size:19
Alignment explanation
Indices: 14518886--14519073 Score: 108
Period size: 19 Copynumber: 9.7 Consensus size: 19
14518876 ATATCCCGAC
14518886 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
14518905 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
14518922 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
14518940 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
14518959 ATTACAATATTCATATAAAAA
1 ATTACAATATTC--ATACAAA
14518980 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
14518999 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
14519019 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
14519041 ATTACAATATTAATACAAA
1 ATTACAATATTCATACAAA
14519060 ATTACAATATTCAT
1 ATTACAATATTCAT
14519074 TGGCGCCTCT
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
16 13 0.10
17 7 0.05
18 9 0.07
19 56 0.43
20 13 0.10
21 21 0.16
22 5 0.04
23 5 0.04
25 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:14518922 original size:27 final size:27
Alignment explanation
Indices: 14518886--14518990 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
14518876 ATATCCCGAC
14518886 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
14518913 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
14518940 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
14518967 ATT-C-ATA-T-A-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
14518988 ATT
1 ATT
14518991 CATACAAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
21 14 0.18
22 1 0.01
23 1 0.01
24 1 0.01
25 3 0.04
26 1 0.01
27 55 0.72
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:14519023 original size:67 final size:60
Alignment explanation
Indices: 14518913--14519061 Score: 138
Period size: 67 Copynumber: 2.4 Consensus size: 60
14518903 AAATTACAAT
** * **
14518913 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCATATAAA
1 ATTACAATATTCATACAAAA-TATAATACCAAAATATAAATAC-AAATT--AA-ATT-ATA-AAA
14518978 AA
59 AA
* *
14518980 ATTACAATATTCATACAAAATACTAAT-CCAAAACTATAAATACAAATTTAATTATAAAATA
1 ATTACAATATTCATACAAAATA-TAATACCAAAA-TATAAATACAAATTAAATTATAAAAAA
*
14519041 ATTACAATATTAATACAAAAT
1 ATTACAATATTCATACAAAAT
14519062 TACAATATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
61 24 0.33
62 3 0.04
63 3 0.04
64 1 0.01
66 10 0.14
67 31 0.43
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
ATTACAATATTCATACAAAATATAATACCAAAATATAAATACAAATTAAATTATAAAAAA
Found at i:14519110 original size:27 final size:27
Alignment explanation
Indices: 14519069--14519131 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
14519059 AATTACAATA
14519069 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
* *
14519096 TTCATTGGCGTCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
14519123 TTCATTGGC
1 TTCATTGGC
14519132 ACCTACCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.13, C:0.30, G:0.24, T:0.33
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:14521222 original size:138 final size:138
Alignment explanation
Indices: 14521074--14521353 Score: 438
Period size: 138 Copynumber: 2.0 Consensus size: 138
14521064 AGTAAAAAGG
*
14521074 AATTATATTATTT-TCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTA
1 AATTATATTATTTCT-AAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCA
* *
14521138 ATATAACTGTTTATATTAATAAA-TTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
65 ATATAACTGTTTATATTAATAAATTTC-GTAAAATATATACAATTAATATTTTATATAAATCAAA
*
14521202 TTTATATATT
129 TTCATATATT
* * ***
14521212 AATTATATTATTTCTAAAAGAATATTAATTTTTATGTCTTTTATATTTTGATTGAAATTAATCAA
1 AATTATATTATTTCTAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCAA
*
14521277 TATAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAATT
66 TATAACTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAATT
14521342 CATATATT
131 CATATATT
14521350 AATT
1 AATT
14521354 TTATCTATAT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
138 126 0.97
139 4 0.03
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATTATTTCTAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCAA
TATAACTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAATT
CATATATT
Found at i:14526915 original size:31 final size:31
Alignment explanation
Indices: 14526880--14526971 Score: 166
Period size: 33 Copynumber: 2.9 Consensus size: 31
14526870 CCCTTATTTT
14526880 CACCTATGCCGAATGCATACATATATATATC
1 CACCTATGCCGAATGCATACATATATATATC
14526911 CACCTATGCCGAATGCATACATATATTTATATC
1 CACCTATGCCGAATGCATACATATA--TATATC
14526944 CACCTATGCCGAATGCATACATATATAT
1 CACCTATGCCGAATGCATACATATATAT
14526972 TTATCTATCA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.47
33 31 0.53
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (31 bp):
CACCTATGCCGAATGCATACATATATATATC
Found at i:14526947 original size:33 final size:34
Alignment explanation
Indices: 14526809--14526969 Score: 186
Period size: 39 Copynumber: 4.6 Consensus size: 34
14526799 TCAACCATAA
* *
14526809 ATGCCGAATGCATACATATATACACTTATTTTCACCT
1 ATGCCGAATGCATACATATAT---CTTATATCCACCT
* *
14526846 ATGCCGAATGCATACATATATATACCCTTATTTTCACCT
1 ATGCCGAATGCATAC--ATATAT---CTTATATCCACCT
14526885 ATGCCGAATGCATACATATA---TATATCCACCT
1 ATGCCGAATGCATACATATATCTTATATCCACCT
14526916 ATGCCGAATGCATACATATAT-TTATATCCACCT
1 ATGCCGAATGCATACATATATCTTATATCCACCT
14526949 ATGCCGAATGCATACATATAT
1 ATGCCGAATGCATACATATAT
14526970 ATTTATCTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
31 29 0.25
33 32 0.27
37 20 0.17
39 36 0.31
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (34 bp):
ATGCCGAATGCATACATATATCTTATATCCACCT
Found at i:14526954 original size:64 final size:66
Alignment explanation
Indices: 14526841--14526971 Score: 194
Period size: 64 Copynumber: 2.0 Consensus size: 66
14526831 CACTTATTTT
* *
14526841 CACCTATGCCGAATGCATACATATATATACCCTTATTTTCACCTATGCCGAATGCATACATATAT
1 CACCTATGCCGAATGCATACA-ATATAT---CTTATATCCACCTATGCCGAATGCATACATATAT
14526906 ATATC
62 ATATC
14526911 CACCTATGCCGAATGCATAC-ATATAT-TTATATCCACCTATGCCGAATGCATACATATATAT
1 CACCTATGCCGAATGCATACAATATATCTTATATCCACCTATGCCGAATGCATACATATATAT
14526972 TTATCTATCA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
64 33 0.56
68 6 0.10
70 20 0.34
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (66 bp):
CACCTATGCCGAATGCATACAATATATCTTATATCCACCTATGCCGAATGCATACATATATATAT
C
Found at i:14527237 original size:41 final size:41
Alignment explanation
Indices: 14527187--14527283 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
14527177 CCAGCTCTTG
* *
14527187 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATACTCCGAATAAT-T-TCACCGGCATTA
* *
14527228 AGCCTGCTAGACGTATACTCTGAATAATTTCACCTGCATTA
1 AGCCTGCTAGACGTATACTCCGAATAATTTCACCGGCATTA
14527269 AGCCTGCTAGACGTA
1 AGCCTGCTAGACGTA
14527284 AAGTCTGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 45 0.90
42 2 0.04
43 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTATACTCCGAATAATTTCACCGGCATTA
Found at i:14527291 original size:41 final size:41
Alignment explanation
Indices: 14527216--14527293 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
14527206 CCGAAATGTA
*
14527216 TCACCGGCATTAAGCCTGCTAGACGTATACTCTGAATAATT
1 TCACCGGCATTAAGCCTGCTAGACGTAAACTCTGAATAATT
* *
14527257 TCACCTGCATTAAGCCTGCTAGACGTAAAGTCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACGTAAACTCTGAAT
14527294 TATGTCACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACGTAAACTCTGAATAATT
Found at i:14534680 original size:36 final size:33
Alignment explanation
Indices: 14534640--14534800 Score: 204
Period size: 36 Copynumber: 4.8 Consensus size: 33
14534630 ATCAACCATA
*
14534640 ATGCCGAATGCATACATATATACACTTATTTCACCT
1 ATGCCGAATGCATACATATAT--A-TTATTCCACCT
* *
14534676 ATGCCAAATGCATACATATATTACCTTATTTCACCT
1 ATGCCGAATGCATACATATA-TA--TTATTCCACCT
14534712 ATGCCGAATGCATACATATATA-TA-TCCACCT
1 ATGCCGAATGCATACATATATATTATTCCACCT
14534743 ATGCCGAATGCATACATATAT-TTATATCCACCT
1 ATGCCGAATGCATACATATATATTAT-TCCACCT
14534776 ATG-CGAATGCATACATATATATTAT
1 ATGCCGAATGCATACATATATATTAT
14534801 CTATCATTGC
Statistics
Matches: 116, Mismatches: 3, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
31 29 0.25
32 19 0.16
33 14 0.12
35 3 0.03
36 50 0.43
37 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.34
Consensus pattern (33 bp):
ATGCCGAATGCATACATATATATTATTCCACCT
Found at i:14534760 original size:67 final size:63
Alignment explanation
Indices: 14534671--14534797 Score: 184
Period size: 67 Copynumber: 2.0 Consensus size: 63
14534661 ACACTTATTT
*
14534671 CACCTATGCCAAATGCATACATATA-TTACCTTATTTCACCTATGCCGAATGCATACATATATAT
1 CACCTATGCCAAATGCATACATATATTTA---TA-TCCACCTATG-CGAATGCATACATATATAT
14534735 ATC
61 ATC
*
14534738 CACCTATGCCGAATGCATACATATATTTATATCCACCTATGCGAATGCATACATATATAT
1 CACCTATGCCAAATGCATACATATATTTATATCCACCTATGCGAATGCATACATATATAT
14534798 TATCTATCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
63 19 0.33
64 9 0.16
65 2 0.04
67 24 0.42
68 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (63 bp):
CACCTATGCCAAATGCATACATATATTTATATCCACCTATGCGAATGCATACATATATATATC
Found at i:14535056 original size:41 final size:41
Alignment explanation
Indices: 14535011--14535117 Score: 137
Period size: 41 Copynumber: 2.6 Consensus size: 41
14535001 CCAGCTCTTG
*
14535011 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAAT-T-TCACCGGCATTA
*
14535052 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
* * *
14535093 AGCCTACTAGACGTAAAGTCTGAAT
1 AGCCTGCTAGACGTATAGTCCGAAT
14535118 TATGTCACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 55 0.92
42 2 0.03
43 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
Found at i:14536903 original size:13 final size:13
Alignment explanation
Indices: 14536887--14536911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14536877 ACAACAAATG
14536887 CACACAAAATAAA
1 CACACAAAATAAA
14536900 CACACAAAATAA
1 CACACAAAATAA
14536912 TATTAAATAT
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:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:14540412 original size:39 final size:39
Alignment explanation
Indices: 14540369--14540445 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
14540359 ATCAATGGCT
*
14540369 ACAATTAAAAGCTATATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAACTATATACAATTAGAACTCTAAGATTAC
*
14540408 ACAATTAAAAACTGTATACAATTAGAACTCTAAGATTA
1 ACAATTAAAAACTATATACAATTAGAACTCTAAGATTA
14540446 TATAATCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAACTATATACAATTAGAACTCTAAGATTAC
Found at i:14540447 original size:22 final size:22
Alignment explanation
Indices: 14540383--14540447 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
14540373 TTAAAAGCTA
14540383 TATACAATTAGAACTCTAAGAT
1 TATACAATTAGAACTCTAAGAT
* **
14540405 TACACAATTA-AAAACT--G--
1 TATACAATTAGAACTCTAAGAT
14540422 TATACAATTAGAACTCTAAGAT
1 TATACAATTAGAACTCTAAGAT
14540444 TATA
1 TATA
14540448 TAATCATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 9 0.28
18 4 0.12
19 1 0.03
20 1 0.03
21 4 0.12
22 13 0.41
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.31
Consensus pattern (22 bp):
TATACAATTAGAACTCTAAGAT
Found at i:14542529 original size:35 final size:35
Alignment explanation
Indices: 14542422--14542536 Score: 176
Period size: 35 Copynumber: 3.3 Consensus size: 35
14542412 TATTCTCTAT
** *
14542422 TTGGCGTACTTCGGTTGGATTAGCTTTTATGAGCA
1 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
** *
14542457 TTACCGTGTTTCAGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
14542492 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
14542527 TTGGCGTGTT
1 TTGGCGTGTT
14542537 ATGATTGGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.16, C:0.15, G:0.29, T:0.41
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCA
Found at i:14545853 original size:36 final size:36
Alignment explanation
Indices: 14545776--14545853 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
14545766 AAATCAAACC
14545776 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
1 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
* * ** *
14545812 AAATAACAAACAATGAACTTAGAATCTTCACAA-AAG
1 CAATAACAAACAAAGAACACAAAATCTTCA-AAGAAG
14545848 CAATAA
1 CAATAA
14545854 AGAACTCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 33 0.94
37 2 0.06
ACGTcount: A:0.59, C:0.18, G:0.08, T:0.15
Consensus pattern (36 bp):
CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
Found at i:14547764 original size:16 final size:16
Alignment explanation
Indices: 14547730--14547764 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14547720 ATAAAATATT
* *
14547730 TTTATAATTTTATTTA
1 TTTATAATTTTACTGA
14547746 TTTATAATTTTACTGA
1 TTTATAATTTTACTGA
14547762 TTT
1 TTT
14547765 TTTAGATGAT
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATAATTTTACTGA
Found at i:14549467 original size:41 final size:41
Alignment explanation
Indices: 14549408--14549804 Score: 389
Period size: 41 Copynumber: 9.5 Consensus size: 41
14549398 GAATGTAAGG
* ** * * *
14549408 GGTTGCTAAGTGCAGATTCCCCAAATCATTGATCAAAAAGA
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
* *
14549449 GGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
* * ** * * * *
14549490 GGTTTCTAAGTGCTTATTCCACAATATCCTTTATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGT
* *
14549533 GGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
* * *
14549574 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGT
* * *
14549617 GGTTGCTATGTGCTGATTCCCCGTCTCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
* * * *
14549658 GGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGT
* *
14549701 GGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
* * ** * *
14549742 GGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTATAAAGT
14549786 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
14549805 TATCGTGTAA
Statistics
Matches: 289, Mismatches: 58, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
41 115 0.40
42 78 0.27
43 66 0.23
44 30 0.10
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGT
Found at i:14549545 original size:84 final size:84
Alignment explanation
Indices: 14549444--14549765 Score: 572
Period size: 84 Copynumber: 3.8 Consensus size: 84
14549434 CATTGATCAA
* * *
14549444 AAAGAGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTTCTAAGTGCTTATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
** *
14549509 CACAATATCCTTTATTGTG
66 CACCGTATCCTTGATTGTG
14549528 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
14549593 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
* *
14549612 AAAGGGGTTGCTATGTGCTGATTCCCCGTCTCATTGATTATAAGGTGGTTGCTAAGTGTTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
14549677 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
14549696 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
14549761 CACCG
66 CACCG
14549766 GGATCCTTTG
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 228 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTGTG
Found at i:14563965 original size:23 final size:23
Alignment explanation
Indices: 14563933--14564031 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
14563923 ATAAGTGCCA
*
14563933 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14563956 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
14563979 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
14564002 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
14564025 CACTGAT
1 CACTGAT
14564032 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:14568886 original size:65 final size:65
Alignment explanation
Indices: 14568782--14568908 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
14568772 AAACTATAAC
*
14568782 TTGGTTGTTATAACTAAAGTAATAAACACCTAATCAAAATTGTACCTTTTCGATTCGTCTAGAAT
1 TTGGTTGTTATAACTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAGAAT
* *
14568847 TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACATTTTTGATTCGTCTAG
1 TTGGTTGTTATAACTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAG
14568909 GATGAACACG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (65 bp):
TTGGTTGTTATAACTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAGAAT
Found at i:14569305 original size:69 final size:68
Alignment explanation
Indices: 14569206--14569338 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 68
14569196 TGATTAAACT
* *
14569206 TAATCACTTTAATATTAAATTAATATAATACTTATCAAAATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAC-TATCAAAATAAATATTAAATTAAATTTAATATT
14569271 AAGA
65 AAGA
* * *
14569275 TAATCACTTTAATGTTAAATTAATAAAATACTATCAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAAATAAATATTAAATTAAATTTAATATT
14569339 CTATTAATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAAATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:14579656 original size:5 final size:5
Alignment explanation
Indices: 14579646--14579673 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14579636 ATGTTTTAAA
14579646 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
14579674 TATGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:14579894 original size:16 final size:16
Alignment explanation
Indices: 14579873--14579903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14579863 CACAGAGAGC
*
14579873 AAAAGAAGGAAAGAAG
1 AAAAGAAAGAAAGAAG
14579889 AAAAGAAAGAAAGAA
1 AAAAGAAAGAAAGAA
14579904 AAGGGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAGAAG
Found at i:14580930 original size:44 final size:41
Alignment explanation
Indices: 14580879--14580960 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
14580869 AGCTTTGCCG
*
14580879 ATTAGGCACTTTATGTGTCGTATCTCAGGCACTTTATGTGTCGT
1 ATTAGGCACCTTATGTGTCGT-T-TCAGGCAC-TTATGTGTCGT
*
14580923 ATTAGGCACCTTGTGTGTCGTTTCAGGCACTTATGTGT
1 ATTAGGCACCTTATGTGTCGTTTCAGGCACTTATGTGT
14580961 TGTTTATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 8 0.22
42 8 0.22
43 1 0.03
44 19 0.53
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.40
Consensus pattern (41 bp):
ATTAGGCACCTTATGTGTCGTTTCAGGCACTTATGTGTCGT
Found at i:14580931 original size:21 final size:22
Alignment explanation
Indices: 14580882--14580960 Score: 110
Period size: 21 Copynumber: 3.7 Consensus size: 22
14580872 TTTGCCGATT
14580882 AGGCACTTTATGTGTCGTATCTC
1 AGGCACTTTATGTGTCGTAT-TC
14580905 AGGCACTTTATGTGTCGTATT-
1 AGGCACTTTATGTGTCGTATTC
* *
14580926 AGGCACCTTGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
14580947 AGGCAC-TTATGTGT
1 AGGCACTTTATGTGT
14580961 TGTTTATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 9 0.17
21 22 0.42
22 1 0.02
23 20 0.38
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.39
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:14586125 original size:10 final size:10
Alignment explanation
Indices: 14586096--14586144 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
14586086 ATGTTTTTCA
14586096 AATTTTTAA-
1 AATTTTTAAT
*
14586105 AATTTTAAAT
1 AATTTTTAAT
*
14586115 AATTATTAAT
1 AATTTTTAAT
* *
14586125 ATTTTTTTAT
1 AATTTTTAAT
14586135 AATTTTTAAT
1 AATTTTTAAT
14586145 TTTTTTTAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:14586136 original size:20 final size:19
Alignment explanation
Indices: 14586113--14586152 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
14586103 AAAATTTTAA
14586113 ATAATTATTAATATTTTTTT
1 ATAATTATTAAT-TTTTTTT
*
14586133 ATAATTTTTAATTTTTTTT
1 ATAATTATTAATTTTTTTT
14586152 A
1 A
14586153 GTTTTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATTATTAATTTTTTTT
Found at i:14589132 original size:22 final size:22
Alignment explanation
Indices: 14589049--14589132 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
14589039 CATGATTATT
*
14589049 TATGCGAACCCTATACATATGTAC
1 TATGCGAACCCTAT--ATTTGTAC
*
14589073 -ATGCGAACCCTTTATTTGTAC
1 TATGCGAACCCTATATTTGTAC
* * *
14589094 TATGTGAACCATTTATTTGTAC
1 TATGCGAACCCTATATTTGTAC
*
14589116 TATGCGAATCCTATATT
1 TATGCGAACCCTATATT
14589133 GCATAAAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.14
22 32 0.63
23 12 0.24
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (22 bp):
TATGCGAACCCTATATTTGTAC
Found at i:14589176 original size:23 final size:23
Alignment explanation
Indices: 14589150--14589213 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
14589140 AACCCTAAAC
14589150 ATTGTTACATACGAA-CTCTACAT
1 ATTGTTACATACGAACCT-TACAT
* *
14589173 ATTGTTAGATACGAACCTTTCAT
1 ATTGTTACATACGAACCTTACAT
* *
14589196 GTTGTTACATGCGAACCT
1 ATTGTTACATACGAACCT
14589214 ATGTGTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 33 0.94
24 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (23 bp):
ATTGTTACATACGAACCTTACAT
Found at i:14597389 original size:13 final size:13
Alignment explanation
Indices: 14597371--14597397 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14597361 AGGGTAGGAA
14597371 ATTATGAAAATGT
1 ATTATGAAAATGT
14597384 ATTATGAAAATGT
1 ATTATGAAAATGT
14597397 A
1 A
14597398 CCCATGGCTG
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTATGAAAATGT
Found at i:14597889 original size:27 final size:24
Alignment explanation
Indices: 14597859--14597913 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 24
14597849 ACTAAAATTA
14597859 AATTTAAAACTTAGCAAAGAAAGCAAT
1 AATTTAAAA-TT-G-AAAGAAAGCAAT
14597886 AA-TTAAAATTGAAAGAAAGCAAT
1 AATTTAAAATTGAAAGAAAGCAAT
14597909 AATTT
1 AATTT
14597914 CAATGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.52
24 3 0.11
25 2 0.07
26 6 0.22
27 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (24 bp):
AATTTAAAATTGAAAGAAAGCAAT
Found at i:14613332 original size:14 final size:14
Alignment explanation
Indices: 14613295--14613352 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
14613285 ATGAAAGTCC
14613295 ATTAGGTTAATTTAG
1 ATTA-GTTAATTTAG
*
14613310 GTTAGTTAATTTA-
1 ATTAGTTAATTTAG
*
14613323 ATTAGTTTAA-TTAA
1 ATTAG-TTAATTTAG
*
14613337 AATA-TTAATTTAG
1 ATTAGTTAATTTAG
14613350 ATT
1 ATT
14613353 CACACTACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 16 0.46
15 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATTAGTTAATTTAG
Found at i:14614711 original size:17 final size:17
Alignment explanation
Indices: 14614686--14614718 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14614676 GAAAAAGGAT
*
14614686 TTTGCTTTTAAATTTTG
1 TTTGATTTTAAATTTTG
14614703 TTTGATTTTAAATTTT
1 TTTGATTTTAAATTTT
14614719 ATTTTTCATT
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:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTGATTTTAAATTTTG
Found at i:14616562 original size:11 final size:11
Alignment explanation
Indices: 14616546--14616571 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14616536 TTCAGTTTCA
14616546 GTTTTTATTTT
1 GTTTTTATTTT
14616557 GTTTTTATTTT
1 GTTTTTATTTT
14616568 GTTT
1 GTTT
14616572 GCTTAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.81
Consensus pattern (11 bp):
GTTTTTATTTT
Found at i:14617017 original size:21 final size:21
Alignment explanation
Indices: 14616991--14617031 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14616981 TTGCAACATG
14616991 CAGCCTTGTATTGAGCCACAA
1 CAGCCTTGTATTGAGCCACAA
*
14617012 CAGCCTTGTGTTGAGCCACA
1 CAGCCTTGTATTGAGCCACA
14617032 TCAACCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (21 bp):
CAGCCTTGTATTGAGCCACAA
Found at i:14620916 original size:23 final size:25
Alignment explanation
Indices: 14620884--14620931 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
14620874 TATAGTGTTT
14620884 ATTTCATTTCATTT-TATT-TATTA
1 ATTTCATTTCATTTATATTATATTA
* *
14620907 ATTTCTTTTCCTTTATATTATATTA
1 ATTTCATTTCATTTATATTATATTA
14620932 CATATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTCATTTCATTTATATTATATTA
Found at i:14623287 original size:40 final size:40
Alignment explanation
Indices: 14623243--14623463 Score: 201
Period size: 40 Copynumber: 5.5 Consensus size: 40
14623233 TAATTATTGA
**
14623243 TGATTGCACATAGGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
* * *
14623283 TGATTGAACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
** ** * * * *
14623323 TGATTATACATAGGCACCCATGTTTGTAATTCGGTACCCC
1 TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
* * * * *
14623363 TGGTTACACATATGTGCCCCTGTTTGTAGTTTGGTACCCC
1 TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
* * * * *
14623403 TAAATGCACATATGTG-CCTTATTTGTACTTTGGTACCCT
1 TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
* * *
14623442 TGAATGCACTTAAGTGCCCCTA
1 TGATTGCACATAGGTGCCCCTA
14623464 ATTATACTCT
Statistics
Matches: 147, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 32 0.22
40 115 0.78
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (40 bp):
TGATTGCACATAGGTGCCCCTATTTGTACTTTGGTACCCC
Found at i:14623322 original size:20 final size:20
Alignment explanation
Indices: 14623299--14623403 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
14623289 AACATACGTG
14623299 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * * *
14623319 CCCCTGATTATACATAGGCA
1 CCCCTGTTTGTACTTTGGTA
* * *
14623339 CCCATGTTTGTAATTCGGTA
1 CCCCTGTTTGTACTTTGGTA
* ** * *
14623359 CCCCTGGTTACACATAT-GTG
1 CCCCTGTTTGTAC-TTTGGTA
*
14623379 CCCCTGTTTGTAGTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
14623399 CCCCT
1 CCCCT
14623404 AAATGCACAT
Statistics
Matches: 57, Mismatches: 26, Indels: 4
0.66 0.30 0.05
Matches are distributed among these distances:
19 2 0.04
20 54 0.95
21 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:14624580 original size:30 final size:30
Alignment explanation
Indices: 14624534--14624657 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
14624524 TTTTATTATG
*
14624534 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
14624565 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14624595 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
14624625 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14624655 CCA
1 CCA
14624658 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:14624586 original size:15 final size:15
Alignment explanation
Indices: 14624544--14624651 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
14624534 CCAATATCTC
*
14624544 GATACCCATATCTTT
1 GATACCCATATATTT
**
14624559 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
14624574 GATACCCATATATTT
1 GATACCCATATATTT
**
14624589 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
14624604 GATACCCATATCTTT
1 GATACCCATATATTT
** *
14624619 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
14624634 GATACCCATATCTTT
1 GATACCCATATATTT
14624649 GAT
1 GAT
14624652 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:14629272 original size:30 final size:30
Alignment explanation
Indices: 14629226--14629349 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
14629216 TTTTATTATG
*
14629226 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
14629257 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14629287 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
14629317 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
14629347 CCA
1 CCA
14629350 TAAATGTGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:14629281 original size:15 final size:15
Alignment explanation
Indices: 14629236--14629343 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
14629226 CCAATATCTC
14629236 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
14629251 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
14629266 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
14629281 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
14629296 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
14629311 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
14629326 GATACCCATATCTTT
1 GATACCCATATCTTT
14629341 GAT
1 GAT
14629344 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:14632215 original size:43 final size:43
Alignment explanation
Indices: 14632167--14632398 Score: 455
Period size: 43 Copynumber: 5.4 Consensus size: 43
14632157 TTGGTTTTCA
14632167 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
14632210 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
14632253 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
14632296 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
14632339 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
14632382 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
14632399 TTGAAATGCA
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 187 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:14632415 original size:29 final size:29
Alignment explanation
Indices: 14632380--14632453 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
14632370 GTTGTGAGAT
* *
14632380 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
14632409 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
14632438 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
14632454 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:14633037 original size:40 final size:40
Alignment explanation
Indices: 14632763--14633023 Score: 287
Period size: 40 Copynumber: 6.5 Consensus size: 40
14632753 TCGAATGATG
* *
14632763 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
14632803 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
14632843 TCCGGGCTAAGTCCCGAAGAGCATTCATACTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
14632883 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
14632923 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
14632963 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
14633003 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
14633024 TAATCATGAT
Statistics
Matches: 185, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 166 0.90
41 18 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:14640627 original size:6 final size:6
Alignment explanation
Indices: 14640616--14640649 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
14640606 ATCCAAAAGC
14640616 TTTTAA TTTTAA TTTTAA TTTTGCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTT--AA TTTTAA TT
14640650 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:14644059 original size:20 final size:20
Alignment explanation
Indices: 14644034--14644105 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
14644024 TAAGCTTATT
*
14644034 ATAAGTAAATGGAATTGAAA
1 ATAAGTAAATGGAATGGAAA
*
14644054 ATAAGTAAATGAAATGGAAA
1 ATAAGTAAATGGAATGGAAA
* *
14644074 GTAAGTAAATGGAATGGTAA
1 ATAAGTAAATGGAATGGAAA
*
14644094 GTAAG-AAATGGA
1 ATAAGTAAATGGA
14644106 GTGGTTCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 7 0.15
20 40 0.85
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (20 bp):
ATAAGTAAATGGAATGGAAA
Found at i:14644085 original size:15 final size:16
Alignment explanation
Indices: 14644065--14644097 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14644055 TAAGTAAATG
14644065 AAATGGAA-AGTAAGT
1 AAATGGAATAGTAAGT
*
14644080 AAATGGAATGGTAAGT
1 AAATGGAATAGTAAGT
14644096 AA
1 AA
14644098 GAAATGGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (16 bp):
AAATGGAATAGTAAGT
Done.