Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 39 of 325
Found at i:14337550 original size:9 final size:9
Alignment explanation
Indices: 14337466--14337603 Score: 65
Period size: 9 Copynumber: 15.0 Consensus size: 9
14337456 AAACTAGAAA
14337466 AAAAATTAT
1 AAAAATTAT
*
14337475 TAAAATTA-
1 AAAAATTAT
14337483 AAAAA--AT
1 AAAAATTAT
14337490 AAAAATCGTA-
1 AAAAAT--TAT
*
14337500 AAAAAATAT
1 AAAAATTAT
*
14337509 AAAAATTGT
1 AAAAATTAT
*
14337518 AAAATTTTAT
1 AAAA-ATTAT
14337528 AAAAATCGTA-
1 AAAAAT--TAT
14337538 AAAAATTAT
1 AAAAATTAT
*
14337547 AAAATTTTAT
1 AAAA-ATTAT
**
14337557 AAAGCTGTA-
1 AAAAAT-TAT
14337566 AGAAAATTAT
1 A-AAAATTAT
14337576 AGAAAATGTA-
1 A-AAAAT-TAT
*
14337586 AAAAAATAT
1 AAAAATTAT
14337595 AAAAATTAT
1 AAAAATTAT
14337604 CGTATCAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 10 0.10
9 39 0.40
10 38 0.39
11 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14337571 original size:29 final size:29
Alignment explanation
Indices: 14337509--14337576 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
14337499 AAAAAAATAT
*
14337509 AAAAATTGTAAAATTTTATAAAAATCGTA
1 AAAAATTATAAAATTTTATAAAAATCGTA
**
14337538 AAAAATTATAAAATTTTATAAAGCT-GTA
1 AAAAATTATAAAATTTTATAAAAATCGTA
14337566 AGAAAATTATA
1 A-AAAATTATA
14337577 GAAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAATTTTATAAAAATCGTA
Found at i:14337591 original size:20 final size:18
Alignment explanation
Indices: 14337562--14337600 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14337552 TTTATAAAGC
*
14337562 TGTAAGAAAATTATAGAAAA
1 TGTAA-AAAAATATA-AAAA
14337582 TGTAAAAAAATATAAAAA
1 TGTAAAAAAATATAAAAA
14337600 T
1 T
14337601 TATCGTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (18 bp):
TGTAAAAAAATATAAAAA
Found at i:14338560 original size:14 final size:15
Alignment explanation
Indices: 14338538--14338614 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
14338528 CAATCAAACA
14338538 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
14338552 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
14338567 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
14338587 CCA-AAAATCATTTT
1 CCAGAAAATCATTTT
* *
14338601 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
14338615 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:14338598 original size:34 final size:35
Alignment explanation
Indices: 14338542--14338608 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
14338532 CAAACACCAG
* *
14338542 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
14338577 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
14338609 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:14343051 original size:23 final size:23
Alignment explanation
Indices: 14343025--14343073 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
14343015 TTAAAATATT
14343025 TAATAAAAAATATATAATTCGAA
1 TAATAAAAAATATATAATTCGAA
*
14343048 TAATAAAAAATATATTATTCGAA
1 TAATAAAAAATATATAATTCGAA
14343071 TAA
1 TAA
14343074 GTAATAGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAAAAAATATATAATTCGAA
Found at i:14343362 original size:90 final size:91
Alignment explanation
Indices: 14343268--14343498 Score: 394
Period size: 91 Copynumber: 2.5 Consensus size: 91
14343258 TATGGATTAA
* *
14343268 ATTAAATTTACAGATACAAAAAAATATAAACATTCTAAGAAATTAATACACAAAAATAT-AAAAA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACAAAAATATAAAAAA
*
14343332 TGAAACCTTAAATCCTAAACAACTAT
66 TGAAACCTTAAATCCTAAACAACTAC
* *
14343358 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACAAAAATATAAAAAA
14343423 TGAAACCTTAAATCCTAAACAACTAC
66 TGAAACCTTAAATCCTAAACAACTAC
14343449 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCT-AAGAAATTAATACA
14343499 ATTATTTTGA
Statistics
Matches: 134, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
90 56 0.42
91 72 0.54
92 6 0.04
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (91 bp):
ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACAAAAATATAAAAAA
TGAAACCTTAAATCCTAAACAACTAC
Found at i:14343847 original size:21 final size:21
Alignment explanation
Indices: 14343777--14343841 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
14343767 AAACAAAAAC
*
14343777 TGAAATGAGAAAAAAATTGAAA
1 TGAAA-GAGAAAAAAATTTAAA
* * *
14343799 TGAGAGATAAATAAATTTAAA
1 TGAAAGAGAAAAAAATTTAAA
14343820 TG--A-A-AAAAAAATTTAAA
1 TGAAAGAGAAAAAAATTTAAA
14343837 TGAAA
1 TGAAA
14343842 TGAAAATGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 14 0.39
18 1 0.03
19 2 0.06
21 15 0.42
22 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (21 bp):
TGAAAGAGAAAAAAATTTAAA
Found at i:14343848 original size:17 final size:17
Alignment explanation
Indices: 14343755--14343841 Score: 93
Period size: 17 Copynumber: 4.8 Consensus size: 17
14343745 AATAAATTAT
14343755 AAATTTAAATGAAAACAA
1 AAATTTAAATGAAAA-AA
* * *
14343773 AAACTGAAATGAGAAAA
1 AAATTTAAATGAAAAAA
*
14343790 AAATTGAAATGAGAGATAAA
1 AAATTTAAATGA-A-A-AAA
14343810 TAAATTTAAATGAAAAAA
1 -AAATTTAAATGAAAAAA
14343828 AAATTTAAATGAAA
1 AAATTTAAATGAAA
14343842 TGAAAATGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
17 27 0.46
18 15 0.25
19 2 0.03
20 4 0.07
21 11 0.19
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (17 bp):
AAATTTAAATGAAAAAA
Found at i:14346443 original size:34 final size:34
Alignment explanation
Indices: 14346400--14346467 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
14346390 TATGTAACTG
14346400 GGGATAAAGCTGAGCAAGGAAATAGATTGAGACA
1 GGGATAAAGCTGAGCAAGGAAATAGATTGAGACA
14346434 GGGATAAAGCTGAGCAAGGAAATAGATTGAGACA
1 GGGATAAAGCTGAGCAAGGAAATAGATTGAGACA
14346468 ACTTTGGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.32, T:0.15
Consensus pattern (34 bp):
GGGATAAAGCTGAGCAAGGAAATAGATTGAGACA
Found at i:14346464 original size:17 final size:17
Alignment explanation
Indices: 14346410--14346464 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
14346400 GGGATAAAGC
14346410 TGAGCAAGGAAATAGAT
1 TGAGCAAGGAAATAGAT
* *
14346427 TGAGACAGGGATAA-AG-C
1 TGAG-CAAGGA-AATAGAT
14346444 TGAGCAAGGAAATAGAT
1 TGAGCAAGGAAATAGAT
14346461 TGAG
1 TGAG
14346465 ACAACTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 2 0.07
16 7 0.23
17 12 0.40
18 7 0.23
19 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.33, T:0.16
Consensus pattern (17 bp):
TGAGCAAGGAAATAGAT
Found at i:14347205 original size:16 final size:15
Alignment explanation
Indices: 14347162--14347206 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
14347152 ATATCGGTTG
*
14347162 TTCTAAACATAGTTA
1 TTCTAAACATAATTA
*
14347177 TTTTGAAACATAATTA
1 TTCT-AAACATAATTA
14347193 TTCTAAACAATAAT
1 TTCTAAAC-ATAAT
14347207 GATTTCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (15 bp):
TTCTAAACATAATTA
Found at i:14355469 original size:14 final size:14
Alignment explanation
Indices: 14355452--14355478 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14355442 TATAAAATCT
14355452 AAATTTTAAAAATA
1 AAATTTTAAAAATA
14355466 AAATTTTAAAAAT
1 AAATTTTAAAAAT
14355479 CCAATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTTTAAAAATA
Found at i:14355703 original size:36 final size:40
Alignment explanation
Indices: 14355633--14355708 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 40
14355623 ATCACTTGAA
* *
14355633 TTTTAAATATATATTTTTAATATTTGTAGCATTTTTTAAT
1 TTTTAAATATATATTTTTAATATTTGTAGAATTTTATAAT
*
14355673 TTTTATATAT-TATTTTTAA-ATTT-TA-AATTTTATAAT
1 TTTTAAATATATATTTTTAATATTTGTAGAATTTTATAAT
14355709 AAATTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 9 0.27
37 2 0.06
38 4 0.12
39 9 0.27
40 9 0.27
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (40 bp):
TTTTAAATATATATTTTTAATATTTGTAGAATTTTATAAT
Found at i:14355705 original size:20 final size:20
Alignment explanation
Indices: 14355631--14355705 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
14355621 TAATCACTTG
14355631 AATTTTAAATATATATTTTTA
1 AATTTTAAATAT-TATTTTTA
**
14355652 ATATTTGT-AGCA-T-TTTTTA
1 A-ATTT-TAAATATTATTTTTA
* *
14355671 ATTTTTATATATTATTTTTA
1 AATTTTAAATATTATTTTTA
*
14355691 AATTTTAAATTTTAT
1 AATTTTAAATATTAT
14355706 AATAAATTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.10
19 8 0.20
20 19 0.47
21 1 0.03
22 6 0.15
23 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (20 bp):
AATTTTAAATATTATTTTTA
Found at i:14362321 original size:14 final size:13
Alignment explanation
Indices: 14362283--14362333 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 13
14362273 TAATAGTTTT
14362283 AAATATTTTAATTA
1 AAATATTTT-ATTA
*
14362297 ATAAAATTTTATTA
1 A-AATATTTTATTA
*
14362311 AAATA-TAT-TTA
1 AAATATTTTATTA
14362322 AAATATTTTATT
1 AAATATTTTATT
14362334 GAAAGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.27
12 4 0.13
13 5 0.17
14 6 0.20
15 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATATTTTATTA
Found at i:14366386 original size:44 final size:43
Alignment explanation
Indices: 14366291--14366620 Score: 255
Period size: 44 Copynumber: 7.7 Consensus size: 43
14366281 TTTTAATCCA
* * **
14366291 CTCCACTGTAACTTCA-GGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCTG-CTTCGATCTG
* * *
14366333 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCT-GCTTCGATCTG
* * * * *
14366377 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT---CTGCTTCGATCTG
* * * *
14366423 CTCCACTGTAACCTCAGGGAAATAAGA-C-CTGATGCGATCTT
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCGATCTG
* * * *
14366464 CTCTACTGTAACTTCAGAGAGATAAGATC-CT--TT-AATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCGATCTG
* * * * * *
14366503 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-CT-GCTTCGATCTG
* * *
14366547 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTCT-GCTTCGATCTG
*
14366591 CTCCGCTGTAACCTCAGGGAGATAAGATCT
1 CTCCACTGTAACCTCAGGGAGATAAGATCT
14366621 GTTATAATGA
Statistics
Matches: 228, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
39 25 0.11
40 3 0.01
41 30 0.13
42 16 0.07
43 12 0.05
44 106 0.46
45 3 0.01
46 32 0.14
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTCTGCTTCGATCTG
Found at i:14366458 original size:217 final size:214
Alignment explanation
Indices: 14366201--14366621 Score: 623
Period size: 214 Copynumber: 2.0 Consensus size: 214
14366191 ATTGTTTTCA
* * * * *
14366201 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGACCTACTCTGCTGTAACCTCAGAG
1 GTCTACTCCACTGCAACCTCAGGGAAATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAG
* *
14366266 AGATAAGATCCTTTATTTTAATCCACTCCACTGTAA-CTTC-AGGAGATAGGA-TAGTGTCTTCG
66 AGATAAGATCC-----TTTAATCCACTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTTCG
14366328 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
125 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
14366393 GGGAGATAAGATCTGAAATTCTCCG
190 GGGAGATAAGATCTGAAATTCTCCG
* * * *
14366418 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTTCTCTACTGTAACTTCAGAG
1 GTCTACTCCACTGCAACCTCAGGGAAATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAG
** * *
14366483 AGATAAGATCCTTTAATCTGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
66 AGATAAGATCCTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGC
*
14366548 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCTCAGGGAGA
131 TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
14366613 TAAGATCTG
196 TAAGATCTG
14366622 TTATAATGAA
Statistics
Matches: 185, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
212 19 0.10
213 12 0.06
214 87 0.47
217 67 0.36
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTACTCCACTGCAACCTCAGGGAAATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:14397876 original size:5 final size:5
Alignment explanation
Indices: 14397850--14397907 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
14397840 ATGTGTTAAA
* *
14397850 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
14397899 ATATT ATAT
1 ATATT ATAT
14397908 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:14397886 original size:10 final size:9
Alignment explanation
Indices: 14397851--14397908 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
14397841 TGTGTTAAAA
14397851 TATATATAT
1 TATATATAT
*
14397860 TAAAT-TAT
1 TATATATAT
14397868 TAT-TATAT
1 TATATATAT
14397876 TATAGTATAT
1 TATA-TATAT
14397886 TATAT-TA-
1 TATATATAT
14397893 TATATTATAT
1 TATA-TATAT
14397903 TATATA
1 TATATA
14397909 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:14397898 original size:12 final size:12
Alignment explanation
Indices: 14397853--14397908 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
14397843 TGTTAAAATA
*
14397853 TATATATTAAAT
1 TATATATTATAT
14397865 TAT-TATTATATT
1 TATATATTATA-T
14397877 ATAGTATATTATAT
1 -TA-TATATTATAT
14397891 TATATATTATAT
1 TATATATTATAT
14397903 TATATA
1 TATATA
14397909 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:14399245 original size:18 final size:19
Alignment explanation
Indices: 14399222--14399260 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
14399212 ATATATAGAT
14399222 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
14399240 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
14399259 AT
1 AT
14399261 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:14399610 original size:39 final size:39
Alignment explanation
Indices: 14399500--14399634 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
14399490 GACCTCGAGT
* * * *
14399500 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
14399541 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
14399579 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
14399618 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
14399635 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:14399778 original size:18 final size:19
Alignment explanation
Indices: 14399757--14399797 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14399747 AATGAAATGA
14399757 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
14399775 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
14399794 GAAA
1 GAAA
14399798 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:14401656 original size:5 final size:5
Alignment explanation
Indices: 14401646--14401673 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14401636 GATCTTCTTC
14401646 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14401674 CTTCTTTCGC
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14412032 original size:21 final size:21
Alignment explanation
Indices: 14412006--14412046 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14411996 ATCTGCTCAA
* *
14412006 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14412027 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14412047 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:14420148 original size:8 final size:8
Alignment explanation
Indices: 14420135--14420163 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14420125 TTATGTTTAG
14420135 TATATTAT
1 TATATTAT
14420143 TATATTAT
1 TATATTAT
14420151 TATATTAT
1 TATATTAT
14420159 TATAT
1 TATAT
14420164 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:14421501 original size:15 final size:15
Alignment explanation
Indices: 14421481--14421537 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
14421471 CGATGAATTT
14421481 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
14421496 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
14421511 ATTGAATTTATATTG
1 ATTGAATTTATATTG
14421526 ATTGAA-TTATAT
1 ATTGAATTTATAT
14421538 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:14421947 original size:23 final size:23
Alignment explanation
Indices: 14421921--14421995 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
14421911 AGAAACTTTA
14421921 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
14421944 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
14421965 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
14421986 TGTGTCGTAT
1 TGTGTCGTAT
14421996 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:14423687 original size:18 final size:20
Alignment explanation
Indices: 14423661--14423697 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
14423651 TACATGTGTT
14423661 ATATGTGAT-T-TTTAAATG
1 ATATGTGATATATTTAAATG
*
14423679 ATATTTGATATATTTAAAT
1 ATATGTGATATATTTAAAT
14423698 TTTAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
ATATGTGATATATTTAAATG
Found at i:14430022 original size:35 final size:35
Alignment explanation
Indices: 14429978--14430107 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 35
14429968 TCCTCATTGA
*
14429978 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
** * **
14430013 AATGTCATACCTACTTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
14430048 AATACCATACCTACGTTTCACAACTCAATATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
** *
14430083 GGTACCATACCTACGTTTCACAACT
1 AATACCATACCTACATTTCACAACT
14430108 TTTCTATGGA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 3 0.04
35 77 0.96
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:14433079 original size:30 final size:30
Alignment explanation
Indices: 14433020--14433077 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
14433010 GATTAATTAC
* * *
14433020 TTTTATATGAATAATAAACTATTACAAAAT
1 TTTTATATGAATAAAAAACAAATACAAAAT
14433050 TTTTATATG-ATAAAAAACAAATACAAAA
1 TTTTATATGAATAAAAAACAAATACAAAA
14433078 ATAATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTTATATGAATAAAAAACAAATACAAAAT
Found at i:14433552 original size:63 final size:63
Alignment explanation
Indices: 14433449--14433578 Score: 208
Period size: 63 Copynumber: 2.1 Consensus size: 63
14433439 TTAAAATATC
** *
14433449 AATG-GCGATGATATCGAAAATCACATTGGCAGACTCAATGTCGAGATAGGGGTTTGGATTCA
1 AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
* *
14433511 AATGCGCGATGATATCGAAAGTCACATTAACAGGCTCAATGTCGAGATAGGGGTTTAGATTCA
1 AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
14433574 AATGC
1 AATGC
14433579 AGTGATAGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
62 4 0.06
63 58 0.94
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (63 bp):
AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
Found at i:14441875 original size:19 final size:20
Alignment explanation
Indices: 14441832--14441875 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
14441822 TAATTTAGTC
14441832 CTTA-TTTCCATAAAATTTCA
1 CTTATTTTCCAT-AAATTTCA
14441852 C--ATTTTCCAT-AATTTCA
1 CTTATTTTCCATAAATTTCA
14441869 CTTATTT
1 CTTATTT
14441876 AATACTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 8 0.38
18 1 0.05
19 11 0.52
20 1 0.05
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTATTTTCCATAAATTTCA
Found at i:14442995 original size:11 final size:12
Alignment explanation
Indices: 14442968--14442994 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14442958 CCAACATTTC
14442968 TTTTCTTTTATT
1 TTTTCTTTTATT
14442980 TTTTCTTTTATT
1 TTTTCTTTTATT
14442992 TTT
1 TTT
14442995 CACTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTATT
Found at i:14458323 original size:77 final size:77
Alignment explanation
Indices: 14458227--14458381 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
14458217 TGATATTGAG
14458227 AGATTTGGAAATTTATGAATTTGTTTGATATTGGGTAAATTCAGAGCCCTTTAATAATAAAAGTA
1 AGATTTGGAAATTTATGAATTTGTTTGATATTGGGTAAATTCAGAGCCCTTTAATAATAAAAGTA
14458292 TTATTAAATTTC
66 TTATTAAATTTC
14458304 AGATTTGGAAATTTATGAATTTGTTTGATATTGGGTAAATTCAGAGCCCTTTAATAATAAAAGTA
1 AGATTTGGAAATTTATGAATTTGTTTGATATTGGGTAAATTCAGAGCCCTTTAATAATAAAAGTA
14458369 TTATTAAATTTC
66 TTATTAAATTTC
14458381 A
1 A
14458382 TGCAATCTCT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.41
Consensus pattern (77 bp):
AGATTTGGAAATTTATGAATTTGTTTGATATTGGGTAAATTCAGAGCCCTTTAATAATAAAAGTA
TTATTAAATTTC
Found at i:14476541 original size:13 final size:14
Alignment explanation
Indices: 14476520--14476548 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14476510 TGAAAAATGG
14476520 ATTAGAAAATATTT
1 ATTAGAAAATATTT
14476534 ATTA-AAAATATTT
1 ATTAGAAAATATTT
14476547 AT
1 AT
14476549 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:14478090 original size:15 final size:15
Alignment explanation
Indices: 14478046--14478092 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14478036 GAATTTATCA
14478046 AATTTATATTGATTG
1 AATTTATATTGATTG
* * * *
14478061 AAATCATTTTAATTG
1 AATTTATATTGATTG
14478076 AATTTATATTGATTG
1 AATTTATATTGATTG
14478091 AA
1 AA
14478093 ATATAATATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (15 bp):
AATTTATATTGATTG
Found at i:14478501 original size:21 final size:23
Alignment explanation
Indices: 14478459--14478501 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14478449 TAATATTCCG
*
14478459 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTAGGATATTCT
14478482 GGTGTGTTTGGG-AGGA-ATTC
1 GGTGTGTTTGGGTAGGATATTC
14478502 GTGTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTAGGATATTCT
Found at i:14480703 original size:43 final size:43
Alignment explanation
Indices: 14480640--14480724 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
14480630 TAAATTTAAT
* *
14480640 TATAATTATCACATCTTCTATTTAATTAT-AATTTTTTTAATTG
1 TATAATTATCACATCGTCTATTTAATT-TCAAATTTTTTAATTG
*
14480683 TATAATTATCACAAT-GTCTATTTTATTTCAAATTTTTTAATT
1 TATAATTATCAC-ATCGTCTATTTAATTTCAAATTTTTTAATT
14480725 AATAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.92
44 2 0.05
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.55
Consensus pattern (43 bp):
TATAATTATCACATCGTCTATTTAATTTCAAATTTTTTAATTG
Found at i:14485565 original size:41 final size:41
Alignment explanation
Indices: 14485492--14485571 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
14485482 TCAAAACCAT
* * **
14485492 AAAGTTACCAACTTATCATAAAGTTATTAAAATTAAATTAG
1 AAAGTTACCAACTTACCATAAAGATACAAAAATTAAATTAG
** *
14485533 AAAGTTACCAACTTACCATAGGGATACAAAAATTTAATT
1 AAAGTTACCAACTTACCATAAAGATACAAAAATTAAATT
14485572 TGTATATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (41 bp):
AAAGTTACCAACTTACCATAAAGATACAAAAATTAAATTAG
Found at i:14487107 original size:16 final size:15
Alignment explanation
Indices: 14487075--14487113 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14487065 TTTATAAAAA
* *
14487075 TTTCAAATTTTTATT
1 TTTCAAAATTATATT
14487090 TTTCAAAATTATATT
1 TTTCAAAATTATATT
14487105 TTTCTAAAA
1 TTTC-AAAA
14487114 AAATATAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTCAAAATTATATT
Found at i:14489650 original size:25 final size:25
Alignment explanation
Indices: 14489615--14489677 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
14489605 CAACAGTGAA
14489615 AAATAAAGTAA-ATTCGTTCTTCTTT
1 AAAT-AAGTAATATTCGTTCTTCTTT
* *
14489640 GAAATAAGTAATTTTCGTTTTTCTTT
1 -AAATAAGTAATATTCGTTCTTCTTT
14489666 AGAATAAGTAAT
1 A-AATAAGTAAT
14489678 TGAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (25 bp):
AAATAAGTAATATTCGTTCTTCTTT
Found at i:14489656 original size:26 final size:26
Alignment explanation
Indices: 14489627--14489678 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
14489617 ATAAAGTAAA
14489627 TTCGTTCTTCTTT-GAAATAAGTAATT
1 TTCGTTCTTCTTTAG-AATAAGTAATT
*
14489653 TTCGTTTTTCTTTAGAATAAGTAATT
1 TTCGTTCTTCTTTAGAATAAGTAATT
14489679 GAATAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (26 bp):
TTCGTTCTTCTTTAGAATAAGTAATT
Found at i:14490029 original size:16 final size:17
Alignment explanation
Indices: 14489996--14490063 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
14489986 ATATGTCACG
14489996 TTAATAAATAATTTAAAAA
1 TTAATAAA-AA-TTAAAAA
*
14490015 TT-ATAAAAATTAAAAT
1 TTAATAAAAATTAAAAA
*
14490031 TTAATAAAAA-T-AAAG
1 TTAATAAAAATTAAAAA
* *
14490046 TTCATAAAAATTTAAAA
1 TTAATAAAAATTAAAAA
14490063 T
1 T
14490064 AATTAGCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.29
16 10 0.24
17 13 0.31
18 5 0.12
19 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (17 bp):
TTAATAAAAATTAAAAA
Found at i:14490585 original size:2 final size:2
Alignment explanation
Indices: 14490578--14490602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14490568 ATTCACAAAA
14490578 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
14490603 TATTACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14493054 original size:113 final size:114
Alignment explanation
Indices: 14492856--14493074 Score: 422
Period size: 113 Copynumber: 1.9 Consensus size: 114
14492846 CCATCAAGAA
*
14492856 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGTCCCGAGTGCCTACCTGA
1 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGACCCGAGTGCCTACCTGA
14492921 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCT-GTCATTAGAGGAGT
66 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATTAGAGGAGT
14492969 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGACCCGAGTGCCTACCTGA
1 ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGACCCGAGTGCCTACCTGA
14493034 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATT
66 ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATT
14493075 CCCATGCTTC
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
113 98 0.94
114 6 0.06
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (114 bp):
ATCTATATTATAAGCTAAAATATTATAGAGGAGTATTTCAAGTCATGACCCGAGTGCCTACCTGA
ATGTGCTTAAAAAGAACATTGACTCTCAGAGGCTCGTCATTAGAGGAGT
Found at i:14506610 original size:11 final size:12
Alignment explanation
Indices: 14506591--14506619 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14506581 GGTAATAAAC
14506591 AAAAGATAAAAT
1 AAAAGATAAAAT
14506603 AAAA-ATAAAAT
1 AAAAGATAAAAT
14506614 AAAAGA
1 AAAAGA
14506620 ATGAATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAGATAAAAT
Found at i:14509679 original size:12 final size:12
Alignment explanation
Indices: 14509646--14509681 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
14509636 CAATTTGTGT
14509646 ATTGTTTTAAG-A
1 ATTGTTTT-AGTA
14509658 ATTGTTTTAGTA
1 ATTGTTTTAGTA
14509670 ATTGTTTTAGTA
1 ATTGTTTTAGTA
14509682 TCATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (12 bp):
ATTGTTTTAGTA
Found at i:14509744 original size:26 final size:24
Alignment explanation
Indices: 14509700--14509749 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
14509690 ATTTGTTTTA
*
14509700 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
14509724 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
14509750 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:14516551 original size:53 final size:53
Alignment explanation
Indices: 14516470--14516620 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
14516460 CTTACACGGC
* *
14516470 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
14516525 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
14516578 TCACATTGCACCGATGCCATAGCCCAGCTCTGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
14516621 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:14521164 original size:32 final size:32
Alignment explanation
Indices: 14521097--14521181 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 32
14521087 CACTTAATTT
*
14521097 AAAAAATTATAATTTGA-TCATTGAACTATTC-
1 AAAAAATTAT-ATTTAAGTCATTGAACTATTCA
*
14521128 AAAAAATTATCTTTAAGTCATTGAACTATTCAA
1 AAAAAATTATATTTAAGTCATTGAACTATTC-A
14521161 AAAAAATT-TATTTAAGTCATT
1 AAAAAATTATATTTAAGTCATT
14521182 AGACCATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
30 4 0.08
31 24 0.50
32 12 0.25
33 8 0.17
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (32 bp):
AAAAAATTATATTTAAGTCATTGAACTATTCA
Found at i:14523047 original size:28 final size:28
Alignment explanation
Indices: 14522992--14523049 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
14522982 TTGGTCTTAT
*
14522992 TTAATTTTTTAATAATATAATGTTTAAA
1 TTAATTTTTTAATAATATAATGTATAAA
14523020 TTAATTTATTTAATAATA-AATAG-ATAAA
1 TTAATTT-TTTAATAATATAAT-GTATAAA
14523048 TT
1 TT
14523050 GTTAATCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TTAATTTTTTAATAATATAATGTATAAA
Found at i:14530935 original size:2 final size:2
Alignment explanation
Indices: 14530919--14530958 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
14530909 TTCATTAACC
* * *
14530919 AT AT AT AC AT GT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14530959 TCTTAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14539386 original size:18 final size:18
Alignment explanation
Indices: 14539363--14539415 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
14539353 GGAGTAAAGA
14539363 GGGAAAAGTAAAAGTTTG
1 GGGAAAAGTAAAAGTTTG
*
14539381 GGGAAAAATAAAAAGTTT-
1 GGGAAAAGT-AAAAGTTTG
* *
14539399 -TGAAGAGTAAAAGTTTG
1 GGGAAAAGTAAAAGTTTG
14539416 AGAGAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 8 0.28
17 5 0.17
18 8 0.28
19 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (18 bp):
GGGAAAAGTAAAAGTTTG
Found at i:14539394 original size:19 final size:18
Alignment explanation
Indices: 14539363--14539398 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14539353 GGAGTAAAGA
*
14539363 GGGAAAAGTAAAAGTTTG
1 GGGAAAAATAAAAGTTTG
14539381 GGGAAAAATAAAAAGTTT
1 GGGAAAAAT-AAAAGTTT
14539399 TGAAGAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (18 bp):
GGGAAAAATAAAAGTTTG
Found at i:14539508 original size:31 final size:29
Alignment explanation
Indices: 14539473--14539531 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
14539463 GGGAGTGGGA
*
14539473 TAGGAAGGAAGCAAAAGTTTTAGGGGGAAAG
1 TAGG-AGGAAGCAAAA-ATTTAGGGGGAAAG
* *
14539504 TAGGAGGGAGTAAAAATTTAGGGGGAAA
1 TAGGAGGAAGCAAAAATTTAGGGGGAAA
14539532 ATAAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 9 0.36
31 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.39, T:0.17
Consensus pattern (29 bp):
TAGGAGGAAGCAAAAATTTAGGGGGAAAG
Found at i:14541218 original size:18 final size:19
Alignment explanation
Indices: 14541181--14541219 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14541171 GTGTATTTAG
*
14541181 AATTTATTTATTTATATTT
1 AATTTATTAATTTATATTT
14541200 AATTTATTAATTT-TATTT
1 AATTTATTAATTTATATTT
14541218 AA
1 AA
14541220 AAAAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTATTAATTTATATTT
Found at i:14542660 original size:46 final size:47
Alignment explanation
Indices: 14542592--14542682 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 47
14542582 ACCAAAAAGG
14542592 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
1 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
* *
14542639 AAATCTGACTC-TCATTATTATATATATAAGATAAACATAGTAAA
1 AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAA
14542683 GAATCACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (47 bp):
AAATCTGACACTTCATTATTATATATATAACATAAACATAGTAAACA
Found at i:14552437 original size:47 final size:47
Alignment explanation
Indices: 14552384--14552475 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
14552374 ATAAAATGTG
14552384 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
1 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
*
14552431 AAATGTATGTATGGAATTTCAATGGAAATCCATACTGAGTTATGG
1 AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGG
14552476 TACAGTGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.32
Consensus pattern (47 bp):
AAATGTAGGTATGGAATTTCAATGGAAATCCATACTGAGTTATGGCA
Found at i:14552600 original size:34 final size:33
Alignment explanation
Indices: 14552520--14552604 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
14552510 ATGGCAAAAA
14552520 TGTGAATGTAGGTATGGCATTTCCCATACCGAG
1 TGTGAATGTAGGTATGGCATTTCCCATACCGAG
* *
14552553 TGATGGAACGTAGGTATGGCA-TTCCCATACTGAG
1 TG-T-GAATGTAGGTATGGCATTTCCCATACCGAG
14552587 TTGTGAAATGTAGGTATG
1 -TGTG-AATGTAGGTATG
14552605 ATATTTCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
33 3 0.07
34 25 0.56
35 17 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (33 bp):
TGTGAATGTAGGTATGGCATTTCCCATACCGAG
Found at i:14554222 original size:15 final size:17
Alignment explanation
Indices: 14554192--14554224 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
14554182 TGACTATCAT
14554192 AATATAATATATTTATA
1 AATATAATATATTTATA
14554209 AATA-AATATA-TTATA
1 AATATAATATATTTATA
14554224 A
1 A
14554225 CATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAATATATTTATA
Found at i:14557214 original size:34 final size:34
Alignment explanation
Indices: 14557161--14557232 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
14557151 ATCCTGGTAA
*
14557161 ATTTTTTTGAATGATTTTTTGTTTCTTCTTTTAG
1 ATTTTTTTGAATGATTTTTTGTTTCTTATTTTAG
14557195 ATTTTTTCTGAATGA-TTTTTGTTTCTTATTTTAG
1 ATTTTTT-TGAATGATTTTTTGTTTCTTATTTTAG
14557229 ATTT
1 ATTT
14557233 ATGATCTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (34 bp):
ATTTTTTTGAATGATTTTTTGTTTCTTATTTTAG
Found at i:14566261 original size:17 final size:19
Alignment explanation
Indices: 14566241--14566278 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14566231 CAGGGGAAGG
14566241 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
14566258 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
14566277 AA
1 AA
14566279 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:14575955 original size:16 final size:16
Alignment explanation
Indices: 14575934--14575964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14575924 TTTATTATTT
14575934 TATTAACATAATATAA
1 TATTAACATAATATAA
*
14575950 TATTAATATAATATA
1 TATTAACATAATATA
14575965 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:14581111 original size:16 final size:16
Alignment explanation
Indices: 14581090--14581120 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14581080 GATATTTTAA
14581090 TATATTATATTAATAT
1 TATATTATATTAATAT
*
14581106 TATATTATGTTAATA
1 TATATTATATTAATA
14581121 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:14591131 original size:16 final size:16
Alignment explanation
Indices: 14591107--14591160 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
14591097 TTTGGTTCGC
* * *
14591107 TGTATTGGATTAGAGA
1 TGTAATGGAATAGAGG
14591123 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
14591139 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
14591155 TGTAAT
1 TGTAAT
14591161 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:14591244 original size:39 final size:43
Alignment explanation
Indices: 14591139--14591248 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
14591129 GGAATAGAGG
14591139 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
14591184 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
14591224 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
14591249 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:14591416 original size:18 final size:17
Alignment explanation
Indices: 14591394--14591428 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14591384 TTATTATTAA
*
14591394 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14591412 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14591429 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14591487 original size:61 final size:61
Alignment explanation
Indices: 14591409--14591728 Score: 238
Period size: 61 Copynumber: 5.3 Consensus size: 61
14591399 TTTTAATTAA
* *
14591409 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* * * * * *
14591470 AATATATGATACTATAAAA-TATAAATTAATATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAAT-TAA-TATTCTTATATGAAT-TTACTCAAATAAT
* *
14591529 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* ** * * * * *
14591590 AATATATGATACTATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATCTTAATTAA-
1 AATATATAATACTATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTA-CTCAAATAAT
* *
14591649 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
**
14591710 AATATATTTTACTATAAAA
1 AATATATAATACTATAAAA
14591729 GATAATTTGA
Statistics
Matches: 195, Mismatches: 39, Indels: 50
0.69 0.14 0.18
Matches are distributed among these distances:
57 11 0.06
58 9 0.05
59 49 0.25
60 43 0.22
61 63 0.32
62 10 0.05
63 10 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
Found at i:14591518 original size:16 final size:17
Alignment explanation
Indices: 14591497--14591534 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14591487 AATATAAATT
*
14591497 AATATAATTATTATT-A
1 AATATAATTATAATTAA
14591513 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
14591529 AATATA
1 AATATA
14591535 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:14591542 original size:14 final size:15
Alignment explanation
Indices: 14591493--14591544 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14591483 ATAAAATATA
14591493 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
14591508 TATTAAATATATTAT
1 AATTAAATATATTAT
14591523 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
14591536 AATTTAATA
1 AATTAAATA
14591545 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:14591592 original size:120 final size:120
Alignment explanation
Indices: 14591372--14591789 Score: 712
Period size: 120 Copynumber: 3.5 Consensus size: 120
14591362 ATTTAATCAT
14591372 ATTTAAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
14591437 ATTAATATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
14591493 AATTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
14591558 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
14591613 ATTTAACATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
**
14591678 TTAATATTCTTATATGAATTTACTCAAATCATAATATATTTTACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
14591733 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
14591790 TAAAATAATT
Statistics
Matches: 282, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
120 277 0.98
121 5 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:14599449 original size:18 final size:18
Alignment explanation
Indices: 14599426--14599461 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14599416 TACTAACAGT
14599426 CAGTCATCTCATAATTAG
1 CAGTCATCTCATAATTAG
14599444 CAGTCATCTCATAATTAG
1 CAGTCATCTCATAATTAG
14599462 TAAGTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
CAGTCATCTCATAATTAG
Found at i:14599681 original size:19 final size:19
Alignment explanation
Indices: 14599640--14599698 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
14599630 GTCATGATTC
*
14599640 TATATAAAAA-TTATAATAAA
1 TATATAAAAACTTA-AA-ATA
14599660 TATATAAAAACTTAAAATA
1 TATATAAAAACTTAAAATA
* * *
14599679 TATGTAAATACATAAAATA
1 TATATAAAAACTTAAAATA
14599698 T
1 T
14599699 TAACAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.56
20 12 0.35
21 3 0.09
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TATATAAAAACTTAAAATA
Found at i:14604213 original size:22 final size:25
Alignment explanation
Indices: 14604172--14604228 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
14604162 AAATTTTATT
14604172 ATTATAAATATACTACATTC-A-CA
1 ATTATAAATATACTACATTCAATCA
14604195 ATTATAAATATA-TACATTCAATCA
1 ATTATAAATATACTACATTCAATCA
14604219 ATTA-AAATAT
1 ATTATAAATAT
14604229 GAAGTAGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.22
23 19 0.59
24 6 0.19
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTATAAATATACTACATTCAATCA
Found at i:14607106 original size:21 final size:21
Alignment explanation
Indices: 14607080--14607120 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14607070 ATCTGCTCAA
* *
14607080 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
14607101 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
14607121 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:14615672 original size:25 final size:23
Alignment explanation
Indices: 14615643--14615694 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
14615633 AATAACAAAA
*
14615643 TTTTAACAGTAGAAATAGATTGTAT
1 TTTTAACAGAAGAAATAG-TT-TAT
*
14615668 TTTTAACAGAAGAATTAGTTTAT
1 TTTTAACAGAAGAAATAGTTTAT
14615691 TTTT
1 TTTT
14615695 TGATCTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 16 0.64
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTTAACAGAAGAAATAGTTTAT
Found at i:14619141 original size:7 final size:7
Alignment explanation
Indices: 14619129--14619154 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14619119 TTTGGACATT
14619129 AAAAATA
1 AAAAATA
14619136 AAAAATA
1 AAAAATA
14619143 AAAAATA
1 AAAAATA
14619150 AAAAA
1 AAAAA
14619155 GAGTTGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:14621947 original size:5 final size:5
Alignment explanation
Indices: 14621933--14621962 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
14621923 TTAGTGCGCT
14621933 AAAT- AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
14621963 GATGAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:14630495 original size:18 final size:19
Alignment explanation
Indices: 14630466--14630501 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
14630456 GTACCAAATT
14630466 AAAATAAAAAATAAATATC
1 AAAATAAAAAATAAATATC
14630485 AAAAT-AAAAATAAATAT
1 AAAATAAAAAATAAATAT
14630502 ACTTCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAAAAAATAAATATC
Found at i:14630725 original size:24 final size:25
Alignment explanation
Indices: 14630672--14630725 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
14630662 TTACTTGTTT
14630672 GAAA-TGAAAATTAAAAATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
* *
14630696 GCAATTGAAAA-TAAATATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
*
14630720 TAAATT
1 GAAATT
14630726 ATTCATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (25 bp):
GAAATTGAAAATTAAAAATTAAAAA
Found at i:14632246 original size:20 final size:20
Alignment explanation
Indices: 14632208--14632246 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14632198 TAATGAATAA
* *
14632208 TAAATTAAAAATAATCGAAC
1 TAAATTAAAAAGAACCGAAC
14632228 TAAATTAAAAAGAACCGAA
1 TAAATTAAAAAGAACCGAA
14632247 AATAACTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAATTAAAAAGAACCGAAC
Found at i:14633878 original size:28 final size:25
Alignment explanation
Indices: 14633838--14633896 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 25
14633828 GATAAAATAA
14633838 TATAACTGATACAA-TATTAATAATTT
1 TATAACTGATACAAGT-TTAA-AATTT
14633864 TATAACTCGATTACAAGGTTTAAAATTT
1 TATAACT-GA-TACAA-GTTTAAAATTT
14633892 TATAA
1 TATAA
14633897 ACTATCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.24
27 2 0.07
28 15 0.52
29 4 0.14
30 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (25 bp):
TATAACTGATACAAGTTTAAAATTT
Found at i:14634031 original size:30 final size:30
Alignment explanation
Indices: 14633996--14634068 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
14633986 TGTTGGTCTG
14633996 AATTTATTTTAAATAGTAAAAA-ATACTTT-A
1 AATTTATTTTAAATA-TAAAAATATA-TTTCA
*
14634026 AATTTAAATTTAAATATAAAAATATATTTCA
1 AATTT-ATTTTAAATATAAAAATATATTTCA
14634057 ACATTT-TTTTAA
1 A-ATTTATTTTAA
14634069 CAGGGAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
30 19 0.51
31 14 0.38
32 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTTATTTTAAATATAAAAATATATTTCA
Found at i:14636516 original size:33 final size:30
Alignment explanation
Indices: 14636455--14636518 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 30
14636445 TTACAAATAA
14636455 TTTATATTAATTATTTAAAAGTATTTAAAT
1 TTTATATTAATTATTTAAAAGTATTTAAAT
* *
14636485 TTTATATTTAATTTATTATAATATTATTTAAAT
1 TTTATA-TTAA-TTATT-TAAAAGTATTTAAAT
14636518 T
1 T
14636519 ATTTTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.21
31 4 0.14
32 5 0.17
33 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTATATTAATTATTTAAAAGTATTTAAAT
Found at i:14638552 original size:62 final size:62
Alignment explanation
Indices: 14638481--14638604 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
14638471 CAACTTCTAC
14638481 TCTTTTTTATATATATATTTTTTTAAGTTTTACTTCTTATTTTATTGTGAATAATCATGAAG
1 TCTTTTTTATATATATATTTTTTTAAGTTTTACTTCTTATTTTATTGTGAATAATCATGAAG
14638543 TCTTTTTTATATATATATTTTTTTAAGTTTTACTTCTTATTTTATTGTGAATAATCATGAAG
1 TCTTTTTTATATATATATTTTTTTAAGTTTTACTTCTTATTTTATTGTGAATAATCATGAAG
14638605 AAAGAATTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (62 bp):
TCTTTTTTATATATATATTTTTTTAAGTTTTACTTCTTATTTTATTGTGAATAATCATGAAG
Found at i:14658324 original size:2 final size:2
Alignment explanation
Indices: 14658317--14658353 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14658307 GATCAAGCAA
14658317 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14658354 AACAGGGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14660844 original size:21 final size:19
Alignment explanation
Indices: 14660818--14660859 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
14660808 TAAAAAACCC
14660818 AAAAATTTCATAAAATTATTT
1 AAAAATTTCAT-AAATT-TTT
14660839 AAAAATTTCATAAATTTTT
1 AAAAATTTCATAAATTTTT
14660858 AA
1 AA
14660860 GATTTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 11 0.52
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAATTTCATAAATTTTT
Found at i:14663702 original size:14 final size:14
Alignment explanation
Indices: 14663683--14663722 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
14663673 AACTTTGAAT
14663683 TCTAAATTTTAAAC
1 TCTAAATTTTAAAC
*
14663697 TCTAAATATTAAAC
1 TCTAAATTTTAAAC
*
14663711 TCAAAATTTTAA
1 TCTAAATTTTAA
14663723 CCCTAAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (14 bp):
TCTAAATTTTAAAC
Found at i:14666113 original size:18 final size:18
Alignment explanation
Indices: 14666090--14666142 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
14666080 GATAAATCCT
14666090 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
* *
14666108 AATCAAGGATTGACCCCC
1 AATCAAGGATTTACTCCC
*
14666126 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
14666143 TATATTAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:14668138 original size:16 final size:17
Alignment explanation
Indices: 14668117--14668150 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14668107 ATTAAAAGAA
14668117 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
14668133 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
14668150 A
1 A
14668151 GAGAGAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:14670639 original size:19 final size:20
Alignment explanation
Indices: 14670600--14670640 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14670590 ATTAACAATA
14670600 TATATGGTAAAATATTATTT
1 TATATGGTAAAATATTATTT
14670620 TATATGGTAAAATA-TATTT
1 TATATGGTAAAATATTATTT
14670639 TA
1 TA
14670641 CGATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TATATGGTAAAATATTATTT
Found at i:14670670 original size:18 final size:18
Alignment explanation
Indices: 14670627--14670679 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
14670617 TTTTATATGG
14670627 TAAAATATATT-T-TACGA
1 TAAAATATATTGTATAC-A
14670644 TAAAA-ATATTGTATACA
1 TAAAATATATTGTATACA
*
14670661 TAAAATATATAGTA-ACA
1 TAAAATATATTGTATACA
14670678 TA
1 TA
14670680 TTAAAGGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.16
17 17 0.53
18 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (18 bp):
TAAAATATATTGTATACA
Found at i:14672187 original size:17 final size:17
Alignment explanation
Indices: 14672165--14672200 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14672155 AAAGATATTA
14672165 TTCTTTAATTTGCACTT
1 TTCTTTAATTTGCACTT
**
14672182 TTCTTTTGTTTGCACTT
1 TTCTTTAATTTGCACTT
14672199 TT
1 TT
14672201 ATAAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (17 bp):
TTCTTTAATTTGCACTT
Found at i:14682366 original size:34 final size:35
Alignment explanation
Indices: 14682300--14682366 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
14682290 TATTTTACAC
* *
14682300 AGAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AGAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
14682335 AGAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AGAACATTTTCCAGTAAATCATTTTACAGAAAA
14682367 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (35 bp):
AGAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14685997 original size:18 final size:18
Alignment explanation
Indices: 14685970--14686062 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
14685960 TACGACCGTT
14685970 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
14685988 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
14686006 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
14686024 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
14686042 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
14686060 TAC
1 TAC
14686063 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:14686020 original size:36 final size:36
Alignment explanation
Indices: 14685970--14686062 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
14685960 TACGACCGTT
*
14685970 TACGGTACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
14686006 TATGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
14686042 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
14686063 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:14690854 original size:11 final size:11
Alignment explanation
Indices: 14690838--14690863 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14690828 GCAAGCAAAT
14690838 AGAAAAAAAAA
1 AGAAAAAAAAA
14690849 AGAAAAAAAAA
1 AGAAAAAAAAA
14690860 AGAA
1 AGAA
14690864 GAAGAGAAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:14695898 original size:18 final size:16
Alignment explanation
Indices: 14695855--14695898 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
14695845 AAGTTGACAC
14695855 AAATATCATCAAAAAAAA
1 AAATATCATC--AAAAAA
*
14695873 AAATATCATC-AAAAG
1 AAATATCATCAAAAAA
14695888 AAATATCATCA
1 AAATATCATCA
14695899 GTTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
18 10 0.42
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATATCATCAAAAAA
Found at i:14699290 original size:2 final size:2
Alignment explanation
Indices: 14699283--14699311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14699273 CAAAGCGATC
14699283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14699312 CTAAATTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14701598 original size:16 final size:18
Alignment explanation
Indices: 14701565--14701601 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
14701555 ATTTTTTGAG
14701565 AAATATTTCTAGACAAAT
1 AAATATTTCTAGACAAAT
*
14701583 AAAT-TTTCTA-ATAAAT
1 AAATATTTCTAGACAAAT
14701599 AAA
1 AAA
14701602 AGATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATTTCTAGACAAAT
Found at i:14701646 original size:26 final size:27
Alignment explanation
Indices: 14701617--14701667 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
14701607 ATAAAAACTC
14701617 TATTTTAAAAAATA-ATTCTTATATGG
1 TATTTTAAAAAATATATTCTTATATGG
* *
14701643 TATTTTTAAAAATATATTTTTATAT
1 TATTTTAAAAAATATATTCTTATAT
14701668 AGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
TATTTTAAAAAATATATTCTTATATGG
Found at i:14701665 original size:27 final size:26
Alignment explanation
Indices: 14701617--14701678 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
14701607 ATAAAAACTC
* *
14701617 TATTTTAAAAAATAATTCTTATATGG
1 TATTTTTAAAAATAATTCTTATATAG
*
14701643 TATTTTTAAAAATATATTTTTATATAG
1 TATTTTTAAAAATA-ATTCTTATATAG
*
14701670 AATTTTTAA
1 TATTTTTAA
14701679 TTTATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
TATTTTTAAAAATAATTCTTATATAG
Found at i:14705304 original size:45 final size:45
Alignment explanation
Indices: 14705233--14705337 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
14705223 CAACTACTGT
* * *
14705233 TACTGTTACCCTTACTGTTACCGATTC-GACACTTGGTGTGTCAAA
1 TACTGTTACCGTTACTATTACAGATTCAG-CACTTGGTGTGTCAAA
* **
14705278 TACTGTTACCGTTACTATTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTATTACAGATTCAGCACTTGGTGTGTCAAA
*
14705323 TACTGTTACTGTTAC
1 TACTGTTACCGTTAC
14705338 CGTTACTGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
TACTGTTACCGTTACTATTACAGATTCAGCACTTGGTGTGTCAAA
Found at i:14717503 original size:13 final size:13
Alignment explanation
Indices: 14717485--14717509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14717475 ATGGTTTAGG
14717485 GTTTTGAAGTGGT
1 GTTTTGAAGTGGT
14717498 GTTTTGAAGTGG
1 GTTTTGAAGTGG
14717510 GTCAAGCATG
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:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (13 bp):
GTTTTGAAGTGGT
Found at i:14720072 original size:31 final size:29
Alignment explanation
Indices: 14720006--14720064 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
14719996 GAATTTGATC
14720006 AAATCAAAATTATATGTATAAAATTACACA
1 AAATCAAAA-TATATGTATAAAATTACACA
*
14720036 AAATCAAAA-ATCATGTATACAATTACACA
1 AAATCAAAATAT-ATGTATAAAATTACACA
14720065 TTAAATCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.07
29 16 0.59
30 9 0.33
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (29 bp):
AAATCAAAATATATGTATAAAATTACACA
Found at i:14722975 original size:27 final size:27
Alignment explanation
Indices: 14722945--14723016 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 27
14722935 GAATTCTATT
14722945 ATCTGATTTCTAATTTTATGCAATAAA
1 ATCTGATTTCTAATTTTATGCAATAAA
* **
14722972 ATC-----T-TAATTTTATGAAATATT
1 ATCTGATTTCTAATTTTATGCAATAAA
14722993 ATCTGATTTCTAATTTTATGCAAT
1 ATCTGATTTCTAATTTTATGCAAT
14723017 GATTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
21 17 0.49
22 1 0.03
26 1 0.03
27 16 0.46
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (27 bp):
ATCTGATTTCTAATTTTATGCAATAAA
Found at i:14724123 original size:23 final size:19
Alignment explanation
Indices: 14724074--14724110 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14724064 CCCTGTTTTA
*
14724074 CCCTCTGCCTCTTCTGTTC
1 CCCTTTGCCTCTTCTGTTC
14724093 CCCTTTGCCTCTTCTGTT
1 CCCTTTGCCTCTTCTGTT
14724111 TCGCCCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.43, G:0.11, T:0.46
Consensus pattern (19 bp):
CCCTTTGCCTCTTCTGTTC
Found at i:14724172 original size:12 final size:13
Alignment explanation
Indices: 14724155--14724188 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14724145 CTTTTATTTG
14724155 CTTTGCTTTC-TC
1 CTTTGCTTTCTTC
14724167 CTTTGCTTTCTTC
1 CTTTGCTTTCTTC
14724180 CTTTGCTTT
1 CTTTGCTTT
14724189 GCTTTCTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.62
Consensus pattern (13 bp):
CTTTGCTTTCTTC
Found at i:14726529 original size:18 final size:18
Alignment explanation
Indices: 14726483--14726530 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14726473 TATAAGAATA
*
14726483 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
14726499 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
14726516 TTAATTATAATATAT
1 TTAATTATAATATAT
14726531 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:14726535 original size:15 final size:15
Alignment explanation
Indices: 14726500--14726551 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14726490 TTAATAATTT
*
14726500 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14726514 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14726528 TATTTAATAATAAT-
1 TATTTAATTATAATA
14726542 TATGTTAATT
1 TAT-TTAATT
14726552 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14726618 original size:66 final size:65
Alignment explanation
Indices: 14726548--14726742 Score: 182
Period size: 56 Copynumber: 3.1 Consensus size: 65
14726538 TAATTATGTT
14726548 AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTAA
1 AATTT-TATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTAA
14726613 G
65 G
* * * * * *
14726614 AATTTTA--TTA-A--ATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATT-ATGTTA
1 AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTAATTTTA
*
14726668 AT
64 AG
* *
14726670 T--TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
1 AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT-TTAA
14726733 G
65 G
14726734 AATTTTATT
1 AATTTTATT
14726743 AAATTATATA
Statistics
Matches: 95, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
54 3 0.03
56 20 0.21
57 6 0.06
58 1 0.01
59 13 0.14
60 13 0.14
61 1 0.01
62 6 0.06
63 16 0.17
64 4 0.04
65 2 0.02
66 10 0.11
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (65 bp):
AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTAAG
Found at i:14726648 original size:119 final size:120
Alignment explanation
Indices: 14726466--14726786 Score: 619
Period size: 119 Copynumber: 2.7 Consensus size: 120
14726456 ATTGTTTTAT
*
14726466 TAAATT-ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
14726530 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
14726585 TAAATTCATATAAGAATATTAATT-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
14726649 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
14726704 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
14726769 TTTAATAATAATTATGTT
66 TTTAATAATAATTATGTT
14726787 TAAATATGAT
Statistics
Matches: 199, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
119 124 0.62
120 75 0.38
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:14726654 original size:15 final size:15
Alignment explanation
Indices: 14726619--14726670 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14726609 TTAAGAATTT
*
14726619 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14726633 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14726647 TATTTAATAATAAT-
1 TATTTAATTATAATA
14726661 TATGTTAATT
1 TAT-TTAATT
14726671 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14726769 original size:16 final size:16
Alignment explanation
Indices: 14726748--14726789 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14726738 TTATTAAATT
*
14726748 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14726764 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14726779 AT-TATGTTTAA
1 ATATAT-TTTAA
14726790 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14726774 original size:15 final size:15
Alignment explanation
Indices: 14726739--14726780 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14726729 TTAAGAATTT
*
14726739 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14726753 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14726767 TATTTAATAATAAT
1 TATTTAATTATAAT
14726781 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14727027 original size:16 final size:16
Alignment explanation
Indices: 14727006--14727057 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
14726996 GATTTGCTAT
*
14727006 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
*
14727022 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
14727038 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14727054 TACA
1 TACA
14727058 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14732742 original size:4 final size:4
Alignment explanation
Indices: 14732733--14732759 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14732723 CTTGCTTAAT
14732733 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
14732760 TGTATGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:14733653 original size:26 final size:26
Alignment explanation
Indices: 14733624--14733673 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14733614 TTTAAACCAA
14733624 ATTTTTTAAAAGCA-TTTCTCAAAAGT
1 ATTTTTTAAAAGCACTTT-TCAAAAGT
* *
14733650 ATTTTTTCACAGCACTTTTCAAAA
1 ATTTTTTAAAAGCACTTTTCAAAA
14733674 ACATTGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (26 bp):
ATTTTTTAAAAGCACTTTTCAAAAGT
Done.