Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 311 of 320
Found at i:99180007 original size:15 final size:16
Alignment explanation
Indices: 99179976--99180019 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
99179966 TGGTTCATGT
*
99179976 ATTTTAA-TTTAATTA
1 ATTTTAATTTTTATTA
99179991 ATTTTAATTTTTA-TA
1 ATTTTAATTTTTATTA
99180006 ATATTTAATTTTTA
1 AT-TTTAATTTTTA
99180020 AATCCTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTAATTTTTATTA
Found at i:99182493 original size:21 final size:20
Alignment explanation
Indices: 99182457--99182502 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
99182447 TAATAATTGC
**
99182457 TTTAATATTATTTTTATTTT
1 TTTAATATTATTTTTAAGTT
*
99182477 TTTAATATTTGTTTTTAAGTT
1 TTTAATA-TTATTTTTAAGTT
99182498 TTTAA
1 TTTAA
99182503 ATATATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTAATATTATTTTTAAGTT
Found at i:99182499 original size:22 final size:21
Alignment explanation
Indices: 99182457--99182506 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
99182447 TAATAATTGC
*
99182457 TTTAATA-TTATTTTTATTTT
1 TTTAATATTTATTTTTAGTTT
*
99182477 TTTAATATTTGTTTTTAAGTTT
1 TTTAATATTTATTTTT-AGTTT
*
99182499 TTAAATAT
1 TTTAATAT
99182507 ATTTGATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 7 0.28
22 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTAATATTTATTTTTAGTTT
Found at i:99182508 original size:24 final size:26
Alignment explanation
Indices: 99182481--99182529 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
99182471 TATTTTTTTA
99182481 ATATTTG-TTT-TTA-AGTTTTTAAAT
1 ATATTTGATTTATTATA-TTTTTAAAT
99182505 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
99182530 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 11 0.50
27 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:99188912 original size:27 final size:27
Alignment explanation
Indices: 99188867--99188919 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
99188857 AAGATAAATT
* *
99188867 AAATTAATAATTTTGAAAATTTTATAA
1 AAATTAATAATTTTAAAAAATTTATAA
99188894 AAATTAA-AATTTTTAAAAAATTTATA
1 AAATTAATAA-TTTTAAAAAATTTATA
99188920 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
AAATTAATAATTTTAAAAAATTTATAA
Found at i:99188922 original size:17 final size:18
Alignment explanation
Indices: 99188882--99188915 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99188872 AATAATTTTG
99188882 AAAA-TTTTATAAAAATT
1 AAAATTTTTATAAAAATT
99188899 AAAATTTTTA-AAAAATT
1 AAAATTTTTATAAAAATT
99188916 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTTTATAAAAATT
Found at i:99200817 original size:61 final size:64
Alignment explanation
Indices: 99200678--99200827 Score: 189
Period size: 61 Copynumber: 2.3 Consensus size: 64
99200668 TTGAAAACGA
* *
99200678 CTTTTTATTGTTTTGGCAATTTTAGTTAATGTGAAAACCATAACCATAATAATGATGAGTATCTT
1 CTTTTTATTGTTTTGGTAATTTTAGTTAATGTG--AA-CATAACCATAATAATGATGAATATCTT
99200743 CT
63 CT
* * *
99200745 CTTCTAATTGTTTTGGTAATTTTAGTTAATGTG-A-AT-ACCATAATAATGGTGAATATCTTCT
1 CTTTTTATTGTTTTGGTAATTTTAGTTAATGTGAACATAACCATAATAATGATGAATATCTTCT
* *
99200806 CTTTTTCTTGTTTTGGTCATTT
1 CTTTTTATTGTTTTGGTAATTT
99200828 CTTAAGTTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
61 41 0.55
62 2 0.03
64 1 0.01
67 30 0.41
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (64 bp):
CTTTTTATTGTTTTGGTAATTTTAGTTAATGTGAACATAACCATAATAATGATGAATATCTTCT
Found at i:99216846 original size:11 final size:11
Alignment explanation
Indices: 99216830--99216881 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
99216820 ATACATATTT
99216830 TTATTATTGTA
1 TTATTATTGTA
*
99216841 TTATTATT-AA
1 TTATTATTGTA
* *
99216851 ATATTATAAGTA
1 TTATTAT-TGTA
99216863 TTATTATTGTA
1 TTATTATTGTA
*
99216874 TGATTATT
1 TTATTATT
99216882 AAATATTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 7 0.22
11 18 0.56
12 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATTATTGTA
Found at i:99217336 original size:11 final size:11
Alignment explanation
Indices: 99217320--99217371 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
99217310 AATAATATTT
*
99217320 AATAATCATAC
1 AATAATAATAC
99217331 AATAATAATAC
1 AATAATAATAC
* **
99217342 TTATAAT-ATTT
1 -AATAATAATAC
99217353 AATAATAATAC
1 AATAATAATAC
99217364 AATAATAA
1 AATAATAA
99217372 AAATATATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 5 0.16
11 22 0.69
12 5 0.16
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATAC
Found at i:99225333 original size:33 final size:35
Alignment explanation
Indices: 99225272--99225337 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
99225262 TAACAGTCTG
*
99225272 TGATTCTCAAAAAGAAAATCACTAACAAATTTCGA
1 TGATTCTCAAAAAGAAAATCACGAACAAATTTCGA
*
99225307 TGATTCTC-AAAAG-AAATCACGGACAAATTTC
1 TGATTCTCAAAAAGAAAATCACGAACAAATTTC
99225338 AGCCACTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.55
34 5 0.17
35 8 0.28
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (35 bp):
TGATTCTCAAAAAGAAAATCACGAACAAATTTCGA
Found at i:99227749 original size:11 final size:11
Alignment explanation
Indices: 99227733--99227806 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 11
99227723 AATAAAAGTG
99227733 ATATTTTTTTA
1 ATATTTTTTTA
99227744 ATATTTTTTCTCA
1 ATATTTTTT-T-A
*
99227757 AT-TTTTTTAA
1 ATATTTTTTTA
*
99227767 ATATTAATTATATA
1 ATATT--TT-TTTA
99227781 TATACTTTTTTTA
1 -ATA-TTTTTTTA
99227794 ATATTATTTTTA
1 ATATT-TTTTTA
99227806 A
1 A
99227807 AAGTATTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
10 3 0.06
11 13 0.26
12 17 0.34
13 8 0.16
14 4 0.08
15 3 0.06
16 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTTTTTTA
Found at i:99233613 original size:14 final size:15
Alignment explanation
Indices: 99233594--99233626 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
99233584 TATTTAGTAA
*
99233594 ATTTTTTTAAAAT-T
1 ATTTTTTAAAAATAT
99233608 ATTTTTTAAAAATAT
1 ATTTTTTAAAAATAT
99233623 ATTT
1 ATTT
99233627 ATAGTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTTAAAAATAT
Found at i:99233721 original size:11 final size:12
Alignment explanation
Indices: 99233699--99233723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99233689 TTTATAACAT
99233699 AAAATTGAAAAA
1 AAAATTGAAAAA
99233711 AAAATTGAAAAA
1 AAAATTGAAAAA
99233723 A
1 A
99233724 GCAAATGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATTGAAAAA
Found at i:99242144 original size:20 final size:21
Alignment explanation
Indices: 99242103--99242148 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
99242093 AGTTGGACTT
99242103 AAGAT-TAAAAGAATTTACTA
1 AAGATATAAAAGAATTTACTA
* *
99242123 AAGATATAAAAGAGTTT-TTA
1 AAGATATAAAAGAATTTACTA
99242143 AAGATA
1 AAGATA
99242149 CCAACTGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.30
Consensus pattern (21 bp):
AAGATATAAAAGAATTTACTA
Found at i:99253055 original size:22 final size:22
Alignment explanation
Indices: 99253027--99253068 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
99253017 TTAGCCATTT
99253027 AGCTTTGATGGGTTTACCTTTA
1 AGCTTTGATGGGTTTACCTTTA
99253049 AGCTTTGATGGGTTTACCTT
1 AGCTTTGATGGGTTTACCTT
99253069 ATTTAACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (22 bp):
AGCTTTGATGGGTTTACCTTTA
Found at i:99259507 original size:20 final size:18
Alignment explanation
Indices: 99259456--99259507 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
99259446 AAAACTATAA
99259456 AAAAATTATAAATATTTT
1 AAAAATTATAAATATTTT
* *
99259474 TAAAATTTTCAAATAATTTAT
1 AAAAATTAT-AAAT-ATTT-T
*
99259495 AAAAATTCTAAAT
1 AAAAATTATAAAT
99259508 TTTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 8 0.30
21 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATAAATATTTT
Found at i:99259541 original size:9 final size:9
Alignment explanation
Indices: 99259527--99259586 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
99259517 TTAAAAATAT
99259527 AAATATTAA
1 AAATATTAA
99259536 AAATATTAA
1 AAATATTAA
*
99259545 AAATTATAAA
1 AAA-TATTAA
* *
99259555 AAAAATTTA
1 AAATATTAA
*
99259564 AAATTTTAA
1 AAATATTAA
* *
99259573 AAATTTTTA
1 AAATATTAA
99259582 AAATA
1 AAATA
99259587 ATATTTTTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAATATTAA
Found at i:99259545 original size:16 final size:15
Alignment explanation
Indices: 99259517--99259577 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
99259507 TTTTATATTT
*
99259517 TTAAAAATATAAATA
1 TTAAAAATATAAAAA
99259532 TTAAAAATATTAAAAA
1 TTAAAAATA-TAAAAA
* *
99259548 TTATAAA-A-AAAAT
1 TTAAAAATATAAAAA
* *
99259561 TTAAAATTTTAAAAA
1 TTAAAAATATAAAAA
99259576 TT
1 TT
99259578 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 9 0.25
15 16 0.44
16 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:99259566 original size:19 final size:19
Alignment explanation
Indices: 99259534--99259575 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
99259524 TATAAATATT
*
99259534 AAAAATATTAAAAATTATA
1 AAAAAAATTAAAAATTATA
* *
99259553 AAAAAAATTTAAAATTTTA
1 AAAAAAATTAAAAATTATA
99259572 AAAA
1 AAAA
99259576 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAAATTAAAAATTATA
Found at i:99261990 original size:33 final size:35
Alignment explanation
Indices: 99261953--99262049 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
99261943 ATAGTTATAT
99261953 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
99261986 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
99262021 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
99262050 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:99264729 original size:24 final size:24
Alignment explanation
Indices: 99264701--99264753 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
99264691 CACCTTTGAA
*
99264701 ACCCTTTCCACAGCTCCTTTCTTC
1 ACCCTTTCCACAGCTCCTCTCTTC
99264725 ACCCTTTCCACAGCTCCTCTCTTC
1 ACCCTTTCCACAGCTCCTCTCTTC
99264749 ACCCT
1 ACCCT
99264754 ATCGATTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.49, G:0.04, T:0.34
Consensus pattern (24 bp):
ACCCTTTCCACAGCTCCTCTCTTC
Found at i:99267805 original size:49 final size:49
Alignment explanation
Indices: 99267751--99267850 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
99267741 CAAGATAGTT
99267751 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAA
1 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAA
99267800 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAA
1 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAA
99267849 AA
1 AA
99267851 TATTAAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (49 bp):
AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAA
Found at i:99268139 original size:20 final size:20
Alignment explanation
Indices: 99268114--99268153 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99268104 AATATTTTTT
*
99268114 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
99268134 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
99268154 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:99268160 original size:14 final size:14
Alignment explanation
Indices: 99268137--99268176 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99268127 ACAGAAAAGT
*
99268137 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
99268151 AAATCATTTTACGG
1 AAAACATTTTACAG
99268165 AAAACATTTTAC
1 AAAACATTTTAC
99268177 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:99272510 original size:60 final size:59
Alignment explanation
Indices: 99272382--99272527 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 59
99272372 AACTATAACT
* * * *
99272382 TTTTTCTTTTTTAGTCATTCAATTATGAAAAGTTACAAAATTGTCATTCAACTGTTAGTA
1 TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTCAACTATTAG-A
** * * *
99272442 AATTTCTTTTTTAGTCACCCAACTATGAAATGTTACAAAATAGTCATTTAACTATTCA-A
1 TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTCAACTATT-AGA
99272501 TTTTGTCTTTTTT-GATCACTCAACTAT
1 TTTT-TCTTTTTTAG-TCACTCAACTAT
99272528 TCAGTATTTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
59 4 0.06
60 66 0.93
61 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (59 bp):
TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTCAACTATTAGA
Found at i:99282463 original size:20 final size:23
Alignment explanation
Indices: 99282416--99282463 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
99282406 TTTAATATTT
*
99282416 TTTAGATAGATTTACAAATTTGAA
1 TTTAGATAGATTTACAAAATTG-A
99282440 TTTAGATA-ATTTA-AAAATTG-
1 TTTAGATAGATTTACAAAATTGA
99282460 TTTA
1 TTTA
99282464 TTTCCAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.17
22 6 0.26
23 5 0.22
24 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTAGATAGATTTACAAAATTGA
Found at i:99284150 original size:52 final size:52
Alignment explanation
Indices: 99283999--99284150 Score: 162
Period size: 53 Copynumber: 2.9 Consensus size: 52
99283989 CCATGGCAAC
* * * **
99283999 AAGTGATAAGCGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 AAGTGATAAGTG-TATCCGTATAAGACCATAGCTGGGATATGGCATCAGAGAA
* *
99284052 AAGTGATACAAGTG-ATCCGTATAAGACCATAGCTGGGTTATTGCATCAGAGAA
1 AAGTGAT--AAGTGTATCCGTATAAGACCATAGCTGGGATATGGCATCAGAGAA
* * * * *
99284105 AAGTGATAAGTGTTTCCGTGTAAGTCCATATCCGGGATATGGCATC
1 AAGTGATAAGTGTATCCGTATAAGACCATAGCTGGGATATGGCATC
99284151 GGTATGATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
51 5 0.06
52 26 0.31
53 48 0.58
55 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (52 bp):
AAGTGATAAGTGTATCCGTATAAGACCATAGCTGGGATATGGCATCAGAGAA
Found at i:99292509 original size:21 final size:22
Alignment explanation
Indices: 99292454--99292513 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
99292444 AAGTTTACAT
99292454 ATTTTTTAAA-ATTTATTTTCA
1 ATTTTTTAAATATTTATTTTCA
*
99292475 ATTTGTTAGAAAATATTTATTTT-A
1 ATTT-TT--TAAATATTTATTTTCA
99292499 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
99292514 TTGATGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 2 0.06
24 8 0.24
25 9 0.27
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (22 bp):
ATTTTTTAAATATTTATTTTCA
Found at i:99293999 original size:39 final size:40
Alignment explanation
Indices: 99293944--99294028 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
99293934 TCAAATACAT
99293944 TTAAAACAAATATTAAAACAAAAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
* * * *
99293983 TTAAAACAATTTTTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
*
99294023 ATAAAA
1 TTAAAA
99294029 ATTAATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 25 0.62
40 15 0.38
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
Found at i:99294089 original size:24 final size:23
Alignment explanation
Indices: 99294044--99294089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
99294034 TTTTATTAAA
* * *
99294044 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAAAAGAAATATG
99294067 ATTAAAAATAAAAAAGAATATAT
1 ATTAAAAATAAAAAAGAA-ATAT
99294090 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATTAAAAATAAAAAAGAAATATG
Found at i:99300977 original size:29 final size:29
Alignment explanation
Indices: 99300944--99301003 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 29
99300934 AATTTTGGAT
99300944 TTTAGTTT-TTGTACTTTT-ATTTTCAGAAA
1 TTTAGTTTCTT-TACTTTTAATTTTCA-AAA
99300973 TTTAGTTTCTTTACTTTTCAATTTTCAAAA
1 TTTAGTTTCTTTACTTTT-AATTTTCAAAA
99301003 T
1 T
99301004 GCATGACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 15 0.54
30 6 0.21
31 7 0.25
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTAGTTTCTTTACTTTTAATTTTCAAAA
Found at i:99304693 original size:21 final size:21
Alignment explanation
Indices: 99304664--99304704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99304654 AAGTGATAAG
99304664 ATTTAAATTTAAAA-TATTAAC
1 ATTTAAA-TTAAAATTATTAAC
*
99304685 ATTTTAATTAAAATTATTAA
1 ATTTAAATTAAAATTATTAA
99304705 TTTTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAAATTAAAATTATTAAC
Found at i:99305550 original size:16 final size:16
Alignment explanation
Indices: 99305531--99305561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99305521 ATTGAAAAAT
99305531 AAAAAATTTAAATTTC
1 AAAAAATTTAAATTTC
*
99305547 AAAAATTTTAAATTT
1 AAAAAATTTAAATTT
99305562 TAAATTTTAA
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):
AAAAAATTTAAATTTC
Found at i:99305561 original size:7 final size:7
Alignment explanation
Indices: 99305549--99305584 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
99305539 TAAATTTCAA
99305549 AAATTTT
1 AAATTTT
99305556 AAATTTT
1 AAATTTT
99305563 AAATTTT
1 AAATTTT
99305570 AAATTTT
1 AAATTTT
99305577 AAATTTT
1 AAATTTT
99305584 A
1 A
99305585 TACATGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:99306118 original size:9 final size:10
Alignment explanation
Indices: 99306091--99306122 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
99306081 AAAAAATATT
99306091 TTTTAAAAAA
1 TTTTAAAAAA
99306101 TTTTAAAAAA
1 TTTTAAAAAA
99306111 TTTTAAAAAA
1 TTTTAAAAAA
99306121 TT
1 TT
99306123 AATTAAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:99307091 original size:11 final size:11
Alignment explanation
Indices: 99307063--99307092 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
99307053 ATTGTTATTA
99307063 TAATTAAATTT
1 TAATTAAATTT
99307074 TAA-TAAATTT
1 TAATTAAATTT
99307084 TAATTAAAT
1 TAATTAAAT
99307093 ATAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTAAATTT
Found at i:99308846 original size:30 final size:31
Alignment explanation
Indices: 99308791--99308848 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
99308781 TTTACTTTTT
*
99308791 AAGTATAAAAACTAAATATTTAATTTTACTA
1 AAGTATAAAAACTAAATAATTAATTTTACTA
**
99308822 AAGTATAAGGACT-AATAATTAATTTTA
1 AAGTATAAAAACTAAATAATTAATTTTA
99308849 ACCTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (31 bp):
AAGTATAAAAACTAAATAATTAATTTTACTA
Found at i:99329545 original size:21 final size:21
Alignment explanation
Indices: 99329519--99329559 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99329509 AGACGAGCAA
* *
99329519 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
99329540 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
99329560 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:99333917 original size:20 final size:20
Alignment explanation
Indices: 99333877--99333918 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
99333867 TTAATATCAA
* **
99333877 AATAATAACAACATGGTAAT
1 AATAATAAAAACATGAAAAT
99333897 AATAATAAAAACATGAAAAT
1 AATAATAAAAACATGAAAAT
99333917 AA
1 AA
99333919 GAATCCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (20 bp):
AATAATAAAAACATGAAAAT
Found at i:99364105 original size:22 final size:22
Alignment explanation
Indices: 99364079--99364124 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
99364069 TTTTTTTCCA
99364079 ATAACTTGAATATACATCACAC
1 ATAACTTGAATATACATCACAC
99364101 ATAACTTGAATATACATCACAC
1 ATAACTTGAATATACATCACAC
99364123 AT
1 AT
99364125 TCAAAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (22 bp):
ATAACTTGAATATACATCACAC
Found at i:99367134 original size:26 final size:26
Alignment explanation
Indices: 99367071--99367134 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 26
99367061 CTTTTATATA
99367071 TAATAATATAATATAATATAATATACT
1 TAATAATA-AATATAATATAATATACT
* *
99367098 TAATTATTAAATA-AATAT-ATATATTT
1 TAA-TAATAAATATAATATAATATA-CT
99367124 TAATCAATAAA
1 TAAT-AATAAA
99367135 ATCTTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 6 0.19
26 14 0.45
27 7 0.23
28 4 0.13
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATAATAAATATAATATAATATACT
Found at i:99369907 original size:20 final size:18
Alignment explanation
Indices: 99369874--99369922 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
99369864 TATATAATAT
**
99369874 TTTTTTATTTTTTTCCTATA
1 TTTTTTATAATTTT-CTA-A
99369894 TTTTTTATAATTTTCTAA
1 TTTTTTATAATTTTCTAA
*
99369912 ATTTTTATAAT
1 TTTTTTATAAT
99369923 GCTTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 3 0.12
20 12 0.46
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATAATTTTCTAA
Found at i:99369934 original size:18 final size:18
Alignment explanation
Indices: 99369893--99369934 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
99369883 TTTTTCCTAT
*
99369893 ATTTTTTATAATTTTCTA
1 ATTTTTTATAATCTTCTA
*
99369911 AATTTTTATAATGCTT-TA
1 ATTTTTTATAAT-CTTCTA
99369929 ATTTTT
1 ATTTTT
99369935 AACCTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTATAATCTTCTA
Found at i:99371922 original size:2 final size:2
Alignment explanation
Indices: 99371915--99371945 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
99371905 CTTTTTCTTT
99371915 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 T
99371946 TTTTGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:99382020 original size:21 final size:21
Alignment explanation
Indices: 99381990--99382051 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
99381980 TAACAGAACC
*
99381990 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCCAGTTAACTA
*
99382011 GCTGACGTGGCCAGTTAACTA
1 GCTGATGTGGCCAGTTAACTA
99382032 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCCAGTTAACT
99382052 TGCCACATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGATGTGGCCAGTTAACTA
Found at i:99383017 original size:21 final size:21
Alignment explanation
Indices: 99382993--99383033 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99382983 CAACGTGGCA
*
99382993 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
99383014 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
99383034 GGTTCAGTTA
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:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:99383135 original size:30 final size:31
Alignment explanation
Indices: 99383064--99383127 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
99383054 GGAAACCGTT
*
99383064 AGTTAGTGACTGTTTTGTCACTTTTTTATAA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
* *
99383095 CGTTAGTGACTGTTTTGTTA-TTTTTCA-AA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
99383124 AGTT
1 AGTT
99383128 GGGTGACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 6 0.21
31 18 0.62
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (31 bp):
AGTTAGTGACTGTTTTGTCACTTTTTCATAA
Found at i:99389800 original size:40 final size:40
Alignment explanation
Indices: 99389745--99389823 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
99389735 TAATGCCTCT
99389745 GTTTTAAAAACTGAAAGCTTTGGTTAGGAAGTTTAAGGAA
1 GTTTTAAAAACTGAAAGCTTTGGTTAGGAAGTTTAAGGAA
99389785 GTTTTAAAAACTGAAAGCTTTGGTTAGGAAGTTTAAGGA
1 GTTTTAAAAACTGAAAGCTTTGGTTAGGAAGTTTAAGGA
99389824 TCAAATTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (40 bp):
GTTTTAAAAACTGAAAGCTTTGGTTAGGAAGTTTAAGGAA
Found at i:99392161 original size:47 final size:47
Alignment explanation
Indices: 99392028--99392198 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 47
99392018 ATAGTAAAAC
* * * *
99392028 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * *
99392077 TATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
99392123 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
99392170 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
99392199 TTTCTCCGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.25
47 56 0.53
48 10 0.09
49 13 0.12
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:99392229 original size:52 final size:48
Alignment explanation
Indices: 99392046--99392235 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 48
99392036 TGCACATAGT
* * * *
99392046 CACATATCACA-TACCGAGGCCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAG
* *
99392094 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATAC-GGAG
* *
99392141 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGG-AG
* * *
99392188 CACATATCACATTTCTCCGAAGCCATAGCCTAGCTATGGTCTTATACG
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACG
99392236 AAAATCACAT
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
46 26 0.22
47 54 0.45
48 11 0.09
49 1 0.01
52 27 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAG
Found at i:99394902 original size:31 final size:32
Alignment explanation
Indices: 99394866--99394933 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
99394856 TTTTTGAGCT
* *
99394866 AAATTTGACCCTCAACCATTT-AAAAAGAGTC
1 AAATTTGACCATCAACCATTTAAAAAAAAGTC
*
99394897 AAATTTGACCATCAACCTTTTAAAAAAAAGTC
1 AAATTTGACCATCAACCATTTAAAAAAAAGTC
99394929 AAATT
1 AAATT
99394934 GCTATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (32 bp):
AAATTTGACCATCAACCATTTAAAAAAAAGTC
Found at i:99395046 original size:32 final size:32
Alignment explanation
Indices: 99395010--99395093 Score: 80
Period size: 32 Copynumber: 2.5 Consensus size: 32
99395000 ACTTCATATA
* * *
99395010 TATATTTTTAATTTTTATGATTTTTTATACTT
1 TATATTTTTAATTTTTATGAATTTTAAAACTT
* *
99395042 TATA-TTTTATATTTTTTTGAATTTTAAAATTT
1 TATATTTTTA-ATTTTTATGAATTTTAAAACTT
99395074 TAAATATTTTATAATTTTTA
1 T--ATATTTT-TAATTTTTA
99395094 AATTATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
31 5 0.12
32 22 0.54
34 3 0.07
35 9 0.22
36 2 0.05
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (32 bp):
TATATTTTTAATTTTTATGAATTTTAAAACTT
Found at i:99402996 original size:28 final size:28
Alignment explanation
Indices: 99402956--99403013 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
99402946 AAAGCACTAA
99402956 TACAAGCAACTATATTAAAATTTACGCT
1 TACAAGCAACTATATTAAAATTTACGCT
99402984 TACAAGCAACTATATTAAAATTTACGCT
1 TACAAGCAACTATATTAAAATTTACGCT
99403012 TA
1 TA
99403014 TACAAGTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (28 bp):
TACAAGCAACTATATTAAAATTTACGCT
Found at i:99410097 original size:15 final size:15
Alignment explanation
Indices: 99410064--99410103 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
99410054 GAAAAAAAAA
99410064 TTAATTATTAGTATAT
1 TTAATT-TTAGTATAT
99410080 TTATATTTTAGT-TAT
1 TTA-ATTTTAGTATAT
99410095 TTAATTTTA
1 TTAATTTTA
99410104 AAAAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 8 0.35
17 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTAATTTTAGTATAT
Found at i:99412794 original size:103 final size:103
Alignment explanation
Indices: 99412615--99412883 Score: 520
Period size: 103 Copynumber: 2.6 Consensus size: 103
99412605 TACAAATGAA
99412615 GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAATGA
1 GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAATGA
99412680 ATACAATAAATACTCCATTTCCCCTAAAATGGATGCTT
66 ATACAATAAATACTCCATTTCCCCTAAAATGGATGCTT
*
99412718 GAAAAACTCGAGCAGCAAGGAGAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAATGA
1 GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAATGA
99412783 ATACAATAAATACTCCATTTCCCCTAAAATGGATGCTT
66 ATACAATAAATACTCCATTTCCCCTAAAATGGATGCTT
*
99412821 GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGCAGAATATATAATGCAAAT
1 GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAAT
99412884 AGCAACTCGC
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 163 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (103 bp):
GAAAAACTCGAGCAGCAAGGAAAAGAACTTAAAATGGATGCTTGAAGAATATATAATGCAAATGA
ATACAATAAATACTCCATTTCCCCTAAAATGGATGCTT
Found at i:99425676 original size:4 final size:4
Alignment explanation
Indices: 99425667--99425691 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
99425657 AAAAAATGTA
99425667 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
99425692 GAATGTTAAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:99425787 original size:15 final size:15
Alignment explanation
Indices: 99425763--99425808 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
99425753 ATATAAATAG
*
99425763 AAATAAAAATATAAT
1 AAATAGAAATATAAT
99425778 AAATAGAAATATAAT
1 AAATAGAAATATAAT
99425793 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
99425809 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:99425794 original size:58 final size:59
Alignment explanation
Indices: 99425724--99425838 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 59
99425714 AACATATATA
* * *
99425724 AGAAAAATAATAAT-GAAAATAATATTAATATATAAATAGAAA-TAAA-AATATAATAAAT
1 AGAAAAATAATAATAGAAAA-AATATAAATAGATAAATAAAAATTAAATAA-ATAATAAAT
* * *
99425782 AGAAATATAATAATAGTAGAAATATAAATAGATAAATAAAAATTAAATAAATAATAA
1 AGAAAAATAATAATAGAAAAAATATAAATAGATAAATAAAAATTAAATAAATAATAA
99425839 TATTATTAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
58 32 0.67
59 14 0.29
60 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (59 bp):
AGAAAAATAATAATAGAAAAAATATAAATAGATAAATAAAAATTAAATAAATAATAAAT
Found at i:99425796 original size:29 final size:29
Alignment explanation
Indices: 99425724--99425884 Score: 77
Period size: 29 Copynumber: 5.6 Consensus size: 29
99425714 AACATATATA
* * *
99425724 AGAAAAATAATAATGAAAATAATATTAATAT
1 AGAAATATAATAATAAAAAT-ATAATAA-AT
* *
99425755 ATAAATA-GA-AATAAAAATATAATAAAT
1 AGAAATATAATAATAAAAATATAATAAAT
*
99425782 AGAAATATAATAATAGTAGAA-AT-ATAAAT
1 AGAAATATAATAATA--AAAATATAATAAAT
*
99425811 AGATAA-ATAAAAATTAAATAA-ATAAT-AAT
1 AGA-AATATAATAA-TAAA-AATATAATAAAT
** * * *
99425840 ATTATTAGAATAA-AAAAATAAATATAAAT
1 AGAAATATAATAATAAAAATATA-ATAAAT
*
99425869 AGAAACATAATAATAA
1 AGAAATATAATAATAA
99425885 TAGCAATAAT
Statistics
Matches: 96, Mismatches: 21, Indels: 27
0.67 0.15 0.19
Matches are distributed among these distances:
26 2 0.02
27 13 0.14
28 11 0.11
29 51 0.53
30 11 0.11
31 8 0.08
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (29 bp):
AGAAATATAATAATAAAAATATAATAAAT
Found at i:99425841 original size:52 final size:49
Alignment explanation
Indices: 99425728--99425886 Score: 135
Period size: 52 Copynumber: 3.2 Consensus size: 49
99425718 TATATAAGAA
* * *
99425728 AAATAATAATGAAAATAATATTAATATATAAATAGAAATAAAAATATAAT
1 AAATAATAAT-ATAATAATAGTAAAATATAAATAGAAATAAAAATATAAT
99425778 AAATAGA-AATATAATAATAGTAGAAATATAAATAGATAAATAAAAAT-TAAAT
1 AAATA-ATAATATAATAATAGTA-AAATATAAATAG--AAATAAAAATAT-AAT
* * * * * * * *
99425830 AAATAATAATATTATTAGAATAAAAAAATAAATATAAATAGAAACATAAT
1 AAATAATAATATAATAATAGT-AAAATATAAATAGAAATAAAAATATAAT
99425880 -AATAATA
1 AAATAATA
99425887 GCAATAATAT
Statistics
Matches: 90, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
49 17 0.19
50 30 0.33
51 4 0.04
52 38 0.42
53 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (49 bp):
AAATAATAATATAATAATAGTAAAATATAAATAGAAATAAAAATATAAT
Found at i:99427409 original size:23 final size:25
Alignment explanation
Indices: 99427382--99427436 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
99427372 AATATTTACG
*
99427382 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
99427405 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
99427430 AA-TTAAG
1 AAGTTAAG
99427437 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:99427833 original size:22 final size:21
Alignment explanation
Indices: 99427795--99427835 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
99427785 TAAATAAATA
*
99427795 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
99427816 AAAGAAAACGAAATAGAGAA
1 AAAG-AAACGAAAAAGAGAA
99427836 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.05
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:99428789 original size:20 final size:20
Alignment explanation
Indices: 99428764--99428805 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
99428754 GATCAGAGGA
99428764 GTTAGGGATATTCCGACTGT
1 GTTAGGGATATTCCGACTGT
99428784 GTTAGGGATATTCCGACTGT
1 GTTAGGGATATTCCGACTGT
99428804 GT
1 GT
99428806 GTCGATGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.36
Consensus pattern (20 bp):
GTTAGGGATATTCCGACTGT
Found at i:99430744 original size:15 final size:14
Alignment explanation
Indices: 99430722--99430760 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
99430712 CATAAGTTGA
99430722 GAAA-TTAAGTATT
1 GAAATTTAAGTATT
*
99430735 GAAAATTTAACTATT
1 G-AAATTTAAGTATT
99430750 GAAATTTAAGT
1 GAAATTTAAGT
99430761 TATAAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.05
14 12 0.55
15 9 0.41
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (14 bp):
GAAATTTAAGTATT
Found at i:99436553 original size:37 final size:37
Alignment explanation
Indices: 99436492--99436637 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
99436482 TACGTATGAT
* *
99436492 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99436527 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99436564 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99436601 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99436638 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:99436654 original size:46 final size:46
Alignment explanation
Indices: 99436601--99436869 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
99436591 TAAGTGTAGC
* **
99436601 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
99436647 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
99436693 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
99436745 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
99436791 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
99436843 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
99436870 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:99436720 original size:52 final size:52
Alignment explanation
Indices: 99436644--99436863 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
99436634 TAGCTAAAGC
* *
99436644 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
99436697 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
99436749 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
99436795 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
99436847 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
99436864 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:99436766 original size:98 final size:98
Alignment explanation
Indices: 99436601--99436869 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
99436591 TAAGTGTAGC
* * *
99436601 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
99436666 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
99436700 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
99436765 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
99436798 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
99436863 GATCAGA
66 GATCAGA
99436870 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:99443413 original size:131 final size:131
Alignment explanation
Indices: 99443162--99443480 Score: 354
Period size: 131 Copynumber: 2.4 Consensus size: 131
99443152 CGAAGGGATA
* ** * ** * * **
99443162 TTCGATTAATTTGAACAAACGGGAGATTGCAACCCAGCACGATAGGGCACTATTTCCCGAATTGC
1 TTCGATTACTTTGAACAAACGAAAAAGCGCAACCCAGCACGATAGGGCACGA-TTCCCAAATCAC
* * *
99443227 CAAACATCGAACATTTCCCTCGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCTGAAGGAA
65 CAAACATCGAACATTTCCCTCGTTTCAAAGAGTTTTTAGAAAACATGAGTGAAATTCTAAAGGAA
99443292 TC-
130 -CG
** * * *
99443294 TTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATAGGACACGATTCTCAAATCACC
1 TTCGATTACTTTGAACAAACGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCCCAAATCACC
* * *
99443359 AAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTA-AGAACCATGAGTGAAATTCTAAAGGGA
66 AAACATCGAACATTTCCCTCGTTTCAAAGAGTTTTTAGA-AAACATGAGTGAAATTCTAAAGGAA
99443423 CG
130 CG
* ** ** *
99443425 TTCGATTACTTTGAGCAAACGAGGAATTGCAACCTAGCACGATAGGGCACGATTCC
1 TTCGATTACTTTGAACAAACGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCC
99443481 GCGGATTGTC
Statistics
Matches: 154, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
130 2 0.01
131 110 0.71
132 42 0.27
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (131 bp):
TTCGATTACTTTGAACAAACGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCCCAAATCACC
AAACATCGAACATTTCCCTCGTTTCAAAGAGTTTTTAGAAAACATGAGTGAAATTCTAAAGGAAC
G
Found at i:99449227 original size:5 final size:5
Alignment explanation
Indices: 99449217--99449259 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
99449207 AATAATTAAG
99449217 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
99449260 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:99450911 original size:47 final size:48
Alignment explanation
Indices: 99450857--99450975 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
99450847 TAGTCCGAGC
99450857 TTTGTTAATAGGGTAAATAATTGAAATGAAA-TTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
99450904 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
99450952 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
99450976 TGTTTGTAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 31 0.44
48 40 0.56
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:99456129 original size:5 final size:5
Alignment explanation
Indices: 99456119--99456151 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99456109 AATAATTAAG
*
99456119 TATAT TATAT TGTAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
99456152 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:99457806 original size:48 final size:48
Alignment explanation
Indices: 99457750--99457869 Score: 240
Period size: 48 Copynumber: 2.5 Consensus size: 48
99457740 TAGTCCGAGC
99457750 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
99457798 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
99457846 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
99457870 TGTTTGTAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:99461981 original size:64 final size:64
Alignment explanation
Indices: 99461874--99462001 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
99461864 GCATTCATAA
*
99461874 CACATCTAGTTAGGAGCATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATGTCGATCATAACATCCTAATTATTTGACATAAGCAT
* * *
99461938 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCTTAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATGTCGATCATAACATCCTAATTATTTGACATAAGCAT
99462002 AGATACATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATGTCGATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:99462524 original size:44 final size:44
Alignment explanation
Indices: 99462388--99462532 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
99462378 GATCTTATCT
* *
99462388 CCCTAAGTAGTAGTGGAGTGGATCGAAGACAGTGAGCATTAACC
1 CCCTAAGTAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
* * * * * ** *
99462432 CCTTAAGTAGTAG-GGTAAC--A-CGCAAGAGATTGTAGATCTTGTCT
1 CCCTAAGTAGTAGTGG-AGCGGATCG-AAGACAGTG-AG-CCTTAACC
*
99462476 CCCTAAGCAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAGTAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
99462520 CCCTAAGTAGTAG
1 CCCTAAGTAGTAG
99462533 GGTAACAGGT
Statistics
Matches: 73, Mismatches: 20, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
41 2 0.03
42 8 0.11
43 4 0.05
44 45 0.62
45 4 0.05
46 8 0.11
47 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
CCCTAAGTAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
Found at i:99462546 original size:44 final size:44
Alignment explanation
Indices: 99462328--99462713 Score: 118
Period size: 44 Copynumber: 8.8 Consensus size: 44
99462318 ACAGATCGGG
* *
99462328 GACAGTGAGCCTTAACCCCCTAAGTAGTA-AGTAACAGGCTGGAA
1 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGG-TCGAA
** * * * * **
99462372 -A-TTTCAGATCTTATCTCCCTAAGTAGTAGTGG--AGTGGATCGAA
1 GACAGTGAG-CCTTAACCCCCTAAGTAGTAG-GGTAACAGG-TCGAA
* * *
99462415 GACAGTGAGCATTAACCCCTTAAGTAGTAGGGTAACACG-C-AA
1 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTCGAA
* * * ** * * *
99462457 GAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGG-AGC-GGATCGAA
1 GACAGTG-AG-CCTTAACCCCCTAAGTAGTAG-GGTAACAGG-TCGAA
99462503 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTCGAA
1 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTCGAA
** ** ** * * * ** **
99462547 GATTGT-AGATATTGTCTCCCTAAGCAGTAGTGG-AGCAAATTAAA
1 GACAGTGAG-CCTTAACCCCCTAAGTAGTAG-GGTAACAGGTCGAA
* * *
99462591 GATAGTGAGCTTTAACCCCCTAAGTAGTAGGGTAACAGGCCGAA
1 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTCGAA
** * ** * * *
99462635 GATTGT-AGATCTTGTCTCCCTCAGCAGTAATAGGGCAA-A--TCGAA
1 GACAGTGAG-CCTTAACCCCCT-A--AGTAGTAGGGTAACAGGTCGAA
* *
99462679 GACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAA
1 GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAA
99462714 TAGGCTGGAA
Statistics
Matches: 233, Mismatches: 85, Indels: 51
0.63 0.23 0.14
Matches are distributed among these distances:
41 10 0.04
42 10 0.04
43 40 0.17
44 134 0.58
45 20 0.09
46 8 0.03
47 11 0.05
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (44 bp):
GACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTCGAA
Found at i:99462938 original size:44 final size:44
Alignment explanation
Indices: 99462740--99463375 Score: 196
Period size: 44 Copynumber: 14.5 Consensus size: 44
99462730 GATTTATCTT
* *
99462740 CCTAAGCAGTAGTGGAGCGGATCGAAGACGGCGAATCTTGTCT-
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* ** **** * * *
99462783 CCTTAGCTAGTAGTGGAGCAGATTTAAG-C-CACCATCCTATCTT
1 CCTAAGC-AGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* * * * * *
99462826 CCTAAGCAATAGTGGAGTAG-GCTAA-A-GATTGCAGATCTTGTCTT
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACG-GTG-A-ATCTTGTCTC
** * **
99462870 CCTGAAGTTGCAGTGGAATAGATCGAAGACGGTGAATCTTGTCTC
1 CCT-AAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* ** ** **
99462915 CCTAAGCAGTAGTGGAGCGGATCGAAGATAGTGACCCTTAAC-C
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* * **
99462958 CCATAAGTAGTAG-GGTAACAAGA-CGAAGATTGT-AGATCTTGTCTC
1 CC-TAAGCAGTAGTGG-AGC-AGATCGAAGACGGTGA-ATCTTGTCTC
* * * ** ** *
99463003 CCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* * ** **
99463047 CCTAAGTAGTAG-GGTAACAGGCCGAAGATTGT-AGATCTTGTCTC
1 CCTAAGCAGTAGTGG-AGCAGATCGAAGACGGTGA-ATCTTGTCTC
* * * ** ** *
99463091 CCTCAGCAGTAATGGAGCAAATCGAAGACGGTGAGCCTTAACCC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* * * ** * *
99463135 CCTAAGCAGTAG-GGTAACAGGCTGGAA-A-TTTTAGATCTTATCTC
1 CCTAAGCAGTAGTGG-AGCA-GATCGAAGACGGTGA-ATCTTGTCTC
**
99463179 CCTAAGCAGTAGTGGAGTGGATCGAAGACGGTGAATCTTGTCTC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* ** ** **** * *
99463223 CCT-AGCTGGTAGTGGAATAGATTTAAG-C-CACCATCCTATCTC
1 CCTAAGC-AGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
* * * **
99463265 CCTAAGCAGTAGTGGAGTAGGTTGAAGATTGT-AGATCTTGTCTC
1 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA-ATCTTGTCTC
** * *
99463309 CCTGAAGTTGCAGTGG-GACAGATCGAAGACGGCGAATCTTGTCTC
1 CCT-AAGCAGTAGTGGAG-CAGATCGAAGACGGTGAATCTTGTCTC
*
99463354 CCTAACCAGTAGTGGAGCAGAT
1 CCTAAGCAGTAGTGGAGCAGAT
99463376 TTAAGCCATC
Statistics
Matches: 411, Mismatches: 144, Indels: 75
0.65 0.23 0.12
Matches are distributed among these distances:
41 3 0.01
42 45 0.11
43 40 0.10
44 239 0.58
45 75 0.18
46 5 0.01
47 3 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTC
Found at i:99463226 original size:88 final size:88
Alignment explanation
Indices: 99462226--99463213 Score: 753
Period size: 88 Copynumber: 11.3 Consensus size: 88
99462216 GAAGTTGTAA
* * * * *
99462226 TGGAGCAGATCAAAGACTA-TGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATTA
1 TGGAGCGGATCGAAGAC-AGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCG-AAATTG
*
99462289 TAGATCTTGTCTCCCTAAACAGTAG
64 TAGATCTTGTCTCCCTAAGCAGTAG
** * * ** * * *
99462314 CAGAACAGATCGGGGACAGTGAGCCTTAACCCCCTAAGTAGTA-AGTAACAGGCTGGAAATT-TC
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAAATTGT-
* *
99462377 AGATCTTATCTCCCTAAGTAGTAG
65 AGATCTTGTCTCCCTAAGCAGTAG
* * * * * ** *
99462401 TGGAGTGGATCGAAGACAGTGAGCATTAACCCCTTAAGTAGTAGGGTAACACGCAAGAGATTGTA
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAAATTGTA
99462466 GATCTTGTCTCCCTAAGCAGTAG
66 GATCTTGTCTCCCTAAGCAGTAG
*
99462489 TGGAGCGGATCGAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGG-TCGAAGATTGT
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAA-ATTGT
*
99462553 AGATATTGTCTCCCTAAGCAGTAG
65 AGATCTTGTCTCCCTAAGCAGTAG
** ** * * *
99462577 TGGAGCAAATTAAAGATAGTGAGCTTTAACCCCCTAAGTAGTAGGGTAACAGGC-CGAAGATTGT
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAA-ATTGT
* *
99462641 AGATCTTGTCTCCCTCAGCAGTAA
65 AGATCTTGTCTCCCTAAGCAGTAG
** * * * * *
99462665 TAGG-GCAAATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAATT-T
1 T-GGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAAATTGT
* *
99462728 CAGAT-TTATCTTCCTAAGCAGTAG
65 -AGATCTTGTCTCCCTAAGCAGTAG
* * * ** * * * * **
99462752 TGGAGCGGATCGAAGACGGCGAATCTT-GTCTCCTTAGCTAGTAGTGG-AGCA-GAT-TTAA--G
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAG-TAGTAG-GGTAACAGGCTCGAAATTG
* * * * * *
99462811 CCACCATCCTATCTTCCTAAGCAATAG
64 -TA-GATCTTGTCTCCCTAAGCAGTAG
* * * * * ** ** * * * *
99462838 TGGAGTAGG--CTAA-AGATTGCAGATCTTGTCTTCCTGAAGTTGCAGTGG-AATA-GATCGAAG
1 TGGAG-CGGATCGAAGACAGTG-A-ACCTTAACCCCCT-AAGTAGTAG-GGTAACAGGCTCGAA-
**
99462898 ACGGT-GAATCTTGTCTCCCTAAGCAGTAG
60 ATTGTAG-ATCTTGTCTCCCTAAGCAGTAG
* * * * *
99462927 TGGAGCGGATCGAAGATAGTGACCCTTAACCCCATAAGTAGTAGGGTAACAAG-ACGAAGATTGT
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAA-ATTGT
99462991 AGATCTTGTCTCCCTAAGCAGTAG
65 AGATCTTGTCTCCCTAAGCAGTAG
** * *
99463015 TGGAGCAAATCAAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGC-CGAAGATTGT
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAA-ATTGT
* *
99463079 AGATCTTGTCTCCCTCAGCAGTAA
65 AGATCTTGTCTCCCTAAGCAGTAG
** * * * * *
99463103 TGGAGCAAATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTTTA
1 TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAAATTGTA
*
99463168 GATCTTATCTCCCTAAGCAGTAG
66 GATCTTGTCTCCCTAAGCAGTAG
* *
99463191 TGGAGTGGATCGAAGACGGTGAA
1 TGGAGCGGATCGAAGACAGTGAA
99463214 TCTTGTCTCC
Statistics
Matches: 730, Mismatches: 135, Indels: 70
0.78 0.14 0.07
Matches are distributed among these distances:
84 3 0.00
85 8 0.01
86 38 0.05
87 135 0.18
88 496 0.68
89 41 0.06
90 4 0.01
91 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (88 bp):
TGGAGCGGATCGAAGACAGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTCGAAATTGTA
GATCTTGTCTCCCTAAGCAGTAG
Found at i:99463589 original size:44 final size:44
Alignment explanation
Indices: 99463533--99463732 Score: 147
Period size: 44 Copynumber: 4.6 Consensus size: 44
99463523 GTATCTGCTC
* *
99463533 GAAGTTCCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCT
1 GAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
* * * * * *
99463577 GAAGTTGTAGTGGAGCAGACTAAAGATAGCGAATC-T-TCT-CCT
1 GAAGTTGCAGTGGAGTAGATTGAAGTTA-CAAATCTTATCTCCCT
* * ** * ** * *
99463619 AGGAA-TTTCAATGGAACAAATTGAAGCCACAAACCTTATCCCCCT
1 --GAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
* * * *
99463664 GAAGTTGCAGTGGGGTAGGTCGAAGTTACAAATCTTTTCTCCCT
1 GAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
*
99463708 AAAGTTGCAGTGGAGTAGATTGAAG
1 GAAGTTGCAGTGGAGTAGATTGAAG
99463733 CTATAATTCA
Statistics
Matches: 112, Mismatches: 37, Indels: 14
0.69 0.23 0.09
Matches are distributed among these distances:
42 7 0.06
43 22 0.20
44 76 0.68
45 7 0.06
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
GAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCT
Found at i:99475554 original size:106 final size:103
Alignment explanation
Indices: 99475357--99475559 Score: 248
Period size: 103 Copynumber: 1.9 Consensus size: 103
99475347 GGATGATGGG
* * * * **
99475357 AAAATGGTAGATGCAAATATATATAGAAGCTTGATTGGAAATTTTTTTTCTAACAATTATGAAGT
1 AAAATGGTAGATGCAAACATATATAAAAGCTTGACTGGAAATTTTTTTTCTAACAACTACCAAGT
* *
99475422 TGATTTGATGTTTGTAGCTAGTTTACTTTCAATATTGA
66 TGATTTCATGTTTGGAGCTAGTTTACTTTCAATATTGA
* *
99475460 AAAATTGTAGATGCAAACATGTATAAAAGCTTGACT-GAAAGTTTGTTTTATCTAACAACTACCA
1 AAAATGGTAGATGCAAACATATATAAAAGCTTGACTGGAAA-TTT-TTTT-TCTAACAACTACCA
*
99475524 GGCTTGATTTCATGTTTGCGA-CTAGTTTACTTTCAA
63 AG-TTGATTTCATGTTTG-GAGCTAGTTTACTTTCAA
99475560 GATTCATGAG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
102 4 0.05
103 34 0.40
104 4 0.05
105 12 0.14
106 29 0.35
107 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (103 bp):
AAAATGGTAGATGCAAACATATATAAAAGCTTGACTGGAAATTTTTTTTCTAACAACTACCAAGT
TGATTTCATGTTTGGAGCTAGTTTACTTTCAATATTGA
Found at i:99483004 original size:21 final size:21
Alignment explanation
Indices: 99482979--99483047 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
99482969 TATAATGATT
99482979 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
99483000 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
99483020 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
99483040 ATTATTAT
1 ATTATTAT
99483048 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:99483060 original size:15 final size:14
Alignment explanation
Indices: 99483034--99483064 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
99483024 TATGGTTTTA
99483034 TATTAGATTATTAT
1 TATTAGATTATTAT
99483048 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
99483063 TA
1 TA
99483065 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:99483403 original size:14 final size:14
Alignment explanation
Indices: 99483379--99483411 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99483369 AAGAATTAAG
99483379 GAAACAAAGAAACA
1 GAAACAAAGAAACA
99483393 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
99483407 GAAAC
1 GAAAC
99483412 GAAGCAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:99487524 original size:52 final size:51
Alignment explanation
Indices: 99487377--99487527 Score: 178
Period size: 52 Copynumber: 2.9 Consensus size: 51
99487367 TAACATATCA
* * * *
99487377 ATGCCATATCCTAGATATGGTCTTATACTGAATCACATTATCACATCACACCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACA-TATCACATCACACCG
****
99487430 ATGCCATAGCCCAGCTATGGTCTTATACGGGAACACGA-ATCACATTGTGCCG
1 ATGCCATAGCCCAGCTATGGTCTTATAC-GGAACAC-ATATCACATCACACCG
99487482 ATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATCACATC
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATATCACATC
99487528 TTTTTCGTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
51 5 0.06
52 48 0.56
53 28 0.33
54 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATCACACCG
Found at i:99492192 original size:23 final size:23
Alignment explanation
Indices: 99492166--99492211 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
99492156 AAATCCGAGG
99492166 TATTGACTAAATTGTAAAAATGT
1 TATTGACTAAATTGTAAAAATGT
99492189 TATTGACTAAATTGTAAAAATGT
1 TATTGACTAAATTGTAAAAATGT
99492212 GAAAAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
TATTGACTAAATTGTAAAAATGT
Found at i:99508304 original size:30 final size:29
Alignment explanation
Indices: 99508250--99508306 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
99508240 TTAGATAGAT
**
99508250 ATATTTTTATAATTTCTTCTATATTTTAA
1 ATATTTTTATAATTTCTTAAATATTTTAA
*
99508279 ATATTTTATATAATTTTTTAAATATTTT
1 ATATTTT-TATAATTTCTTAAATATTTT
99508307 TATAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATTTTTATAATTTCTTAAATATTTTAA
Found at i:99508314 original size:21 final size:21
Alignment explanation
Indices: 99508273--99508311 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99508263 TTCTTCTATA
99508273 TTTTAAATATTTTATATAATT
1 TTTTAAATATTTTATATAATT
99508294 TTTTAAATATTTT-TATAA
1 TTTTAAATATTTTATATAA
99508312 ATTATGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTTTATATAATT
Found at i:99514141 original size:28 final size:28
Alignment explanation
Indices: 99514101--99514158 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
99514091 GTTGGTGTAA
99514101 TATTTGCCAAGAATTAATACATGAGTTT
1 TATTTGCCAAGAATTAATACATGAGTTT
99514129 TATTTGCCAAGAATTAATACATGAGTTT
1 TATTTGCCAAGAATTAATACATGAGTTT
99514157 TA
1 TA
99514159 CCCTTTATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (28 bp):
TATTTGCCAAGAATTAATACATGAGTTT
Found at i:99518343 original size:22 final size:22
Alignment explanation
Indices: 99518315--99518359 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
99518305 TTTTTAAAAT
99518315 ATTTTAATACTTATATTTTTAA
1 ATTTTAATACTTATATTTTTAA
* *
99518337 ATTTTAATATTTATGTTTTTAA
1 ATTTTAATACTTATATTTTTAA
99518359 A
1 A
99518360 CCTTGCGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTAATACTTATATTTTTAA
Found at i:99519420 original size:20 final size:22
Alignment explanation
Indices: 99519397--99519441 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
99519387 ATATATAATT
*
99519397 TATATTAATGAAA-TA-TAAAA
1 TATAGTAATGAAATTATTAAAA
*
99519417 TATAGTAATTAAATTATTAAAA
1 TATAGTAATGAAATTATTAAAA
99519439 TAT
1 TAT
99519442 TAACTGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 2 0.10
22 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATAGTAATGAAATTATTAAAA
Found at i:99519432 original size:29 final size:29
Alignment explanation
Indices: 99519363--99519441 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
99519353 CAGCTAAAAA
* * * *
99519363 AATTTAATTTATATTAAATTTAACATATAT
1 AATTTAAATTA-ATAAAATATAAAATATAT
* *
99519393 AATTTATATTAATGAAATATAAAATATAGT
1 AATTTAAATTAATAAAATATAAAATATA-T
*
99519423 AA-TTAAATTATTAAAATAT
1 AATTTAAATTAATAAAATAT
99519442 TAACTGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 28 0.70
30 12 0.30
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
AATTTAAATTAATAAAATATAAAATATAT
Found at i:99521500 original size:31 final size:31
Alignment explanation
Indices: 99521465--99521523 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
99521455 ATCAAATAAA
*
99521465 AATTTAGACATCAACTTA-AAAAAAATAGCAT
1 AATTTAAACATC-ACTTATAAAAAAATAGCAT
* *
99521496 AATTTAAATATCATTTATAAAAAAATAG
1 AATTTAAACATCACTTATAAAAAAATAG
99521524 ATATTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (31 bp):
AATTTAAACATCACTTATAAAAAAATAGCAT
Found at i:99541052 original size:17 final size:16
Alignment explanation
Indices: 99541019--99541061 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
99541009 TTAAATGGTA
*
99541019 ATATTATTAATATTAAT
1 ATATTA-TAAAATTAAT
99541036 ATAATTATAAAATTAAT
1 AT-ATTATAAAATTAAT
99541053 ATATTATAA
1 ATATTATAA
99541062 TTTTTAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 13 0.54
18 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTATAAAATTAAT
Found at i:99542089 original size:3 final size:3
Alignment explanation
Indices: 99542081--99542125 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
99542071 CTCACCCTGA
99542081 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99542126 TTGATAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:99545851 original size:18 final size:20
Alignment explanation
Indices: 99545828--99545867 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
99545818 TTTAATTTGA
*
99545828 TAATTTT-TT-TACACATTT
1 TAATTTTATTATACAAATTT
99545846 TAATTTTATTATACAAATTT
1 TAATTTTATTATACAAATTT
99545866 TA
1 TA
99545868 TTGCCTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTTTATTATACAAATTT
Found at i:99546707 original size:17 final size:17
Alignment explanation
Indices: 99546671--99546704 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
99546661 AATACAATTT
99546671 ATTTTATAAAACAAATA
1 ATTTTATAAAACAAATA
*
99546688 ATTTTATATAA-AAATA
1 ATTTTATAAAACAAATA
99546704 A
1 A
99546705 ATTAATCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTTATAAAACAAATA
Found at i:99547404 original size:43 final size:43
Alignment explanation
Indices: 99547353--99547461 Score: 191
Period size: 43 Copynumber: 2.5 Consensus size: 43
99547343 AAAACAATTA
99547353 AATTAAATTAAAGTCTTCTTTTTTTTTCTTAATTAAAAAATCC
1 AATTAAATTAAAGTCTTCTTTTTTTTTCTTAATTAAAAAATCC
* *
99547396 AATTAAATTAAAGTCTTCTCTTTTTTTCTTAATTAAAAAATTC
1 AATTAAATTAAAGTCTTCTTTTTTTTTCTTAATTAAAAAATCC
*
99547439 AATTAAATTAAAGTCTTCATTTT
1 AATTAAATTAAAGTCTTCTTTTT
99547462 GTTCCTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (43 bp):
AATTAAATTAAAGTCTTCTTTTTTTTTCTTAATTAAAAAATCC
Found at i:99547578 original size:41 final size:43
Alignment explanation
Indices: 99547518--99547623 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 43
99547508 TTAAATATTT
* * * *
99547518 TTTCAACTTCTAAATATTAATTTTTTCACACTAC-TTTTTTTA
1 TTTCAACTTTTAAATATTAATATTTCCACACCACTTTTTTTTA
*
99547560 TTTC-ACTTTTAAATATTAATATTTCCATACCACGTTTTTTTTTA
1 TTTCAACTTTTAAATATTAATATTTCCACACCAC--TTTTTTTTA
*
99547604 TTTCAACTTTCAAATATTAA
1 TTTCAACTTTTAAATATTAA
99547624 ATAAAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 24 0.44
42 4 0.07
44 12 0.22
45 14 0.26
ACGTcount: A:0.30, C:0.16, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCAACTTTTAAATATTAATATTTCCACACCACTTTTTTTTA
Found at i:99549183 original size:22 final size:22
Alignment explanation
Indices: 99549153--99549195 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
99549143 ACTTTGTTAA
99549153 AATTTTAAATTC-TTAAACAAT
1 AATTTTAAATTCATTAAACAAT
99549174 AATTGTTAAATTCATTAAACAA
1 AATT-TTAAATTCATTAAACAA
99549196 AGTTCTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTTTAAATTCATTAAACAAT
Found at i:99561043 original size:13 final size:13
Alignment explanation
Indices: 99561025--99561052 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99561015 TTGTTACAAA
99561025 ATCCATGGGTTGG
1 ATCCATGGGTTGG
99561038 ATCCATGGGTTGG
1 ATCCATGGGTTGG
99561051 AT
1 AT
99561053 TGATTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (13 bp):
ATCCATGGGTTGG
Found at i:99570187 original size:3 final size:3
Alignment explanation
Indices: 99570179--99570207 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
99570169 TAATCACCTT
99570179 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
99570208 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:99571756 original size:9 final size:9
Alignment explanation
Indices: 99571742--99571767 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
99571732 TGTGGATAAA
99571742 AAAAAAAAC
1 AAAAAAAAC
99571751 AAAAAAAAC
1 AAAAAAAAC
99571760 AAAAAAAA
1 AAAAAAAA
99571768 AACCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:99572364 original size:23 final size:23
Alignment explanation
Indices: 99572321--99572367 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
99572311 CCTGTTAATA
99572321 ACCATTCCTTTTTCCTACCATTC
1 ACCATTCCTTTTTCCTACCATTC
99572344 ACCATTCCTTTTTCCTACCATTC
1 ACCATTCCTTTTTCCTACCATTC
99572367 A
1 A
99572368 TCAATGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.43
Consensus pattern (23 bp):
ACCATTCCTTTTTCCTACCATTC
Found at i:99581633 original size:18 final size:17
Alignment explanation
Indices: 99581601--99581648 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
99581591 AAAATTATTA
*
99581601 TAATTTTTCTTGATTTT
1 TAATTTTTTTTGATTTT
99581618 TAATTTTTTTTAGATTTT
1 TAATTTTTTTT-GATTTT
99581636 TCAAGTTTTTTTT
1 T-AA-TTTTTTTT
99581649 TGCTATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.37
18 7 0.26
19 2 0.07
20 8 0.30
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (17 bp):
TAATTTTTTTTGATTTT
Found at i:99584155 original size:38 final size:37
Alignment explanation
Indices: 99584071--99584162 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
99584061 TATACGTACT
*
99584071 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
99584109 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
99584145 ATATACATACTTATATAT
1 -TATACATACTTAAATAT
99584163 TCTTTATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
36 4 0.09
37 19 0.42
38 22 0.49
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:99596108 original size:44 final size:45
Alignment explanation
Indices: 99595972--99596719 Score: 652
Period size: 44 Copynumber: 17.0 Consensus size: 45
99595962 ATAGGTCCTA
* * *
99595972 TCTTCCTATATTGGTAG-GAAGTAGATCAAAGAT-GCAAATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
99596015 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATATTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
99596060 TCTTCATGTATTGG-CGTGAAGAAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
99596104 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
99596147 TCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * * *
99596192 TCTTCATGTATTGG-CATGAAGAAGATCGAAGGTAGCAGGTCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
99596236 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-CCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * ** *
99596279 TCTTCCCATATTGATGGCAAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* ** * * *
99596324 TCTTCATGCATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
*
99596368 TCTTCCTATATTGGTAG-GAAGT-GATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
99596410 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
99596455 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
99596499 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * **
99596542 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAACAGGTCCGG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
99596586 TCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
99596629 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
99596674 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
99596718 TC
1 TC
99596720 CCTGTATTTG
Statistics
Matches: 552, Mismatches: 135, Indels: 35
0.76 0.19 0.05
Matches are distributed among these distances:
42 23 0.04
43 128 0.23
44 297 0.54
45 104 0.19
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:99596204 original size:132 final size:132
Alignment explanation
Indices: 99595967--99596719 Score: 1014
Period size: 132 Copynumber: 5.7 Consensus size: 132
99595957 CGTAAATAGG
* * *
99595967 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
99596032 CGAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
99596097 GA
131 GA
*
99596099 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
99596164 CGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
*
99596229 GG
131 GA
* *
99596231 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATCCAGATCTTGTCTTCCCATATTGATGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * * *
99596296 CAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGCATTGGCGTGAAGTAGATCGAAGATATCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
99596361 GA
131 GA
99596363 TCCTATCTTCCTATATTGGTAGGAAGT-GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
99596427 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
99596492 GA
131 GA
* *** *
99596494 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCATGTATTGG-CG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * ** * * ** *
99596558 TGAAGTAGATCGAAGGTAA-CAGGTCCGGTCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-G
66 CGAAGTAGATCGCA-GAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGAAGATCGAAGGTAG
99596620 CAGA
129 CAGA
* * * * * * * ***
99596624 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
* * *
99596688 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
64 GGCGAAGTAGATCGCAGAAAGCAGATCTTGTC
99596720 CCTGTATTTG
Statistics
Matches: 563, Mismatches: 52, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
130 23 0.04
131 185 0.33
132 355 0.63
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
GA
Found at i:99596743 original size:44 final size:43
Alignment explanation
Indices: 99596298--99596775 Score: 195
Period size: 44 Copynumber: 10.9 Consensus size: 43
99596288 ATTGATGGCA
* *
99596298 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGCA-TTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATTTGGCGTG
* * * * * *
99596342 AAGTAGATCGAAGATATCAGATCCTATCTTCCTATA-TTGGTAG-G
1 AAGTAGATCGAAGAAAGCAGAT-CT-TGTCCCTGTATTTGG-CGTG
* **
99596386 AAGT-GATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC--G
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATT--TGGCGTG
* *
99596429 AAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA-TTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATTTGGCGTG
** * * * *
99596473 AAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATA-TTGGTAG-G
1 AAGTAGATCGAAGAAAGCAGAT-CT-TGTCCCTGTATTTGG-CGTG
* * * *
99596517 AAGTGGATCGAAG-ATGCAGATCTTATCTTCATGTA-TTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATTTGGCGTG
* * ** *
99596560 AAGTAGATCGAAGGTAA-CAGGTCCGGTCTTCCTGTA-TTGGTAG-G
1 AAGTAGATCGAA-GAAAGCAGATCTTGTC--CCTGTATTTGG-CGTG
* * **
99596604 AAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC--G
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATT--TGGCGTG
* *
99596648 AAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTA-TTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTC--CCTGTATTTGGCGTG
99596692 AAGTAGATCGAAGAAAGCAGATCTTGTCCCTGTATTTGGCAGTGG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCCCTGTATTTGGC-GT-G
* * ** *
99596737 AA-TAGATTGAGGATTGCAGATCTTGCCTTCCTGTATTTG
1 AAGTAGATCGAAGAAAGCAGATCTTG--TCCCTGTATTTG
99596776 TTAGCGAAGC
Statistics
Matches: 336, Mismatches: 65, Indels: 64
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.01
41 4 0.01
42 27 0.08
43 60 0.18
44 175 0.52
45 50 0.15
46 18 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
AAGTAGATCGAAGAAAGCAGATCTTGTCCCTGTATTTGGCGTG
Found at i:99596758 original size:263 final size:261
Alignment explanation
Indices: 99595967--99596743 Score: 1003
Period size: 263 Copynumber: 3.0 Consensus size: 261
99595957 CGTAAATAGG
* * *
99595967 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATT-G-GG
* * * *
99596032 CGAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
64 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
*
99596097 GATCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGT
129 GATCCTATCTTCCTATATTGGTAGGAAGT-GATCGAAGATGCAGATCTTGTCTTCCCATATTGGT
* *
99596162 GGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCA-TGAAGAAGATCGAAGGTA
193 GGCGAAGTAGATCGCAGAAAGCAGATCTTGTC-TCATGTATTGGCAGTGAAGTAGATCGAAGGTA
*
99596226 GCAGG
257 GCAGA
*
99596231 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATCCAGATCTTGTCTTCCCATATTGATGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTG--GG
* * *
99596296 CAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGCATTGGCGTGAAGTAGATCGAAGATATCA
64 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
99596361 GATCCTATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
129 GATCCTATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
99596426 GCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGGTAG
194 GCGAAGTAGATCGCAGAAAGCAGATCTTGTC-TCATGTATTGGCAGTGAAGTAGATCGAAGGTAG
99596490 CAGA
258 CAGA
* *** *
99596494 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCATGTATTGGCGT
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGG-GC
* * ** * * *
99596559 GAAGTAGATCGAAGGTAA-CAGGTCCGGTCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-GC
65 GAAGTAGATCGAA-GAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
* * * * * * ***
99596621 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
128 AGATCCTATCTTCCTATATTGGTAG-GAAGT-GATCGAAG-ATGCAGATCTTGTCTTCCCATATT
* * * *
99596686 GG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTC-CCTGTATTTGGCAGTGGAA-TAGAT
190 GGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTCATGTA-TTGGCAGT-GAAGTAGAT
99596744 TGAGGATTGC
Statistics
Matches: 458, Mismatches: 44, Indels: 23
0.87 0.08 0.04
Matches are distributed among these distances:
261 28 0.06
262 56 0.12
263 203 0.44
264 171 0.37
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (261 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGGCG
AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGA
TCCTATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
GAAGTAGATCGCAGAAAGCAGATCTTGTCTCATGTATTGGCAGTGAAGTAGATCGAAGGTAGCAG
A
Found at i:99598602 original size:3 final size:3
Alignment explanation
Indices: 99598594--99598644 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
99598584 TATTCCAATG
*
99598594 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99598642 TTA
1 TTA
99598645 GTTTATGCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:99598781 original size:38 final size:37
Alignment explanation
Indices: 99598697--99598788 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
99598687 TATACGTACT
*
99598697 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
99598735 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
99598771 ATATACATACTTATATAT
1 -TATACATACTTAAATAT
99598789 TCTTTATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
36 4 0.09
37 19 0.42
38 22 0.49
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:99602608 original size:20 final size:20
Alignment explanation
Indices: 99602585--99602624 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99602575 TATAATATCA
99602585 TGTTAGCTTATATTATTTTT
1 TGTTAGCTTATATTATTTTT
99602605 TGTTAGCTTATATTATTTTT
1 TGTTAGCTTATATTATTTTT
99602625 ACATATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (20 bp):
TGTTAGCTTATATTATTTTT
Found at i:99606316 original size:14 final size:14
Alignment explanation
Indices: 99606297--99606326 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99606287 TATCTTATAA
99606297 ATATACGTGAATCT
1 ATATACGTGAATCT
*
99606311 ATATACGTTAATCT
1 ATATACGTGAATCT
99606325 AT
1 AT
99606327 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (14 bp):
ATATACGTGAATCT
Found at i:99625160 original size:21 final size:21
Alignment explanation
Indices: 99625135--99625284 Score: 108
Period size: 21 Copynumber: 7.1 Consensus size: 21
99625125 TTTACTTTTC
*
99625135 GTTTATCTCTTATGAGCTTCT
1 GTTTAACTCTTATGAGCTTCT
* * *
99625156 ATTTAACT-TATATGAGTTTCC
1 GTTTAACTCT-TATGAGCTTCT
* * *
99625177 GTTCAACTCTTTTGAGTTTCT
1 GTTTAACTCTTATGAGCTTCT
* **
99625198 GTTCAACTCTTATGATTTTCT
1 GTTTAACTCTTATGAGCTTCT
* *
99625219 AG-TCAGCTCTTATGAGCTTCT
1 -GTTTAACTCTTATGAGCTTCT
* *
99625240 GTTTAACTCATATGAG-TTTT
1 GTTTAACTCTTATGAGCTTCT
* *
99625260 CGTTTAGCTCTTACGAGCTTCT
1 -GTTTAACTCTTATGAGCTTCT
99625282 GTT
1 GTT
99625285 CAGCTTTCGA
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
20 5 0.05
21 92 0.90
22 5 0.05
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (21 bp):
GTTTAACTCTTATGAGCTTCT
Found at i:99625212 original size:42 final size:42
Alignment explanation
Indices: 99625141--99625286 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
99625131 TTTCGTTTAT
* * * *
99625141 CTCTTATGAGCTTCTATTTAACTTATATGAGTTTCCGTTCAA
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCCGTTCAG
* * * * *
99625183 CTCTTTTGAGTTTCTGTTCAACTCTTATGATTTTCTAG-TCAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTC-CGTTCAG
* * *
99625225 CTCTTATGAGCTTCTGTTTAACTCATATGAGTTTTCGTTTAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCCGTTCAG
*
99625267 CTCTTACGAGCTTCTGTTCA
1 CTCTTATGAGCTTCTGTTCA
99625287 GCTTTCGACC
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 81 0.98
43 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (42 bp):
CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCCGTTCAG
Found at i:99627948 original size:19 final size:21
Alignment explanation
Indices: 99627921--99627960 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
99627911 ATACAACGAA
99627921 TTAAAATTTAT-T-TATAAAT
1 TTAAAATTTATCTCTATAAAT
*
99627940 TTAATATTTATCTCTATAAAT
1 TTAAAATTTATCTCTATAAAT
99627961 AATAATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATTTATCTCTATAAAT
Found at i:99633667 original size:16 final size:16
Alignment explanation
Indices: 99633646--99633697 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
99633636 TTTGGTTCGC
99633646 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
99633662 TGTATTGGATTAGAGC
1 TGTATTGGATTAGAGG
99633678 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99633694 TGTA
1 TGTA
99633698 ATAGGAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:99633960 original size:18 final size:17
Alignment explanation
Indices: 99633933--99633967 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99633923 TTATTTTTAA
*
99633933 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99633951 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99633968 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:99634062 original size:163 final size:157
Alignment explanation
Indices: 99633820--99634142 Score: 520
Period size: 163 Copynumber: 2.0 Consensus size: 157
99633810 TAGAATACCC
*
99633820 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
99633885 TTATCAATAATAAATAATTTAATCACATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCACATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
99633950 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
99633977 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTGTTATTTAAATTTTAATAAGA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTA---TTA---TTATTTAAATTTTAATAAGA
* * *
99634042 TTATTAATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAA
60 TTATTAATATCAATAATAAATAATTTAATCACATTTAAAAATAATTATTATTAAATATATTATAA
99634107 TTAAAATATATAATTTAATAAAATTCTTAATAA
125 TTAAAATATATAATTTAATAAAATTCTTAATAA
99634140 TTA
1 TTA
99634143 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
157 34 0.22
160 3 0.02
163 115 0.76
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCACATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:99634113 original size:16 final size:16
Alignment explanation
Indices: 99634076--99634117 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99634066 TTAATCATAT
*
99634076 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
99634092 TT-AAATATATTATAA
1 TTAAAATATATTATAA
99634107 TTAAAATATAT
1 TTAAAATATAT
99634118 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Done.