Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 349 of 352
Found at i:111850999 original size:21 final size:22
Alignment explanation
Indices: 111850964--111851006 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
111850954 ATCTTTCACA
111850964 AGATCGAAGGTCAGAATAATTT
1 AGATCGAAGGTCAGAATAATTT
111850986 AGATCGAA-GTCAGAATAATTT
1 AGATCGAAGGTCAGAATAATTT
111851007 TTTTAAGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (22 bp):
AGATCGAAGGTCAGAATAATTT
Found at i:111852310 original size:17 final size:17
Alignment explanation
Indices: 111852284--111852317 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
111852274 TTTTAAGATA
111852284 TTTTAAATTTAATGGAT
1 TTTTAAATTTAATGGAT
* *
111852301 TTTTATATTTGATGGAT
1 TTTTAAATTTAATGGAT
111852318 CATATAATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTAATGGAT
Found at i:111854708 original size:24 final size:23
Alignment explanation
Indices: 111854681--111854726 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
111854671 AATTGGAATT
*
111854681 ATAA-TTACTATTATAATTGTTAAG
1 ATAATTTA-TATTAAAATT-TTAAG
111854705 ATAATTTATATTAAAATTTTAA
1 ATAATTTATATTAAAATTTTAA
111854727 TAAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 13 0.65
25 3 0.15
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
ATAATTTATATTAAAATTTTAAG
Found at i:111862568 original size:20 final size:21
Alignment explanation
Indices: 111862530--111862569 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111862520 AGACGAGCAA
*
111862530 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111862551 TACTCCAAAACA-GTGGAGT
1 TACTCCAAAACAGGTGGAGT
111862570 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111874937 original size:82 final size:81
Alignment explanation
Indices: 111874761--111874941 Score: 181
Period size: 82 Copynumber: 2.2 Consensus size: 81
111874751 TACTATGTAT
* *
111874761 ATATTATTTATATTTATTATTAATATTAGTACATATATTTTATTACACGTATATATATACTTTTT
1 ATATTATTT-TATTCATTATTAACATTAGTACATATATTTTATTACACGTATATATATACTTTTT
* *
111874826 ATTAGTATTATTTTTGT
65 ATTAGTATTATTTGTGC
* * * * * * *
111874843 ATATCATATTATTCATTATTATACATGTA-TATATATATTTTCTTAATACTTAT-TATAATATTT
1 ATATTATTTTATTCATTATTA-ACAT-TAGTACATATATTTTATT-ACACGTATATAT-ATACTT
111874906 TCTTATTA-TATTA-TTGTGC
62 T-TTATTAGTATTATTTGTGC
111874925 ATATTATTTTATTCATT
1 ATATTATTTTATTCATT
111874942 TCTTCATTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
81 11 0.14
82 45 0.56
83 19 0.23
84 6 0.07
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (81 bp):
ATATTATTTTATTCATTATTAACATTAGTACATATATTTTATTACACGTATATATATACTTTTTA
TTAGTATTATTTGTGC
Found at i:111876818 original size:14 final size:15
Alignment explanation
Indices: 111876781--111876819 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
111876771 CTTTGCAAAA
111876781 GGCCTAAAAATTAAT
1 GGCCTAAAAATTAAT
*
111876796 -GACTAAAAATTAAT
1 GGCCTAAAAATTAAT
111876810 GGCCTAAAAA
1 GGCCTAAAAA
111876820 AAAATAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (15 bp):
GGCCTAAAAATTAAT
Found at i:111882467 original size:21 final size:21
Alignment explanation
Indices: 111882441--111882481 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111882431 ATCTGCTCAA
* *
111882441 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
111882462 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
111882482 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:111893574 original size:22 final size:22
Alignment explanation
Indices: 111893549--111893592 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
111893539 ACCCCTTAAA
111893549 AAATTATTCTGACTTCGATCTT
1 AAATTATTCTGACTTCGATCTT
111893571 AAATTATTCTGACTTCGATCTT
1 AAATTATTCTGACTTCGATCTT
111893593 GTGAAAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (22 bp):
AAATTATTCTGACTTCGATCTT
Found at i:111894800 original size:21 final size:22
Alignment explanation
Indices: 111894774--111894820 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
111894764 CTCTGCTCAA
*
111894774 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
111894795 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
111894817 ACTC
1 ACTC
111894821 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:111902375 original size:107 final size:108
Alignment explanation
Indices: 111902245--111902460 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
111902235 AAAAAACACG
111902245 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
111902310 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
111902353 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATATAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
*
111902417 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
111902460 T
1 T
111902461 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 93 0.89
108 12 0.11
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAAATTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:111903604 original size:16 final size:16
Alignment explanation
Indices: 111903583--111903613 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111903573 CAATTTAAAA
*
111903583 ATTATAAATATATACT
1 ATTATAAAAATATACT
111903599 ATTATAAAAATATAC
1 ATTATAAAAATATAC
111903614 AATTTAATTC
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:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAAAAATATACT
Found at i:111913776 original size:15 final size:15
Alignment explanation
Indices: 111913756--111913785 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111913746 TTCTTGTTCA
*
111913756 TTTTACTTTTATTTT
1 TTTTACTCTTATTTT
111913771 TTTTACTCTTATTTT
1 TTTTACTCTTATTTT
111913786 ATATTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTACTCTTATTTT
Found at i:111914258 original size:39 final size:39
Alignment explanation
Indices: 111914205--111914279 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
111914195 AAATATGGTT
* * *
111914205 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAATAGCATAGGGGAGTGAGA
*
111914244 TTAATTAATAATAAAATAAAATAGCATAGGGGAGTG
1 TTAATTAATAATAAAACAAAATAGCATAGGGGAGTG
111914280 GGATCAGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAATAGCATAGGGGAGTGAGA
Found at i:111914789 original size:24 final size:26
Alignment explanation
Indices: 111914762--111914810 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
111914752 TGTATATACC
*
111914762 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
111914786 ATGTATACATTTTATATATATATAT
1 ATGTAAACATTTTATATATATATAT
111914811 ATCTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:111916111 original size:22 final size:22
Alignment explanation
Indices: 111916065--111916116 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
111916055 ATTTTCATAG
*
111916065 ACCAAAATCATTGTTTTAATAA
1 ACCAAAATCATTGTTTTAAAAA
111916087 ACCAAAAT-ATT-TTATTAAAACA
1 ACCAAAATCATTGTT-TTAAAA-A
*
111916109 ACCCAAAT
1 ACCAAAAT
111916117 TTCTAGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 2 0.08
21 8 0.31
22 16 0.62
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (22 bp):
ACCAAAATCATTGTTTTAAAAA
Found at i:111917350 original size:10 final size:11
Alignment explanation
Indices: 111917329--111917380 Score: 67
Period size: 10 Copynumber: 5.1 Consensus size: 11
111917319 AATTAAATTC
111917329 TAAAAGATAAA
1 TAAAAGATAAA
*
111917340 TACAA-ATAAA
1 TAAAAGATAAA
111917350 TAAAA-AT-AA
1 TAAAAGATAAA
111917359 TAAAAGATAAA
1 TAAAAGATAAA
111917370 T-AAAGATAAA
1 TAAAAGATAAA
111917380 T
1 T
111917381 GCTAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.19
10 23 0.62
11 7 0.19
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (11 bp):
TAAAAGATAAA
Found at i:111919500 original size:9 final size:10
Alignment explanation
Indices: 111919482--111919544 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
111919472 AATATTTAAA
111919482 AAATATTTTT
1 AAATATTTTT
111919492 AAATATTTTT
1 AAATATTTTT
* *
111919502 TAAT-TTTTA
1 AAATATTTTT
111919511 AAATAATTTTTT
1 AAAT-A-TTTTT
* *
111919523 AATTTTTTTT
1 AAATATTTTT
111919533 AAA-ATTTTT
1 AAATATTTTT
111919542 AAA
1 AAA
111919545 AATAATTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
9 15 0.36
10 20 0.48
12 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AAATATTTTT
Found at i:111919514 original size:19 final size:19
Alignment explanation
Indices: 111919486--111919529 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
111919476 TTTAAAAAAT
111919486 ATTTTTAAAT-ATTTTTTA
1 ATTTTTAAATAATTTTTTA
111919504 ATTTTTAAAATAATTTTTTA
1 ATTTTT-AAATAATTTTTTA
111919524 ATTTTT
1 ATTTTT
111919530 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTAAATAATTTTTTA
Found at i:111919531 original size:30 final size:32
Alignment explanation
Indices: 111919471--111919551 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 32
111919461 TTATTTTAGA
*
111919471 AAATATTTAAAA-AATATTTTTAAATATTTTTT
1 AAATTTTTAAAATAAT-TTTTTAAATATTTTTT
*
111919503 -AATTTTTAAAATAATTTTTT-AATTTTTTTT
1 AAATTTTTAAAATAATTTTTTAAATATTTTTT
111919533 AAAATTTTTAAAAATAATT
1 -AAATTTTT-AAAATAATT
111919552 AATTGCTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 9 0.21
31 15 0.35
32 10 0.23
33 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
AAATTTTTAAAATAATTTTTTAAATATTTTTT
Found at i:111919543 original size:19 final size:19
Alignment explanation
Indices: 111919487--111919541 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
111919477 TTAAAAAATA
111919487 TTTTTAAATATTTTTTAATT
1 TTTTTAAA-ATTTTTTAATT
**
111919507 TTTAAAATAATTTTTTAATTT
1 TTTTTAA-AATTTTTTAA-TT
111919528 TTTTTAAAATTTTT
1 TTTTTAAAATTTTT
111919542 AAAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATTTTTTAATT
Found at i:111920638 original size:31 final size:31
Alignment explanation
Indices: 111920603--111920664 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
111920593 TGCTCTTGTT
111920603 TTGGGATTAATTCTCGGGAAAGTGTGTTTAA
1 TTGGGATTAATTCTCGGGAAAGTGTGTTTAA
111920634 TTGGGATTAATTCTCGGGAAAGTGTGTTTAA
1 TTGGGATTAATTCTCGGGAAAGTGTGTTTAA
111920665 CTTCCGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (31 bp):
TTGGGATTAATTCTCGGGAAAGTGTGTTTAA
Found at i:111934939 original size:21 final size:21
Alignment explanation
Indices: 111934913--111934954 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
111934903 AATTCTATTC
111934913 TTTATTTAATTTATAA-ATAAA
1 TTTATTT-ATTTATAATATAAA
*
111934934 TTTATTTTTTTATAATATAAA
1 TTTATTTATTTATAATATAAA
111934955 AATAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTTATTTATAATATAAA
Found at i:111936779 original size:24 final size:27
Alignment explanation
Indices: 111936749--111936800 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
111936739 TAGTCTCTCG
*
111936749 ATTATT-AAATAG-ATCAAA-TATATT
1 ATTATTAAAAAAGAATCAAATTATATT
111936773 ATTATTAAAAAAGAATCAAATTATATT
1 ATTATTAAAAAAGAATCAAATTATATT
111936800 A
1 A
111936801 AATTATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 5 0.21
26 6 0.25
27 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (27 bp):
ATTATTAAAAAAGAATCAAATTATATT
Found at i:111947431 original size:3 final size:3
Alignment explanation
Indices: 111947423--111947453 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
111947413 CTAAATTCTC
*
111947423 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
111947454 CAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:111948217 original size:17 final size:18
Alignment explanation
Indices: 111948177--111948219 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
111948167 ATGTCTCGTT
111948177 TATTTATATATTTAAATA
1 TATTTATATATTTAAATA
* * *
111948195 TTTTTA-ATATTTTATTA
1 TATTTATATATTTAAATA
111948212 TATTTATA
1 TATTTATA
111948220 AGATACATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATATATTTAAATA
Found at i:111949505 original size:62 final size:62
Alignment explanation
Indices: 111949395--111949526 Score: 142
Period size: 62 Copynumber: 2.1 Consensus size: 62
111949385 AAATGGGGCC
* *
111949395 AAATTTGTTGAATTTTTTAGAATTAGAACTAAAATAATAAATTTTGTAAACATT-GAAGGTT
1 AAATTTGTTGAATTTTTTAGAATTAGAACCAAAATAATAAATTGTGTAAACATTAGAAGGTT
* * ** * * *
111949456 AAATTTGTTGAATTTTTTTATAATTAGGACCAATTTGATAGAA-TGTGTAAATATTAGAGGGTT
1 AAATTTGTTGAA-TTTTTTAGAATTAGAACCAAAATAATA-AATTGTGTAAACATTAGAAGGTT
*
111949519 AATTTTGT
1 AAATTTGT
111949527 AACTAGACCA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
61 12 0.21
62 31 0.53
63 15 0.26
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (62 bp):
AAATTTGTTGAATTTTTTAGAATTAGAACCAAAATAATAAATTGTGTAAACATTAGAAGGTT
Found at i:111951139 original size:2 final size:2
Alignment explanation
Indices: 111951132--111951157 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
111951122 CATTGGTAAA
111951132 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
111951158 TCATCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111960393 original size:32 final size:30
Alignment explanation
Indices: 111960346--111960411 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
111960336 AAGTTTTAGG
* * *
111960346 TAAAATTTTACTTTAGTCCTATCTAAAAATGA
1 TAAAAATTTAATTTAGTACT-T-TAAAAATGA
*
111960378 TAAAAATTTAATTTAGTACTTTAAAAATTA
1 TAAAAATTTAATTTAGTACTTTAAAAATGA
111960408 TAAA
1 TAAA
111960412 GATATATGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 12 0.40
31 1 0.03
32 17 0.57
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (30 bp):
TAAAAATTTAATTTAGTACTTTAAAAATGA
Found at i:111973428 original size:2 final size:2
Alignment explanation
Indices: 111973423--111973450 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
111973413 TAAATGTATA
111973423 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
111973451 ATTTTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:111975962 original size:20 final size:19
Alignment explanation
Indices: 111975937--111975975 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
111975927 TTAAATACAT
111975937 TTAAAACATAAAAACAAATA
1 TTAAAACA-AAAAACAAATA
*
111975957 TTAAAATAAAAAACAAATA
1 TTAAAACAAAAAACAAATA
111975976 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
TTAAAACAAAAAACAAATA
Found at i:111976086 original size:12 final size:12
Alignment explanation
Indices: 111976064--111976092 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111976054 AAATTGAAAC
111976064 AAATT-AGAACT
1 AAATTAAGAACT
111976075 AAATTAAGAACT
1 AAATTAAGAACT
111976087 AAATTA
1 AAATTA
111976093 TATTAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (12 bp):
AAATTAAGAACT
Found at i:111976603 original size:24 final size:24
Alignment explanation
Indices: 111976566--111976617 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
111976556 AAATATATGT
* *
111976566 AATTTTTTAGATTATCTAAATAA-G
1 AATTTTTAAAATTATCTAAA-AATG
111976590 AATTTTTAAAATTATCTAAAAATG
1 AATTTTTAAAATTATCTAAAAATG
111976614 AATT
1 AATT
111976618 ACAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
AATTTTTAAAATTATCTAAAAATG
Found at i:111980738 original size:20 final size:19
Alignment explanation
Indices: 111980679--111980749 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
111980669 TATTAAAAAA
*
111980679 ATTAATAAATCTTTAGATAT
1 ATTAATAAAT-TTTAGAAAT
* * *
111980699 TTTGATAAAATTTTATAAAT
1 ATTAAT-AAATTTTAGAAAT
* *
111980719 TTTAGTAAATTCTTAGAAAT
1 ATTAATAAATT-TTAGAAAT
111980739 ATTAATAAATT
1 ATTAATAAATT
111980750 AACCTTTCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.12
20 31 0.77
21 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (19 bp):
ATTAATAAATTTTAGAAAT
Found at i:111986028 original size:22 final size:20
Alignment explanation
Indices: 111986003--111986042 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
111985993 CGAAGTAAAA
111986003 ATATAAATTATGAAAAAAATAG
1 ATATAAATT-T-AAAAAAATAG
*
111986025 ATATAACTTTAAAAAAAT
1 ATATAAATTTAAAAAAAT
111986043 TATATCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
ATATAAATTTAAAAAAATAG
Found at i:111987860 original size:89 final size:87
Alignment explanation
Indices: 111987736--111987904 Score: 193
Period size: 89 Copynumber: 1.9 Consensus size: 87
111987726 AAGGGGCATT
* * * * *
111987736 TTTTTTATATATTTTGACAGTTTAACTATCTAATTGAGTGCAAAAAAGAA-AACGAGACTT-AAT
1 TTTTTGATATATTTTAAAAGTTTAACTACCCAATTGAGT--AAAAAA-AACAA--AGACTTCAAT
*
111987799 TATTTTTTT-GAAAAAGTTTAAGGATC
61 TATTTTTTTAAAAAAAGTTTAAGGATC
*
111987825 TTTTTGATATATTTTAAAAGTTTAGA-TACCCAATTGAGTAAAAAAAACAATGACTTCAATTATT
1 TTTTTGATATATTTTAAAAGTTTA-ACTACCCAATTGAGTAAAAAAAACAAAGACTTCAATTATT
111987889 TTTTTAAAAAAAGTTT
65 TTTTTAAAAAAAGTTT
111987905 GAGAATTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
85 5 0.07
86 14 0.20
87 17 0.25
89 32 0.46
90 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (87 bp):
TTTTTGATATATTTTAAAAGTTTAACTACCCAATTGAGTAAAAAAAACAAAGACTTCAATTATTT
TTTTAAAAAAAGTTTAAGGATC
Found at i:111989438 original size:31 final size:29
Alignment explanation
Indices: 111989397--111989471 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
111989387 AAATTTATAC
* * *
111989397 ATGAATTTTGATTCGGTGTATAATTCGATAT
1 ATGAACTTTGATT--GTGTACAATTAGATAT
* *
111989428 ATGAACTTTGATTTTGTACAATTATATAT
1 ATGAACTTTGATTGTGTACAATTAGATAT
*
111989457 ATGAACTTTAATTGT
1 ATGAACTTTGATTGT
111989472 TGTCCTTATC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 25 0.68
31 12 0.32
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.47
Consensus pattern (29 bp):
ATGAACTTTGATTGTGTACAATTAGATAT
Found at i:111990200 original size:16 final size:17
Alignment explanation
Indices: 111990179--111990214 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
111990169 TAATTAGTAA
*
111990179 ATTTTAATTTTA-TATT
1 ATTTTAATTTAATTATT
111990195 ATTTTAATTTAATTATT
1 ATTTTAATTTAATTATT
111990212 ATT
1 ATT
111990215 GAATCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTAATTATT
Found at i:112000763 original size:21 final size:21
Alignment explanation
Indices: 112000739--112000778 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
112000729 TTATTAATAT
* *
112000739 AATTGTATTTTTTATAATTTA
1 AATTGTATATTATATAATTTA
*
112000760 AATTTTATATTATATAATT
1 AATTGTATATTATATAATT
112000779 ATATATCCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
AATTGTATATTATATAATTTA
Found at i:112011990 original size:36 final size:37
Alignment explanation
Indices: 112011943--112012033 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 37
112011933 GACCGTTTAA
112011943 GGTACTATTCACATATACGA-CACTATTCACGTATAC
1 GGTACTATTCACATATACGAGCACTATTCACGTATAC
* * *
112011979 GGTACTATTCACATATA-TAGCACTATTCATGTATAT
1 GGTACTATTCACATATACGAGCACTATTCACGTATAC
* *
112012015 GGTACTGTTCACGTATACG
1 GGTACTATTCACATATACG
112012034 GTAGTTGGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.02
36 46 0.98
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (37 bp):
GGTACTATTCACATATACGAGCACTATTCACGTATAC
Found at i:112012036 original size:18 final size:18
Alignment explanation
Indices: 112011943--112012036 Score: 98
Period size: 18 Copynumber: 5.2 Consensus size: 18
112011933 GACCGTTTAA
*
112011943 GGTACTATTCACATATAC
1 GGTACTATTCACGTATAC
**
112011961 GACACTATTCACGTATAC
1 GGTACTATTCACGTATAC
* *
112011979 GGTACTATTCACATATAT
1 GGTACTATTCACGTATAC
* * * *
112011997 AGCACTATTCATGTATAT
1 GGTACTATTCACGTATAC
*
112012015 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
112012033 GGTA
1 GGTA
112012037 GTTGGGATTG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:112019823 original size:72 final size:72
Alignment explanation
Indices: 112019706--112019841 Score: 229
Period size: 72 Copynumber: 1.9 Consensus size: 72
112019696 ATGCAATGGG
*
112019706 AACATCTAATAAATCTGCCAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
112019771 TGGATTC
66 TGGATTC
* *
112019778 AACATCTAATAAATCTGCAAAGGCTTTCTCTCGTTGAC-TTTCCCAATTTAACATCGCTTCCGGA
1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCT-ACTTTTCCCAATTTAACATCGCTTCCGGA
112019842 TGAGATGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 58 0.97
73 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (72 bp):
AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
TGGATTC
Found at i:112022797 original size:51 final size:51
Alignment explanation
Indices: 112022738--112022852 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
112022728 AACATTGCAA
* * *
112022738 GCTAAATTTGTTAAA-CTAGAACCAAATTGACAAAATGTTTAAAAGTTGTGG
1 GCTAAATTTGTTAAATCAAG-ACCAAATTGACAAAATGTGTAAAAGTTGAGG
* **
112022789 GCTAAATTTGTTAAATCAAGATCAAATTGACAAAATGTGTAAACTTTGAGG
1 GCTAAATTTGTTAAATCAAGACCAAATTGACAAAATGTGTAAAAGTTGAGG
*
112022840 GCTAAAGTTGTTA
1 GCTAAATTTGTTA
112022853 TTATACCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 53 0.95
52 3 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (51 bp):
GCTAAATTTGTTAAATCAAGACCAAATTGACAAAATGTGTAAAAGTTGAGG
Found at i:112023254 original size:90 final size:90
Alignment explanation
Indices: 112023102--112023301 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 90
112023092 CTAAGGGTGT
* *** * * * *
112023102 AAAAAGCCTTCAAACTTTT-TTTAAAAAATAATTAAGCCCCTGCTTTTTTTTTTGTACTCAATTG
1 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
* *
112023166 GGTACTTTAACT-TTCAAAATGCATCA
66 GGTACTTGAACTATT-AAAATACAT-A
112023192 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTG-ATTTTTTTTTGCACTCAATTG
1 AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
* *
112023256 GGTGCTTGAACTATTAAAGTACATA
66 GGTACTTGAACTATTAAAATACATA
*
112023281 AAAAAGGCCCTCAAACCTTTA
1 AAAAA-GCCCTCAAACTTTTA
112023302 TAGTAGTTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 6 0.06
90 68 0.72
91 20 0.21
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (90 bp):
AAAAAGCCCTCAAACTTTTAAAGAAAAAACAATTAAACCCCTGCATTTTTTTTTGCACTCAATTG
GGTACTTGAACTATTAAAATACATA
Found at i:112023422 original size:10 final size:10
Alignment explanation
Indices: 112023407--112023458 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
112023397 GGCACGACAA
112023407 TTTTTATATT
1 TTTTTATATT
*
112023417 TTTTTATA-A
1 TTTTTATATT
*
112023426 ATTTTATATT
1 TTTTTATATT
* *
112023436 TCTTTACATT
1 TTTTTATATT
112023446 TTTTTATAATT
1 TTTTTAT-ATT
112023457 TT
1 TT
112023459 CTTGCAACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
9 7 0.22
10 20 0.62
11 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATATT
Found at i:112023449 original size:19 final size:19
Alignment explanation
Indices: 112023403--112023448 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
112023393 TTTTGGCACG
*
112023403 ACAATTTTTATATTTTTTT
1 ACAATTTTTATATTTCTTT
* *
112023422 ATAAATTTTATATTTCTTT
1 ACAATTTTTATATTTCTTT
112023441 AC-ATTTTT
1 ACAATTTTT
112023449 TTATAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ACAATTTTTATATTTCTTT
Found at i:112023574 original size:26 final size:26
Alignment explanation
Indices: 112023545--112023598 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
112023535 TTATTTTCTA
**
112023545 ATTTTTAATAAAATTTAATTTTTTTT
1 ATTTTTAATAAAATTTAATAATTTTT
112023571 ATTTTTAATAAAATTTAATAATTTTT
1 ATTTTTAATAAAATTTAATAATTTTT
112023597 AT
1 AT
112023599 AATTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTAATAAAATTTAATAATTTTT
Found at i:112025504 original size:51 final size:51
Alignment explanation
Indices: 112025387--112025524 Score: 129
Period size: 51 Copynumber: 2.7 Consensus size: 51
112025377 GTAGATGTTA
* * *
112025387 GACATAATGTATAAACGTTGCA-AGCTAAATTTGTTAAACTAGAACCAAATT
1 GACAAAATGCATAAACGTTG-AGGGCTAAATTTGTTAAACTAGAACCAAATT
* * * * * *
112025438 GATAGAATGCATAAACGTTGTGGGTTAAATTTGTTAAATTA-AGATCAAATT
1 GACAAAATGCATAAACGTTGAGGGCTAAATTTGTTAAACTAGA-ACCAAATT
* *
112025489 GACAAAATG-ATTAAACTTTGAGGGCTAAAGTTGTTA
1 GACAAAATGCA-TAAACGTTGAGGGCTAAATTTGTTA
112025525 TTATACGTGT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
50 2 0.03
51 68 0.97
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (51 bp):
GACAAAATGCATAAACGTTGAGGGCTAAATTTGTTAAACTAGAACCAAATT
Found at i:112026399 original size:130 final size:131
Alignment explanation
Indices: 112026045--112026428 Score: 389
Period size: 130 Copynumber: 2.9 Consensus size: 131
112026035 AGAGAATATA
* * * * * *
112026045 AGTGAAATTCTGAAGAGATATTCGATTATCTTGAACAAACGGGAAATTGCAACCCAGCACGATAG
1 AGTGAAATT-TGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAG
* * * * * * * *
112026110 GGTACTATTCCCCGAATTGCCAAACATCGAATATTGCCTTCGTTTTGATGAGTTTTTAGGAAGAT
65 GGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCG-TTTGAAGAGATTTTAGAAAGAC
112026175 ACG
129 ACG
* * * **
112026178 AGTGAAATTTTGAGGGGATATTTGATTATTTTAAGCAAGTGAGAAATT-CATAACCCAACACGTT
1 AGTGAAA-TTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGC--AACCCAACACGTT
* * * * * *
112026242 AGGGCACGATTCCACGAGTTGCCAAATATTGCATATCGCCTTTGTTT-AAGGGATTTTA-AAAGA
63 AGGGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTTAGAAAGA
*
112026305 CATG
128 CACG
* *
112026309 AGTGAAATCTTGAAGGGTTATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAG
1 AGTGAAAT-TTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAG
* * * * *
112026374 GGCACTATTCCGCGAATTGCTAAATATCGGATTTCGCCTTCGTTTTAA-AGATTTT
65 GGCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTT
112026429 TTAAATGAAT
Statistics
Matches: 203, Mismatches: 42, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
130 59 0.29
131 47 0.23
132 10 0.05
133 39 0.19
134 48 0.24
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (131 bp):
AGTGAAATTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGG
GCACTATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTGAAGAGATTTTAGAAAGACAC
G
Found at i:112029266 original size:25 final size:25
Alignment explanation
Indices: 112029238--112029289 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
112029228 AATGTTTTAC
112029238 CCTTTCAATTTCCGTAAGACATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
*
112029263 CCTTTTAATTTCCGTAAGACATTTT
1 CCTTTCAATTTCCGTAAGACATTTT
112029288 CC
1 CC
112029290 GTACTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (25 bp):
CCTTTCAATTTCCGTAAGACATTTT
Found at i:112029663 original size:14 final size:15
Alignment explanation
Indices: 112029641--112029717 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
112029631 CAATCAAACA
112029641 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
112029655 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
112029670 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
112029690 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
112029704 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
112029718 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:112029682 original size:20 final size:20
Alignment explanation
Indices: 112029657--112029696 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
112029647 AATATTTTCC
*
112029657 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
112029677 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
112029697 TCATTTTACA
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:112029702 original size:34 final size:35
Alignment explanation
Indices: 112029645--112029711 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
112029635 CAAACACCAG
*
112029645 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
112029680 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
112029712 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:112030239 original size:17 final size:16
Alignment explanation
Indices: 112030188--112030243 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
112030178 GTATGATAAT
* *
112030188 TTTTTATTT-TATAAA
1 TTTTTATTTCTTTACA
112030203 TTTTATATTTCTTTACA
1 TTTT-TATTTCTTTACA
*
112030220 TTTTTATTTTTTTACGA
1 TTTTTATTTCTTTAC-A
112030237 TTTTTAT
1 TTTTTAT
112030244 AAAATTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 16 0.46
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTATTTCTTTACA
Found at i:112030286 original size:22 final size:21
Alignment explanation
Indices: 112030260--112030308 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
112030250 TACACTTTTC
112030260 TTAATAATTATTTACT-ATTT
1 TTAATAATTATTTACTAATTT
*
112030280 TT-ATAATTTTATTTTCTAATTT
1 TTAATAA--TTATTTACTAATTT
112030302 TTAATAA
1 TTAATAA
112030309 AATTTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 8 0.33
22 6 0.25
23 4 0.17
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAATAATTATTTACTAATTT
Found at i:112038562 original size:33 final size:32
Alignment explanation
Indices: 112038519--112038609 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 32
112038509 CTAGTAAAAA
112038519 TTTATAAAATTATTAGAGGGCTTAATGAAATTTT
1 TTTA-AAAATTATT-GAGGGCTTAATGAAATTTT
*
112038553 TTTAAAAATT-TTGAGGAG-TCTAATTAAATTTT
1 TTTAAAAATTATTGAGG-GCT-TAATGAAATTTT
* *
112038585 TTTAAAAA-AATTGAAGGCTTAATGA
1 TTTAAAAATTATTGAGGGCTTAATGA
112038610 GAACTTTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
31 11 0.22
32 28 0.57
33 6 0.12
34 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (32 bp):
TTTAAAAATTATTGAGGGCTTAATGAAATTTT
Found at i:112038986 original size:3 final size:3
Alignment explanation
Indices: 112038978--112039004 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
112038968 CGTTACTTTT
112038978 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
112039005 ACAAGCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:112045647 original size:22 final size:20
Alignment explanation
Indices: 112045601--112045718 Score: 149
Period size: 18 Copynumber: 6.0 Consensus size: 20
112045591 CCAACTACTG
*
112045601 TATACGTGAACAGTACCG--
1 TATACGTGAATAGTACCGTA
112045619 TATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
112045639 TACGTACGTGAATAGTACCGTA
1 TA--TACGTGAATAGTACCGTA
112045661 TACGTACGTGAATAGTA-C-TA
1 TA--TACGTGAATAGTACCGTA
112045681 TATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
112045701 TAT--GTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
112045719 AACGGTCATA
Statistics
Matches: 93, Mismatches: 1, Indels: 12
0.88 0.01 0.11
Matches are distributed among these distances:
18 45 0.48
19 1 0.01
20 11 0.12
21 1 0.01
22 35 0.38
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (20 bp):
TATACGTGAATAGTACCGTA
Found at i:112045656 original size:40 final size:38
Alignment explanation
Indices: 112045601--112045718 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 38
112045591 CCAACTACTG
*
112045601 TATACGTGAACAGTACCGTATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTATACGTGAATAGTACCGTA
112045639 TACGTACGTGAATAGTACCGTATACGTACGTGAATAGTA-C-TA
1 TA--TACGTGAATAGTACCG--TA--TACGTGAATAGTACCGTA
*
112045681 TATACGTGAATAGTACCGTATATGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTATACGTGAATAGTACCGTA
112045719 AACGGTCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
36 12 0.17
37 1 0.01
38 6 0.09
40 31 0.44
42 6 0.09
43 1 0.01
44 13 0.19
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (38 bp):
TATACGTGAATAGTACCGTATACGTGAATAGTACCGTA
Found at i:112049656 original size:22 final size:20
Alignment explanation
Indices: 112049630--112049683 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
112049620 AATCGTAGAT
*
112049630 TTGATATGTAATCTTAGGAGA
1 TTGATTTGTAATCTTA-GAGA
112049651 TATGATTTTGTAAATCTTAGAGA
1 T-TGA-TTTGT-AATCTTAGAGA
112049674 TTGATTTGTA
1 TTGATTTGTA
112049684 GATGCCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 6 0.21
22 6 0.21
23 9 0.31
24 7 0.24
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGATTTGTAATCTTAGAGA
Found at i:112054797 original size:22 final size:20
Alignment explanation
Indices: 112054771--112054824 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
112054761 AATCGTAGAT
*
112054771 TTGATATGTAATCTTAGGAGA
1 TTGATTTGTAATCTTA-GAGA
112054792 TATGATTTTGTAAATCTTAGAGA
1 T-TGA-TTTGT-AATCTTAGAGA
112054815 TTGATTTGTA
1 TTGATTTGTA
112054825 GATGCCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 6 0.21
22 6 0.21
23 9 0.31
24 7 0.24
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGATTTGTAATCTTAGAGA
Found at i:112058470 original size:39 final size:38
Alignment explanation
Indices: 112058426--112058515 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
112058416 TCCGAGTCTA
* *
112058426 GCAGGCCTAGTGCCGGTGTAAGATTTCAGGTTAAATCCC
1 GCAGGCCTAGTGCCGGTCTAAGA-TCCAGGTTAAATCCC
* * * * * *
112058465 GCAGGCTTCGTGCTGGTCTTATATCCGGGTTAAATCCC
1 GCAGGCCTAGTGCCGGTCTAAGATCCAGGTTAAATCCC
112058503 GCAGGCCTAGTGC
1 GCAGGCCTAGTGC
112058516 TGGTATTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
38 24 0.59
39 17 0.41
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (38 bp):
GCAGGCCTAGTGCCGGTCTAAGATCCAGGTTAAATCCC
Found at i:112058497 original size:38 final size:38
Alignment explanation
Indices: 112058454--112058531 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
112058444 TAAGATTTCA
* * *
112058454 GGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATCCG
1 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCG
*
112058492 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTCG
1 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCG
112058530 GG
1 GG
112058532 CCTTTAGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (38 bp):
GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCCG
Found at i:112072576 original size:31 final size:30
Alignment explanation
Indices: 112072514--112072576 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
112072504 CCAAGGTCGC
** *
112072514 ATTAAATTTTTCAAAAATTTTGAGGGTTTA
1 ATTAAATTTTTCAAAAATTTAAAGGGATTA
* *
112072544 ATTAAATTTTTTTAAAAATTTAAAGTGATTA
1 ATTAAA-TTTTTCAAAAATTTAAAGGGATTA
112072575 AT
1 AT
112072577 AAGAAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (30 bp):
ATTAAATTTTTCAAAAATTTAAAGGGATTA
Found at i:112074423 original size:21 final size:21
Alignment explanation
Indices: 112074384--112074423 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
112074374 CAGATTAAAA
* * *
112074384 TAAAATAAGTTATTTTTTTTT
1 TAAAATAACTTACTATTTTTT
112074405 TAAAATAACTTACTATTTT
1 TAAAATAACTTACTATTTT
112074424 GAAAAGGCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (21 bp):
TAAAATAACTTACTATTTTTT
Found at i:112074677 original size:13 final size:14
Alignment explanation
Indices: 112074661--112074702 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
112074651 TTTCAATTTT
112074661 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
112074674 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
112074689 ATTTTAAATAATAT
1 ATTTT-AATAATAT
112074703 TATTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:112074687 original size:16 final size:16
Alignment explanation
Indices: 112074665--112074701 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
112074655 AATTTTATTT
112074665 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
112074682 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
112074697 TAATA
1 TAATA
112074702 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:112075934 original size:13 final size:13
Alignment explanation
Indices: 112075916--112075941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112075906 TAAGCTTCCG
112075916 ATGCTTATGGAAA
1 ATGCTTATGGAAA
112075929 ATGCTTATGGAAA
1 ATGCTTATGGAAA
112075942 GAGCTAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATGCTTATGGAAA
Found at i:112082579 original size:7 final size:8
Alignment explanation
Indices: 112082562--112082587 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
112082552 TCTATATCTC
112082562 TTTCTTTT
1 TTTCTTTT
112082570 TTTCTTTT
1 TTTCTTTT
112082578 TTTCTTTT
1 TTTCTTTT
112082586 TT
1 TT
112082588 ATTTCTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:112085691 original size:11 final size:11
Alignment explanation
Indices: 112085677--112085702 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
112085667 AAAAATTTAT
112085677 AAAAATATAAA
1 AAAAATATAAA
112085688 AAAAATATAAA
1 AAAAATATAAA
112085699 AAAA
1 AAAA
112085703 TATTAATTTG
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:112098571 original size:20 final size:19
Alignment explanation
Indices: 112098542--112098582 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
112098532 AGTTAGAAAT
*
112098542 CGGGATAGATTGATTGAAG
1 CGGGATAGATCGATTGAAG
112098561 CGGGTATAGATCGATTGAAG
1 CGGG-ATAGATCGATTGAAG
112098581 CG
1 CG
112098583 AGCAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.29, C:0.10, G:0.37, T:0.24
Consensus pattern (19 bp):
CGGGATAGATCGATTGAAG
Found at i:112099665 original size:20 final size:20
Alignment explanation
Indices: 112099636--112099705 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
112099626 TATCTTTTGA
*
112099636 ATAATTAAAATATAT-TTAT
1 ATAATAAAAATATATATTAT
112099655 CATAATAAAAACTTTATATATTAT
1 -ATAATAAAAA---TATATATTAT
* *
112099679 -TATATAAAAATAAATCTTAT
1 ATA-ATAAAAATATATATTAT
112099699 ATAATAA
1 ATAATAA
112099706 CATAATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
20 21 0.51
21 2 0.05
22 2 0.05
23 12 0.29
24 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATAAAAATATATATTAT
Found at i:112104494 original size:16 final size:18
Alignment explanation
Indices: 112104462--112104494 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112104452 CACATGAAAT
112104462 AAAGAGAAACTACTAAAC
1 AAAGAGAAACTACTAAAC
112104480 AAAGA-AAACTA-TAAA
1 AAAGAGAAACTACTAAA
112104495 TATAACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAGAGAAACTACTAAAC
Found at i:112110776 original size:18 final size:19
Alignment explanation
Indices: 112110735--112110776 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
112110725 GAAATTCTAG
*
112110735 CTTCTCTATACTTCATCTT
1 CTTCTCTAAACTTCATCTT
* *
112110754 TTTCTCTAAAGTTC-TCTT
1 CTTCTCTAAACTTCATCTT
112110772 CTTCT
1 CTTCT
112110777 TCCTATTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.14, C:0.29, G:0.02, T:0.55
Consensus pattern (19 bp):
CTTCTCTAAACTTCATCTT
Found at i:112120048 original size:16 final size:18
Alignment explanation
Indices: 112120011--112120050 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
112120001 TTCATTAAAC
112120011 ATTTT-TAAATTAAGTTA
1 ATTTTGTAAATTAAGTTA
*
112120028 TTTTTGTAAA-TAA-TTA
1 ATTTTGTAAATTAAGTTA
112120044 ATTTTGT
1 ATTTTGT
112120051 TGTGGGTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTTTGTAAATTAAGTTA
Found at i:112135032 original size:32 final size:30
Alignment explanation
Indices: 112134972--112135045 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 30
112134962 GTTATGTAAA
* *
112134972 AATTTTAATTTTTTTTTCTTTAATTTGATT
1 AATTTTAATTTTTTTTTCTTTAAATTGATG
*
112135002 AGTTTTAAATTTTGTATTTT-TTTAAATTGATG
1 AATTTT-AATTTT-T-TTTTCTTTAAATTGATG
112135034 AATTTTAATTTT
1 AATTTTAATTTT
112135046 AATAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.14
31 12 0.32
32 16 0.43
33 4 0.11
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.65
Consensus pattern (30 bp):
AATTTTAATTTTTTTTTCTTTAAATTGATG
Found at i:112136328 original size:102 final size:102
Alignment explanation
Indices: 112136152--112136362 Score: 298
Period size: 102 Copynumber: 2.1 Consensus size: 102
112136142 CGAGGTAGTG
* * * * * *
112136152 AAGTAATAAAAATCTTGATTTTTAAAGATATTTATGTTCAGCATTTTAGATTTTTTTTCCAAAAT
1 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATTCTTCTTCCAAAAT
** * *
112136217 CCGAGTCAACTATGATTTTTCAAGGATATATGTGCGA
66 CCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
*
112136254 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTTAGCAATTTAGATTCCTTCTT-CAAAA
1 AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATT-CTTCTTCCAAAA
*
112136318 TCCGAGTCAACTATGATTTCCCAATGATATATGTACAA
65 TCCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
112136356 AAGTATT
1 AAGTATT
112136363 GTTATAGTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 92 0.96
103 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (102 bp):
AAGTATTAAAAATCTCGAATTTTAAAGATATTTATGTTCAGCAATTTAGATTCTTCTTCCAAAAT
CCGAGTCAACTATGATTTCCCAAGGATATATGTACAA
Found at i:112145093 original size:209 final size:207
Alignment explanation
Indices: 112144843--112145232 Score: 557
Period size: 209 Copynumber: 1.9 Consensus size: 207
112144833 TCATTTCTTT
* * *
112144843 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTT-TGGAATTGGGAAAACTGGTT
1 TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCT-GAAATGGAAAAACTAGTT
* * * *
112144907 AGTTCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGGTCTGAGTTCTGTACCAATCAGTGCT
65 AGTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCT
* *
112144972 ATTGAATCACTGATTACTCTGATTTTGTATAGTTTCCCTTTTAACGCAGGTTTCTTTAATTACTT
130 ACTGAATCACTAATTACTCTGATTTTGTATAGTTT-CCTTTTAACGCAGGTTTCTTTAATTACTT
112145037 GATCCAAAATTTGA
194 GATCCAAAATTTGA
* *
112145051 TTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAAACTAGTT
1 TTTC-TTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAAATGGAAAAACTAGTT
* * ** * * *
112145116 TGTGCTTTTTTACTGTTTTTGGTTCAATGATTTCTTCTGATCTGAATTCTCTACCAGTGAGTGCT
65 AGTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCT
* * *
112145181 ACTGAATCACTAATTTCTTTGATTTTGTATAGTTTCCTTTTAATGCAGGTTT
130 ACTGAATCACTAATTACTCTGATTTTGTATAGTTTCCTTTTAACGCAGGTTT
112145233 ATATGTTGAC
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
208 20 0.13
209 138 0.87
210 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (207 bp):
TTTCTTTTTGTCAGTTTTATATCTGTTGTTTGAATATTTTTGTTCTGAAATGGAAAAACTAGTTA
GTGCTTTTTGACTGTTTTCAGTTCAAAGATTTCTTCTGATCTGAATTCTCTACCAATCAGTGCTA
CTGAATCACTAATTACTCTGATTTTGTATAGTTTCCTTTTAACGCAGGTTTCTTTAATTACTTGA
TCCAAAATTTGA
Found at i:112145615 original size:24 final size:21
Alignment explanation
Indices: 112145591--112145631 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
112145581 AATGCAAACA
*
112145591 ACAACTATCAGAGGTACGCCG
1 ACAACAATCAGAGGTACGCCG
112145612 ACAACAATCAGAGGTACGCC
1 ACAACAATCAGAGGTACGCC
112145632 AACTCTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.29, G:0.22, T:0.12
Consensus pattern (21 bp):
ACAACAATCAGAGGTACGCCG
Found at i:112150838 original size:60 final size:60
Alignment explanation
Indices: 112150772--112150916 Score: 254
Period size: 60 Copynumber: 2.4 Consensus size: 60
112150762 GCTATTGATC
* * *
112150772 AAAAAAGAAATTTATTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGGGTGGCT
1 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
112150832 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
1 AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
*
112150892 AAAAAAGAAATTTACTAATAATTGG
1 AAAAAAGAAATTTACTAATAGTTGG
112150917 ATAACTATTA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.34
Consensus pattern (60 bp):
AAAAAAGAAATTTACTAATAGTTGGGTAATCATTGTGCAACTTTTCATAATTGAGTGACT
Found at i:112160493 original size:32 final size:32
Alignment explanation
Indices: 112160456--112160517 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
112160446 CTATTGTTAT
112160456 TTTGAACTCAGT-GAATTTGTATTGTGTGAGAG
1 TTTGAACTCAGTAG-ATTTGTATTGTGTGAGAG
112160488 TTTGAACTCAGTAGATTTGTATTGTGTGAG
1 TTTGAACTCAGTAGATTTGTATTGTGTGAG
112160518 TATGTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.42
Consensus pattern (32 bp):
TTTGAACTCAGTAGATTTGTATTGTGTGAGAG
Found at i:112161284 original size:12 final size:13
Alignment explanation
Indices: 112161256--112161284 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
112161246 TAAAGATTTC
112161256 TTTTCTTATGTGT
1 TTTTCTTATGTGT
112161269 TTTTCTTATGTGT
1 TTTTCTTATGTGT
112161282 TTT
1 TTT
112161285 AGTTATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (13 bp):
TTTTCTTATGTGT
Found at i:112161472 original size:15 final size:15
Alignment explanation
Indices: 112161436--112161509 Score: 64
Period size: 15 Copynumber: 4.8 Consensus size: 15
112161426 TTAACGAGTG
*
112161436 ATTAAAATGTAAAT-
1 ATTAAAATATAAATA
112161450 A-T-AAATATAAATA
1 ATTAAAATATAAATA
112161463 ATTAAAATATAATATTTTA
1 ATTAAAATATAA-A---TA
*
112161482 AATAAAAGTATAAATA
1 ATTAAAA-TATAAATA
112161498 ATTAAAATATAA
1 ATTAAAATATAA
112161510 TATTTTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
12 9 0.18
13 2 0.04
14 2 0.04
15 13 0.27
16 9 0.18
19 9 0.18
20 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATTAAAATATAAATA
Found at i:112161476 original size:20 final size:20
Alignment explanation
Indices: 112161446--112161512 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
112161436 ATTAAAATGT
112161446 AAATATAAATATAAATAATTA
1 AAATAT-AATATAAATAATTA
112161467 AAATATAATAT---T--TT-
1 AAATATAATATAAATAATTA
*
112161481 AAATAAAAGTATAAATAATTA
1 AAATATAA-TATAAATAATTA
112161502 AAATATAATAT
1 AAATATAATAT
112161513 TTTAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
17 1 0.03
18 1 0.03
20 10 0.27
21 13 0.35
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
AAATATAATATAAATAATTA
Found at i:112161494 original size:35 final size:35
Alignment explanation
Indices: 112161445--112161525 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 35
112161435 GATTAAAATG
112161445 TAAATATAAA-TATAAATAATTAAAATATAATATTT
1 TAAATA-AAAGTATAAATAATTAAAATATAATATTT
112161480 TAAATAAAAGTATAAATAATTAAAATATAATATTT
1 TAAATAAAAGTATAAATAATTAAAATATAATATTT
112161515 TAAATAAAAGT
1 TAAATAAAAGT
112161526 TACTATTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 3 0.07
35 42 0.93
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (35 bp):
TAAATAAAAGTATAAATAATTAAAATATAATATTT
Found at i:112166411 original size:18 final size:18
Alignment explanation
Indices: 112166379--112166443 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
112166369 TTATAACTAT
*
112166379 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
112166398 TTATTATATATTTATATC
1 TTATTATATATTTATATC
112166416 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
112166436 TTTTTATA
1 TTATTATA
112166444 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:112166622 original size:30 final size:30
Alignment explanation
Indices: 112166550--112166622 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
112166540 TACGTCTATT
* *
112166550 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
112166580 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
112166610 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
112166623 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:112166688 original size:27 final size:30
Alignment explanation
Indices: 112166657--112166737 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 30
112166647 ACCCATTTTT
112166657 TATATATATACATATTTATAC-T-TTTATA
1 TATATATATACATATTTATACGTGTTTATA
112166685 -ATATATATACATATGTATATACGTTGTTTATA
1 TATATATATACATAT-T-TATACG-TGTTTATA
* *
112166717 TATATATACACATACTTATAC
1 TATATATATACATATTTATAC
112166738 ATATTATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 14 0.31
28 1 0.02
29 5 0.11
31 6 0.13
32 7 0.16
33 12 0.27
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.47
Consensus pattern (30 bp):
TATATATATACATATTTATACGTGTTTATA
Found at i:112173449 original size:88 final size:88
Alignment explanation
Indices: 112173300--112173819 Score: 796
Period size: 88 Copynumber: 5.9 Consensus size: 88
112173290 CAATGAAGTT
112173300 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
112173365 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
112173388 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
112173453 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
112173476 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
112173541 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
112173564 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCTTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
112173629 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
112173652 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
112173717 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * * **
112173739 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCGGATCAAAAACA-AAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
112173803 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
112173820 AAAGGTTACA
Statistics
Matches: 404, Mismatches: 25, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
86 3 0.01
87 65 0.16
88 336 0.83
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:112175465 original size:18 final size:18
Alignment explanation
Indices: 112175433--112175497 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
112175423 TTATAACTAT
*
112175433 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
112175452 TTATTATATATTTATATC
1 TTATTATATATTTATATC
112175470 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
112175490 TTTTTATA
1 TTATTATA
112175498 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:112175676 original size:30 final size:30
Alignment explanation
Indices: 112175604--112175676 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
112175594 TACGTCTATT
* *
112175604 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
112175634 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
112175664 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
112175677 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:112175732 original size:10 final size:10
Alignment explanation
Indices: 112175714--112175797 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
112175704 CCCATTTTTT
*
112175714 ATATATATAC
1 ATATTTATAC
112175724 ATATTTATAC
1 ATATTTATAC
112175734 -T-TTTATA-
1 ATATTTATAC
*
112175741 ATATATATAC
1 ATATTTATAC
112175751 ATATGTATATAC
1 ATAT-T-TATAC
* * *
112175763 GTGTTTATAT
1 ATATTTATAC
* *
112175773 ATATATACAC
1 ATATTTATAC
*
112175783 ATACTTATAC
1 ATATTTATAC
112175793 ATATT
1 ATATT
112175798 ATTTATATTT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
8 7 0.13
9 6 0.11
10 33 0.61
11 1 0.02
12 7 0.13
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (10 bp):
ATATTTATAC
Found at i:112178622 original size:39 final size:39
Alignment explanation
Indices: 112178563--112178779 Score: 328
Period size: 39 Copynumber: 5.6 Consensus size: 39
112178553 TTCGTGATCT
** * *
112178563 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
112178602 GAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
112178641 GAAG-CCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
112178679 GAAGCCCAAAGGCTAACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
112178718 GAAGCCCGAAGGCTGATTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
112178757 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
112178780 TCACCAGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 36 0.22
39 128 0.78
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:112178710 original size:77 final size:78
Alignment explanation
Indices: 112178579--112178779 Score: 323
Period size: 77 Copynumber: 2.6 Consensus size: 78
112178569 CGAAGTTTAG
* *
112178579 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
112178644 G-CCAAAGGCTAA
66 GCCCAAAGGCTAA
* *
112178656 CTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTGAAGCACAGAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
* *
112178721 GCCCGAAGGCTGA
66 GCCCAAAGGCTAA
* *
112178734 TTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGC
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGC
112178780 TCACCAGAGC
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 62 0.54
78 52 0.46
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.11
Consensus pattern (78 bp):
CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
GCCCAAAGGCTAA
Found at i:112183161 original size:10 final size:10
Alignment explanation
Indices: 112183133--112183179 Score: 58
Period size: 10 Copynumber: 4.4 Consensus size: 10
112183123 TGGTATTGTT
112183133 ATTTTTTAATAA
1 ATTTTTT-AT-A
112183145 ATTTTTTATA
1 ATTTTTTATA
112183155 ATGTTTTTATA
1 AT-TTTTTATA
*
112183166 ATTTTTAATA
1 ATTTTTTATA
112183176 ATTT
1 ATTT
112183180 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 14 0.42
11 12 0.36
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:112183170 original size:21 final size:23
Alignment explanation
Indices: 112183135--112183177 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
112183125 GTATTGTTAT
*
112183135 TTTTTAATAAATTTTTTATAATG
1 TTTTTAATAAATTTTTAATAATG
112183158 TTTTT-AT-AATTTTTAATAAT
1 TTTTTAATAAATTTTTAATAAT
112183178 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTAATAAATTTTTAATAATG
Found at i:112184278 original size:55 final size:55
Alignment explanation
Indices: 112184217--112184322 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
112184207 AACATGGTCC
112184217 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
1 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
*
112184272 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAATAAATTT
1 TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTT
112184323 CATAGTCCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (55 bp):
TACATCAATGCTCCCCAAAAGCCTTTCTAATATATATTCACTAACAAATTTTCTT
Found at i:112190632 original size:31 final size:32
Alignment explanation
Indices: 112190561--112190641 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 32
112190551 AAGTTGTTGC
112190561 TTTAGTTTCTAT-A-TTTT-AATTAAATTAAA
1 TTTAGTTTCTATAATTTTTAAATTAAATTAAA
* * * *
112190590 TTTAATCTCTATAATTTTTAAATT-AGTTAAT
1 TTTAGTTTCTATAATTTTTAAATTAAATTAAA
*
112190621 TTTAGTTTCTATACTTTTTAA
1 TTTAGTTTCTATAATTTTTAA
112190642 TTTTGAACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 10 0.24
30 1 0.02
31 27 0.64
32 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (32 bp):
TTTAGTTTCTATAATTTTTAAATTAAATTAAA
Found at i:112195592 original size:21 final size:20
Alignment explanation
Indices: 112195563--112195602 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
112195553 AAAAAAACCC
**
112195563 TTTTTTTAAATTATTTTTAT
1 TTTTTTTAAAACATTTTTAT
112195583 TTTTATTTAAAACATTTTTA
1 TTTT-TTTAAAACATTTTTA
112195603 AACAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTTAAAACATTTTTAT
Found at i:112198680 original size:33 final size:33
Alignment explanation
Indices: 112198643--112198711 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
112198633 ATTACAACTC
*
112198643 TTCAATGATTTTGGGGATTTTGACTCATATAGG
1 TTCAATGATTTTGAGGATTTTGACTCATATAGG
112198676 TTCAATGATTTTGAGGATTTTGACTCATATAGG
1 TTCAATGATTTTGAGGATTTTGACTCATATAGG
112198709 TTC
1 TTC
112198712 TGGTAGCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (33 bp):
TTCAATGATTTTGAGGATTTTGACTCATATAGG
Found at i:112202910 original size:21 final size:20
Alignment explanation
Indices: 112202863--112202910 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
112202853 AGATGATTTG
* *
112202863 ATAAAATTTTATAATTAGCA
1 ATAAAATTTCATAATTAACA
* *
112202883 ATTAAATTTCATCAATTAACC
1 ATAAAATTTCAT-AATTAACA
112202904 ATAAAAT
1 ATAAAAT
112202911 CCGAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATTTCATAATTAACA
Found at i:112204865 original size:21 final size:19
Alignment explanation
Indices: 112204841--112204888 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
112204831 GCTAATATCG
*
112204841 ATAAATTTTTTAAAAGTTTTT
1 ATAAATTTTTT-AAA-TTTTC
112204862 ATAAACTTTTTTAAATTTTC
1 ATAAA-TTTTTTAAATTTTC
112204882 ATAAATT
1 ATAAATT
112204889 ATTAATTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 9 0.36
21 8 0.32
22 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAAATTTTTTAAATTTTC
Found at i:112208487 original size:186 final size:186
Alignment explanation
Indices: 112208173--112208544 Score: 622
Period size: 186 Copynumber: 2.0 Consensus size: 186
112208163 GAAGTTCGAG
*
112208173 GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCTCTCCA
1 GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCCA
*
112208238 CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
66 CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGGAT
*
112208303 GTTTTACATTGTTTTCCTATCTCTGTGCTTGTTGCACTTTAATGATTACTTAGTAT
131 GTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
* *
112208359 GCTTAGGTGCT-GCGATGTCTACATTGGAGGAACATATCGTTTATCTTATGTTTCAATTCCCTCC
1 GCTTAGGTGCTAG-GATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCC
* *
112208423 ACCGCAGCCTTCTCAAG-ATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGG
65 ACCACAGCCTCCTC-AGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGG
* * *
112208487 ATGTTTTCCATTGTTTTCCTATCTCTATGTTTGTTGCACTTTCATGATTACTTAGTAT
129 ATGTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
112208545 TTTATTTTAT
Statistics
Matches: 174, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
185 1 0.01
186 171 0.98
187 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (186 bp):
GCTTAGGTGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGTTTCAATTCCCTCCA
CCACAGCCTCCTCAGTATAGCTAGGACTCATTTTGCATTCATGGATTTACATGTTTTATTTGGAT
GTTTTACATTGTTTTCCTATCTCTATGCTTGTTGCACTTTAATGATTACTTAGTAT
Found at i:112213208 original size:18 final size:18
Alignment explanation
Indices: 112213185--112213239 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
112213175 CATTTACGGC
**
112213185 ACTATTCACGTATATGGT
1 ACTATTCACGTATACAGT
112213203 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
112213221 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
112213239 A
1 A
112213240 GTTGGGATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:112218960 original size:22 final size:22
Alignment explanation
Indices: 112218911--112218963 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
112218901 ATTCAATCCC
* *
112218911 TATTATTATTATTTATTTTAGT
1 TATTTTTATTAATTATTTTAGT
*
112218933 TATTTTTATTAATTA-TTTATT
1 TATTTTTATTAATTATTTTAGT
*
112218954 TACTTTTATT
1 TATTTTTATT
112218964 TAAAAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTTATTAATTATTTTAGT
Found at i:112220864 original size:11 final size:11
Alignment explanation
Indices: 112220848--112220872 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112220838 AGTAGGGCAT
112220848 AGTACCAATAA
1 AGTACCAATAA
112220859 AGTACCAATAA
1 AGTACCAATAA
112220870 AGT
1 AGT
112220873 CCCATGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (11 bp):
AGTACCAATAA
Found at i:112221683 original size:21 final size:20
Alignment explanation
Indices: 112221636--112221683 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
112221626 AAATGATTTG
* *
112221636 ATAAAATTTTATAATTAGCA
1 ATAAAATTTCATAATTAACA
* *
112221656 ATTAAATTTCATCAATTAACC
1 ATAAAATTTCAT-AATTAACA
112221677 ATAAAAT
1 ATAAAAT
112221684 CCGAATTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATTTCATAATTAACA
Found at i:112222272 original size:30 final size:31
Alignment explanation
Indices: 112222236--112222294 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
112222226 AGATAGAATT
*
112222236 TTTAACAGA-AATGACTT-ATTTGCTCTTTGA
1 TTTAACACATAATGA-TTAATTTGCTCTTTGA
112222266 TTTAACACATAATGATTAATTTGCTCTTT
1 TTTAACACATAATGATTAATTTGCTCTTT
112222295 TTTTAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTAACACATAATGATTAATTTGCTCTTTGA
Found at i:112222300 original size:30 final size:29
Alignment explanation
Indices: 112222234--112222300 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
112222224 ATAGATAGAA
*
112222234 TTTTTAACAGAAATGACTTATTTGCTCTT
1 TTTTTAACACAAATGACTTATTTGCTCTT
*
112222263 TGATTTAACACATAATGA-TTAATTTGCTCTT
1 T-TTTTAACACA-AATGACTT-ATTTGCTCTT
112222294 TTTTTAA
1 TTTTTAA
112222301 TAGAAAGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 15 0.47
31 16 0.50
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (29 bp):
TTTTTAACACAAATGACTTATTTGCTCTT
Found at i:112223103 original size:186 final size:186
Alignment explanation
Indices: 112222775--112223142 Score: 641
Period size: 186 Copynumber: 2.0 Consensus size: 186
112222765 GAAGTTCGAG
*
112222775 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCTCTCCA
1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCCCTCCA
*
112222840 CCACAGCCTCCTCAATATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
66 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
112222905 GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
131 GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
* * * *
112222961 GCTTAGGTGCTGGGATGTCTACATTGGAGGAACATATCG-TTAATCTTATGTTTCAATTCCCTCC
1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTT-ATCTTATGCTTCAATTCCCTCC
112223025 ACCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGGTTTT-TTTGG
65 ACCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCAT-GTTTTATTTGG
*
112223089 ATGTTTTCCATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTA
129 ATGTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTA
112223143 ATATTTTGAG
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
185 2 0.01
186 166 0.96
187 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (186 bp):
GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCCCTCCA
CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
Found at i:112225706 original size:147 final size:147
Alignment explanation
Indices: 112225439--112225874 Score: 613
Period size: 147 Copynumber: 2.9 Consensus size: 147
112225429 ATTGTTATTG
** * * * * *
112225439 TGGATTGAATCTTAGTTCGCTTAGAATATGGGTTTAAGTACGTTAAAGTGTATTATCCTTTTATT
1 TGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGTGCATTATCCTCTTATT
* * * *
112225504 TATAAGTTGAGAAGATGTTATAAGTAATTCTAAACATTATATCAAAACAAAAAATAAATATGATC
66 TATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAAATAAATATAATC
112225569 AAAACTTACTATTATAA
131 AAAACTTACTATTATAA
* * * *
112225586 TGGATTGAGTCTTAGTTCATTTGGAATGTCGGTTCGAGTACGTTGAAGTGCATTATCCTCTTATT
1 TGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGTGCATTATCCTCTTATT
* *
112225651 TATGGGTCGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAAATAAATATAATC
66 TATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAAATAAATATAATC
**
112225716 AAAACTTACTATTATTG
131 AAAACTTACTATTATAA
*
112225733 TGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGCGCATTATCCTCTTATT
1 TGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGTGCATTATCCTCTTATT
* * *
112225798 TATAGGTTAAGAAGA-GATTATAAGTAGTTCTAAACATTGTATCAGAACAAAAAAAAAACAAATA
66 TATAGGTTGAGAAGATG-TTATAAGTAGTTCTAAACATTGTATC---A-AAACAAAAAATAAATA
112225862 TAATCAAAACTTA
126 TAATCAAAACTTA
112225875 TGACATAATT
Statistics
Matches: 255, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
146 1 0.00
147 226 0.89
150 1 0.00
151 27 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (147 bp):
TGGATTGAATCTTAGTTCATTTGGAATGTGGGTTTGAGTACGTTAAAGTGCATTATCCTCTTATT
TATAGGTTGAGAAGATGTTATAAGTAGTTCTAAACATTGTATCAAAACAAAAAATAAATATAATC
AAAACTTACTATTATAA
Found at i:112229965 original size:43 final size:43
Alignment explanation
Indices: 112229904--112229990 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
112229894 TTGCGTTGGG
* *
112229904 TTTAATAGAAAAAAGGTCTCGAGTTAAATCTAATGAAATTGAC
1 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
112229947 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
1 TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
112229990 T
1 T
112229991 CAAATACAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (43 bp):
TTTAATAGAAAAAAGGTCTCGAGCTAAATCTAACGAAATTGAC
Found at i:112232960 original size:30 final size:30
Alignment explanation
Indices: 112232924--112232983 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
112232914 CTGGACTTGA
112232924 AATTAATGGAAGTCCAGTAGCCAATGGTGC
1 AATTAATGGAAGTCCAGTAGCCAATGGTGC
112232954 AATTAATGGAAGTCCAGTAGCCAATGGTGC
1 AATTAATGGAAGTCCAGTAGCCAATGGTGC
112232984 TTCCAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (30 bp):
AATTAATGGAAGTCCAGTAGCCAATGGTGC
Found at i:112234297 original size:17 final size:17
Alignment explanation
Indices: 112234277--112234309 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
112234267 TCCGTTAGAA
112234277 GATAAAGTGTATTAGTT
1 GATAAAGTGTATTAGTT
112234294 GATAAAGTGTATTAGT
1 GATAAAGTGTATTAGT
112234310 CGGATGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
GATAAAGTGTATTAGTT
Found at i:112236370 original size:12 final size:12
Alignment explanation
Indices: 112236353--112236379 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
112236343 CTCACTCCAA
112236353 AAACACTTTTAG
1 AAACACTTTTAG
112236365 AAACACTTTTAG
1 AAACACTTTTAG
112236377 AAA
1 AAA
112236380 GAAAGCATGA
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:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (12 bp):
AAACACTTTTAG
Found at i:112239354 original size:6 final size:6
Alignment explanation
Indices: 112239343--112239371 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
112239333 TTATCGTCCC
112239343 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
112239372 ATTCACTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:112241216 original size:31 final size:31
Alignment explanation
Indices: 112241139--112241220 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 31
112241129 AAAAGTGGGT
112241139 TTTTTATTTACATTTTTATATATTAATAAATTA
1 TTTTTATTT-CATTTTTATATATTAAT-AATTA
* * *
112241172 -TTCTATTT-GTTTTTATGATATTCAT-ATTA
1 TTTTTATTTCATTTTTAT-ATATTAATAATTA
112241201 TTTTTATTTCATTTTTATAT
1 TTTTTATTTCATTTTTATAT
112241221 TGTACCTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 4 0.10
30 16 0.39
31 14 0.34
32 7 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (31 bp):
TTTTTATTTCATTTTTATATATTAATAATTA
Found at i:112241516 original size:30 final size:30
Alignment explanation
Indices: 112241482--112241538 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
112241472 AAAATAAAAT
112241482 TTTATGATTA-AAAATTTTAAATAATTATGA
1 TTTATGATTATAAAATTTT-AATAATTATGA
* * *
112241512 TTTATTATTATTAAGTTTTAATAATTA
1 TTTATGATTATAAAATTTTAATAATTA
112241539 AATGAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TTTATGATTATAAAATTTTAATAATTATGA
Found at i:112242299 original size:84 final size:84
Alignment explanation
Indices: 112242158--112242318 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
112242148 TAGCGGGGAA
* ** * * ** *
112242158 GGACTGCTGTTGTCCAGCCTGGAATCTGCAAGAAACCTTCGACAGCCTGGGAGGGCGACGCCTGA
1 GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
*
112242223 AGTTCAAGATGGGACGAAC
66 AGTACAAGATGGGACGAAC
* *
112242242 GGACTGCCGTTGTCCAGCCACGAATCTACAGGAAACCTTCGACAGCTTGGGAAGGCGAAACCTCA
1 GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
112242307 AGTACAAGATGG
66 AGTACAAGATGG
112242319 CGCCAATGGA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.17
Consensus pattern (84 bp):
GGACTGCCGTTGTCCAGCCACGAATCTACAAGAAACCTTCGACAGCCTGGGAAGGCGAAACCTCA
AGTACAAGATGGGACGAAC
Found at i:112246630 original size:24 final size:24
Alignment explanation
Indices: 112246603--112246655 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
112246593 ATATTAGATA
112246603 AAAAAATAAACCAATTTTTA-TATT
1 AAAAAATAAACC-ATTTTTATTATT
* **
112246627 AAAAAATTATTCATTTTTATTATT
1 AAAAAATAAACCATTTTTATTATT
112246651 AAAAA
1 AAAAA
112246656 CTAACGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAAAATAAACCATTTTTATTATT
Found at i:112249554 original size:92 final size:93
Alignment explanation
Indices: 112249275--112249548 Score: 397
Period size: 92 Copynumber: 2.9 Consensus size: 93
112249265 CGATGTCGTT
* * * * ** *
112249275 GATTTACTTGTTCTTTATGTTTTTGATTTGATTATTTTTTATTCGCCATCTGATCTGAGTTAAAA
1 GATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCTGAGTTAAAT
* ***
112249340 TTCCCAGATCTGTACGAGATGTGGTGTCGTT
66 TTCCCAGATCTGTACAAGA--T-GTGTCAAC
112249371 GATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCAT-ATCTGATCTGAGTTAAAT
1 GATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCTGAGTTAAAT
*
112249435 TTCCCGGATCTGTACAAGATGTGTCAAC
66 TTCCCAGATCTGTACAAGATGTGTCAAC
*
112249463 GATTTACTTGTTCTTTATGTTTTCGATTCAATTGTTTTTGATTCATCATCTGATCTGAGTTAAAT
1 GATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCTGAGTTAAAT
112249528 TTCCCAGATCTGTACAAGATG
66 TTCCCAGATCTGTACAAGATG
112249549 ATCAACAGCA
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
92 50 0.31
93 39 0.24
95 34 0.21
96 40 0.25
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (93 bp):
GATTTACTTGTTCTTTATGTTTTCGATTCGATTGTTTTTGATTCATCATCTGATCTGAGTTAAAT
TTCCCAGATCTGTACAAGATGTGTCAAC
Done.