Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 105 of 222
Found at i:33509669 original size:47 final size:47
Alignment explanation
Indices: 33509524--33509982 Score: 722
Period size: 47 Copynumber: 9.8 Consensus size: 47
33509514 CCCTTCGGGA
* * * * * * *
33509524 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33509571 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33509617 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33509664 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33509711 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33509758 CTTATCACATATATACACTTTTACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33509805 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33509852 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33509899 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33509946 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
33509983 CAAGATTTAG
Statistics
Matches: 385, Mismatches: 26, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 40 0.10
47 345 0.90
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33513419 original size:40 final size:38
Alignment explanation
Indices: 33513366--33513504 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
33513356 CATGATTGCT
* * *
33513366 CTTCGGGATTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGAACTTAGCCCGGATATATCACTAGCAC-AATGC
* * *
33513405 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGAACTTAGCCCGGATATA-TCACTAGCA-CAATGC
* * * *
33513446 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACAATGC
*
33513486 CTTCGGGACTTAGCCCGGA
1 CTTCGGAACTTAGCCCGGA
33513505 CATCATTCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
40 62 0.78
41 16 0.20
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTCGGAACTTAGCCCGGATATATCACTAGCACAATGC
Found at i:33513847 original size:29 final size:29
Alignment explanation
Indices: 33513808--33513886 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
33513798 CTTAATAATC
33513808 AACCACGCACACTTAGTGCCATGTGC-TTT-A
1 AACC-CGCACACTTAGTGCCA--TGCATTTCA
*
33513838 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33513867 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33513887 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 35 0.80
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33513929 original size:43 final size:43
Alignment explanation
Indices: 33513868--33513970 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
33513858 TGCATTTCAA
33513868 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33513911 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33513954 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
33513971 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33516125 original size:47 final size:47
Alignment explanation
Indices: 33515980--33516391 Score: 612
Period size: 47 Copynumber: 8.8 Consensus size: 47
33515970 CCCTTCGGGA
* * * * * * * *
33515980 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
33516027 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
33516073 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
33516120 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
33516167 CTTATCACATATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
33516214 CTTATCACACATATACACTTTCACATTCATCACATCGGCCT-TTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-CTATTAGGC
* * * *
33516261 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
33516308 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
33516355 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
33516392 CAGGATTTAG
Statistics
Matches: 336, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 41 0.12
47 293 0.87
48 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:33524433 original size:36 final size:35
Alignment explanation
Indices: 33524374--33524444 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
33524364 TTGATCATAT
*
33524374 GGCATGAAAACATATCCACATATTTACTGTCACAA
1 GGCATGAAAACATATCCACATATTCACTGTCACAA
* *
33524409 GGCATGAATAACATACTCTA-ATATTCACTTTCACAA
1 GGCATGAA-AACATA-TCCACATATTCACTGTCACAA
33524445 CGGTCATCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 8 0.26
36 20 0.65
37 3 0.10
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (35 bp):
GGCATGAAAACATATCCACATATTCACTGTCACAA
Found at i:33526036 original size:60 final size:59
Alignment explanation
Indices: 33525867--33526037 Score: 182
Period size: 60 Copynumber: 2.8 Consensus size: 59
33525857 ACAGCGTATC
* * *
33525867 GACAATCATCAACTAATGGAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGT
1 GACAACCATCAACT-ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGCT
* * * * * * **
33525927 GACAACAATCAAACAATGAAAAGGGAT-GGTGACGACTGTCGAACAATGAAAAGGGATGCT
1 GACAACCATC-AACTATGAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGATGCT
* *
33525987 GACGACCATCGAACTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
1 GACAACCATC-AACTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAA
33526038 TAACTTCGTG
Statistics
Matches: 86, Mismatches: 22, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
59 2 0.02
60 79 0.92
61 5 0.06
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (59 bp):
GACAACCATCAACTATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGCT
Found at i:33526037 original size:30 final size:30
Alignment explanation
Indices: 33525902--33526013 Score: 134
Period size: 30 Copynumber: 3.7 Consensus size: 30
33525892 ATAGCTTCGG
* * *
33525902 CTATCGAATTATGAAAAGGGATGGTGACAA
1 CTATCGAACTATGAAAAGGGATGCTGACGA
* * * *
33525932 CAATCAAACAATGAAAAGGGATGGTGACGA
1 CTATCGAACTATGAAAAGGGATGCTGACGA
* *
33525962 CTGTCGAACAATGAAAAGGGATGCTGACGA
1 CTATCGAACTATGAAAAGGGATGCTGACGA
*
33525992 CCATCGAACTATGAAAAGGGAT
1 CTATCGAACTATGAAAAGGGAT
33526014 AGCTTCGGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (30 bp):
CTATCGAACTATGAAAAGGGATGCTGACGA
Found at i:33529447 original size:3 final size:3
Alignment explanation
Indices: 33529439--33529481 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
33529429 TGTTGCTGAA
* * *
33529439 TAT TAT TAT TAT CAT TAT TAT TAC TAC TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
33529482 ATTACTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:33535794 original size:54 final size:54
Alignment explanation
Indices: 33535708--33535857 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
33535698 TACCTGTACA
* *
33535708 GTCATTTTACCCTATATGGGTAATTTGATCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCG
* * *
33535762 GTCATTTTATCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCG
*
33535816 GTCATTTTACCCTAT-GAGGGTATTTCGATCATTTTACCCTAT
1 GTCATTTTACCCTATAG-GGGTATTTTGATCATTTTACCCTAT
33535858 AAGGGTATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTTGATCATTTTACCCTATGGGGATATTTCG
Found at i:33535848 original size:81 final size:81
Alignment explanation
Indices: 33535708--33535868 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
33535698 TACCTGTACA
* * *
33535708 GTCATTTTACCCTATATGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGGTCATTTTATC
1 GTCATTTTACCCTATAGGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGATCATTTTACC
*
33535773 CTATAGGGGTATTTTG
66 CTATAAGGGTATTTTG
* *
33535789 GTCATTTTACCCTATGGGGGT-ATTTCGGTCATTTTACCCTATGAGGG-TATTTCGATCATTTTA
1 GTCATTTTACCCTATAGGGGTAATTT-GATCATTTTACCCTATG-GGGATATTTCGATCATTTTA
33535852 CCCTATAAGGGTATTTT
64 CCCTATAAGGGTATTTT
33535869 AATCATTTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 4 0.06
81 65 0.90
82 3 0.04
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGTAATTTGATCATTTTACCCTATGGGGATATTTCGATCATTTTACC
CTATAAGGGTATTTTG
Found at i:33535865 original size:27 final size:27
Alignment explanation
Indices: 33535709--33535876 Score: 198
Period size: 27 Copynumber: 6.2 Consensus size: 27
33535699 ACCTGTACAG
*
33535709 TCATTTTACCCTATATGGGTAATTT-GA
1 TCATTTTACCCTATAGGGGT-ATTTCGA
*
33535736 TCATTTTACCCTAT-GGGGATATTTCGG
1 TCATTTTACCCTATAGGGG-TATTTCGA
* * *
33535763 TCATTTTATCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
33535790 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
33535817 TCATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGA
* **
33535844 TCATTTTACCCTATAAGGGTATTTTAA
1 TCATTTTACCCTATAGGGGTATTTCGA
33535871 TCATTT
1 TCATTT
33535877 CACCTATTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
26 8 0.06
27 113 0.90
28 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:33543315 original size:47 final size:47
Alignment explanation
Indices: 33543254--33543554 Score: 485
Period size: 47 Copynumber: 6.4 Consensus size: 47
33543244 CAGCCAAGAC
33543254 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33543301 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
33543348 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
33543395 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
33543442 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
33543489 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
33543536 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
33543555 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 235 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:33543729 original size:37 final size:37
Alignment explanation
Indices: 33543673--33543751 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33543663 CCGAGCTCTA
* *
33543673 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
33543710 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33543747 AAGAC
1 AAGAC
33543752 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33548151 original size:27 final size:27
Alignment explanation
Indices: 33548112--33548185 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
33548102 CAGTATCACA
** *
33548112 GCAAAGCTGCCAGTAATAGTG-TATGTG
1 GCAAAGCCACCAGTAACAGTGAT-TGTG
*
33548139 GCCAAGCCACCAGTAACAGTGATTGTG
1 GCAAAGCCACCAGTAACAGTGATTGTG
33548166 GCAAAGCCACCAGT-ACAGTG
1 GCAAAGCCACCAGTAACAGTG
33548186 CTTCCTCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.83
28 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTGATTGTG
Found at i:33548299 original size:24 final size:24
Alignment explanation
Indices: 33548264--33548333 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
33548254 GTCATACCAT
*
33548264 TCACAGACAAATCAATCATTTAAA
1 TCACAAACAAATCAATCATTTAAA
* * **
33548288 TCATAAATAAATCAATCATTTCCA
1 TCACAAACAAATCAATCATTTAAA
*
33548312 TCACGAACAAATCAATCATTTA
1 TCACAAACAAATCAATCATTTA
33548334 CACTTGAGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (24 bp):
TCACAAACAAATCAATCATTTAAA
Found at i:33548429 original size:27 final size:27
Alignment explanation
Indices: 33548399--33548950 Score: 633
Period size: 27 Copynumber: 20.5 Consensus size: 27
33548389 TTACATGGGC
* *
33548399 ATTTCAGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33548426 ATTTCGATCATTTTATCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33548453 ATTTCGGTCATTTTACCCAATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33548480 ACTTCAGTCATTTTACCCTATGATGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33548507 ATTTCAGTCATTTAACCCTATAAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33548534 ATTTCGATCATTTTACCTTATG-GGGCT
1 ATTTCGGTCATTTTACCCTATGAGGG-T
* *
33548561 A-TTCGGTTATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
33548587 ATTTCGGTCATTTTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * * *
33548614 ATTTCGATCATTCTATCCTATGGGGGC
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * * *
33548641 ATTTTGGTCATTTAAACTTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33548668 ATTTTGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * * *
33548695 ATTTCGATCATTCTATCCTATGAAGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33548722 ATTTCGGTCATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33548749 ATTTCGGTCATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33548776 ATTTCGGTCATTTAACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33548803 ATTTCGATCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
*
33548830 ATTTCGATCATTTTACCCTATG-GAGGT
1 ATTTCGGTCATTTTACCCTATGAG-GGT
* * *
33548857 ATTTCGATCATTCTACCCTATGAGAGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* *
33548884 ATTTCAGTCATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
* * *
33548911 ATTTCGATAATTTTACCCTTTGAGGGT
1 ATTTCGGTCATTTTACCCTATGAGGGT
33548938 ATTTCGGTCATTT
1 ATTTCGGTCATTT
33548951 AAAAACCTTT
Statistics
Matches: 450, Mismatches: 70, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.05
27 426 0.95
28 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGAGGGT
Found at i:33550974 original size:13 final size:13
Alignment explanation
Indices: 33550956--33551016 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
33550946 TTCTTCATTA
33550956 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
33550969 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
** *
33550982 CCGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
33550995 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
33551008 CTTTTGAAA
1 CTTTTGAAA
33551017 GGTTTGGTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:33554084 original size:19 final size:19
Alignment explanation
Indices: 33554055--33554097 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
33554045 ATATCTGTCA
*
33554055 ATTTCATTATTTAAATTTT
1 ATTTTATTATTTAAATTTT
*
33554074 GTTTTATTATTTAAATTTT
1 ATTTTATTATTTAAATTTT
33554093 ATTTT
1 ATTTT
33554098 GTCCATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTATTATTTAAATTTT
Found at i:33554873 original size:59 final size:57
Alignment explanation
Indices: 33554713--33554875 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 57
33554703 ATATTATATA
* * *
33554713 TTATGATTTTTATTAATTCATATTTTAATAATAATTATACTAAAAATATTATTAAATTAT
1 TTATTATTTTTATTAATT-ATA-TTTAATAATAATTATA-TTAAAATATGATTAAATTAT
* * *
33554773 ATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATGATTAAATTAT
1 TTATTATTTTTATT-AATTATATTTAATAATAATTATATTAAAATATGATTAAATTAT
*
33554830 TTATTATTTATTATTAAGTTATATTTATTAATAATCT-TATTAAAAT
1 TTATTATTT-TTATTAA-TTATATTTAATAATAAT-TATATTAAAAT
33554876 TTAATAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
57 23 0.26
58 19 0.22
59 37 0.42
60 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (57 bp):
TTATTATTTTTATTAATTATATTTAATAATAATTATATTAAAATATGATTAAATTAT
Found at i:33568639 original size:25 final size:26
Alignment explanation
Indices: 33568607--33568661 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
33568597 TTATTAAATT
*
33568607 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
33568632 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
33568657 A-ATAT
1 ATATAT
33568662 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:33568848 original size:44 final size:45
Alignment explanation
Indices: 33568799--33568893 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
33568789 TTACACCTCT
* *
33568799 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
33568843 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
33568888 ATTACA
1 ATTACA
33568894 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:33568893 original size:16 final size:16
Alignment explanation
Indices: 33568874--33568925 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
33568864 GATTTGCTAT
* *
33568874 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
33568890 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
33568906 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
33568922 TACA
1 TACA
33568926 GCGAACCAAA
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:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:33569121 original size:12 final size:12
Alignment explanation
Indices: 33569104--33569129 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33569094 CCTATTAAAC
33569104 AAGCTTTCCTAA
1 AAGCTTTCCTAA
33569116 AAGCTTTCCTAA
1 AAGCTTTCCTAA
33569128 AA
1 AA
33569130 AGGGAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
AAGCTTTCCTAA
Found at i:33569445 original size:15 final size:15
Alignment explanation
Indices: 33569427--33569475 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
33569417 AATCATTATT
33569427 AATAAAATTTATTCA
1 AATAAAATTTATTCA
33569442 AATAAAA--TATT-A
1 AATAAAATTTATTCA
* *
33569454 TATAAGATTTTATTCA
1 AATAA-AATTTATTCA
33569470 AATAAA
1 AATAAA
33569476 TATATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
15 12 0.44
16 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (15 bp):
AATAAAATTTATTCA
Found at i:33569493 original size:28 final size:28
Alignment explanation
Indices: 33569399--33569480 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
33569389 TTTTTATATT
*
33569399 CATTTTATTCTAAAACAAAATCATTATTAATAA
1 CATTTTATTC--AAATAAAAT-ATTA-T-ATAA
*
33569432 -AATTTATTCAAATAAAATATTATATAA
1 CATTTTATTCAAATAAAATATTATATAA
*
33569459 GATTTTATTCAAATAAATATAT
1 CATTTTATTCAAATAAA-ATAT
33569481 ATTTTTCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 8 0.18
30 8 0.18
32 8 0.18
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (28 bp):
CATTTTATTCAAATAAAATATTATATAA
Found at i:33572042 original size:24 final size:24
Alignment explanation
Indices: 33572015--33572062 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
33572005 AGTAACTCAT
33572015 TTCCTTAAAAAAACAAATTACGGG
1 TTCCTTAAAAAAACAAATTACGGG
*
33572039 TTCCTTCAAAAAACAAATTACGGG
1 TTCCTTAAAAAAACAAATTACGGG
33572063 CTACCAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (24 bp):
TTCCTTAAAAAAACAAATTACGGG
Found at i:33572779 original size:8 final size:8
Alignment explanation
Indices: 33572766--33572793 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33572756 ACAAATATTT
33572766 AATAATAA
1 AATAATAA
33572774 AATAATAA
1 AATAATAA
33572782 AATAATAA
1 AATAATAA
33572790 AATA
1 AATA
33572794 TTATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:33572998 original size:20 final size:19
Alignment explanation
Indices: 33572948--33572999 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
33572938 TAATCAACTC
33572948 TTATTATATTTGAAAAATA
1 TTATTATATTTGAAAAATA
* *
33572967 TAAATT-TAATTTGATAAATA
1 T-TATTAT-ATTTGAAAAATA
33572987 TTATTAATATTTG
1 TTATT-ATATTTG
33573000 TCATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
TTATTATATTTGAAAAATA
Found at i:33573032 original size:14 final size:14
Alignment explanation
Indices: 33573013--33573063 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
33573003 TTTTAAAATA
33573013 ATTTTAATATTAAT
1 ATTTTAATATTAAT
*
33573027 ATTTTAATATT--C
1 ATTTTAATATTAAT
*
33573039 A--TTAATTTTAAT
1 ATTTTAATATTAAT
33573051 ATTTTAATATTAA
1 ATTTTAATATTAA
33573064 AATTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
10 7 0.24
12 2 0.07
14 20 0.69
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTAATATTAAT
Found at i:33573035 original size:8 final size:8
Alignment explanation
Indices: 33573013--33573061 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
33573003 TTTTAAAATA
33573013 ATTTTAAT
1 ATTTTAAT
33573021 A--TTAAT
1 ATTTTAAT
33573027 ATTTTAAT
1 ATTTTAAT
33573035 ATTCATT-A-
1 ATT--TTAAT
33573043 ATTTTAAT
1 ATTTTAAT
33573051 ATTTTAAT
1 ATTTTAAT
33573059 ATT
1 ATT
33573062 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
6 8 0.23
7 1 0.03
8 23 0.66
9 1 0.03
10 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTTAAT
Found at i:33573049 original size:24 final size:24
Alignment explanation
Indices: 33573016--33573061 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
33573006 TAAAATAATT
33573016 TTAATATTAATATTTTAATATTCA
1 TTAATATTAATATTTTAATATTCA
*
33573040 TTAATTTTAATATTTTAATATT
1 TTAATATTAATATTTTAATATT
33573062 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATATTAATATTTTAATATTCA
Found at i:33579985 original size:126 final size:126
Alignment explanation
Indices: 33579748--33580193 Score: 510
Period size: 126 Copynumber: 3.5 Consensus size: 126
33579738 CCATTACACA
* ** * * * * *
33579748 GTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCCCGATGGAATCAACACTTAGCAAC
1 GTGGAATCAACACTTAGCAACCACCTTATAATC-AATGAT-ACG-GGGAATCAGCACATAGCAAC
* * * * * *
33579813 CACC-TT-ATAATCAATGATACGGGAAATTAGAACATAGTAACCCCTTTCACAATCAAGGATACG
63 C-CCTTTCACAATCAAGGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
* * *
33579876 GTGGGATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCT
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
33579941 TTTCACAATCAAGGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
* *
33580002 GTGGAATCAACACTTATCAACCACCTTATAATCAATGATACGGGGAATTAGCACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
* * * *
33580067 TTTCACAATCAAGGATACGGTGGAATCAACACTTAGCAACCACC-TT-ATAATCAATGATACG
66 TTTCACAATCAAGGATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACG
* * * * * *
33580128 G-GGAATCAACACATAGCAACC-CCTTTTTGATCAATGATTCGGGGAATCTA-CACTTAACAACC
1 GTGGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGGGGAATC-AGCACATAGCAACC
33580190 CCTT
64 CCTT
33580194 ACATTCAAAG
Statistics
Matches: 278, Mismatches: 34, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
124 3 0.01
125 72 0.26
126 148 0.53
127 25 0.09
128 30 0.11
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (126 bp):
GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
Found at i:33580189 original size:41 final size:41
Alignment explanation
Indices: 33579794--33580193 Score: 396
Period size: 42 Copynumber: 9.6 Consensus size: 41
33579784 GGATCCCGAT
33579794 GGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGG
1 GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * * * *
33579835 GAAATTAGA-ACATAGTAACCCCTTTCACAATCAAGGATACGG
1 GGAATCA-ACACTTAGCAACCCCTTT-ATAATCAATGATACGG
* *
33579877 TGGGATCAGCACTTAGCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * * *
33579919 GGAATCAGCACATAGCAACCCTTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
* * * *
33579961 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
*
33580003 TGGAATCAACACTTATCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * * *
33580045 GGAATTAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCCCTTT-ATAATCAATGATACGG
33580087 TGGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACC-CCTTTATAATCAATGATACGG
* * * *
33580129 GGAATCAACACATAGCAACCCCTTTTTGATCAATGATTCGG
1 GGAATCAACACTTAGCAACCCCTTTATAATCAATGATACGG
* *
33580170 GGAATCTACACTTAACAACCCCTT
1 GGAATCAACACTTAGCAACCCCTT
33580194 ACATTCAAAG
Statistics
Matches: 301, Mismatches: 43, Indels: 30
0.80 0.11 0.08
Matches are distributed among these distances:
40 7 0.02
41 109 0.36
42 126 0.42
43 53 0.18
44 6 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.22
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCCTTTATAATCAATGATACGG
Found at i:33592426 original size:49 final size:49
Alignment explanation
Indices: 33592357--33592744 Score: 567
Period size: 49 Copynumber: 8.1 Consensus size: 49
33592347 GAAATGATAG
33592357 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33592406 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33592453 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33592502 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33592549 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
33592598 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33592645 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
33592694 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33592741 TAAG
1 TAAG
33592745 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
47 139 0.46
48 1 0.00
49 164 0.54
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:33592521 original size:96 final size:96
Alignment explanation
Indices: 33592357--33592744 Score: 632
Period size: 96 Copynumber: 4.0 Consensus size: 96
33592347 GAAATGATAG
* * * * *
33592357 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
33592422 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
33592453 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
33592518 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
33592549 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
33592614 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
33592645 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
* *
33592710 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
33592741 TAAG
1 TAAG
33592745 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 282 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:33594818 original size:43 final size:43
Alignment explanation
Indices: 33594770--33594958 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
33594760 TTGGTTTTCA
33594770 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
33594813 GCACTAAGTGTACGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
33594856 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
33594899 GCGCTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33594942 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
33594959 TTGAAATGCA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:33594975 original size:29 final size:29
Alignment explanation
Indices: 33594940--33595013 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33594930 GTTGTGAGAT
* *
33594940 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33594969 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33594998 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33595014 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33595447 original size:40 final size:40
Alignment explanation
Indices: 33595324--33595584 Score: 239
Period size: 40 Copynumber: 6.5 Consensus size: 40
33595314 TCGAATGATG
* * *
33595324 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGAGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
33595364 TCCG-GACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGAG-CTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
33595404 TCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
33595444 TCCGGGCTAAGTCCC-AAGGAGCATTCGTGCTAGTGATGTA
1 TCCGAGCTAAGTCCCGAA-GAGCATTCGTGCTAGTGATATA
*
33595484 TCC-AGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGA-GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
33595524 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
33595564 TCCGGGCTAGGTCCCGAAGAG
1 TCCGAGCTAAGTCCCGAAGAG
33595585 TAATCATGAT
Statistics
Matches: 183, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.02
40 157 0.86
41 22 0.12
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:33595544 original size:120 final size:120
Alignment explanation
Indices: 33595324--33595582 Score: 294
Period size: 120 Copynumber: 2.2 Consensus size: 120
33595314 TCGAATGATG
* *
33595324 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* ** *
33595389 GTGCGAGTTACTAAATCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
66 GTGCGAGTGACTAAATCCGAGCTAAACCCCAAAGAGCATTCATGCTAGTGATATA
** *
33595444 TCCGGGCTAAGTCCC-AAGGAGCATTCGTGCT-AGTGA-TGTATCCAGG-CTAAGTTCCGAAGAG
1 TCCGGGCTAAGTCCCGAA-G-GC-TTCGTGCTAAGTGACCATATCC-GGACTAAGATCCGAAG-G
* * * * * *
33595505 CATTCGTGCTAGTGA-TATATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
61 CATTCGTGCGAGTGACTAAATCCGAGCTAAACCCCAAAGAGCATTCATGCTAGTGATATA
*
33595564 TCCGGGCTAGGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
33595583 AGTAATCATG
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
119 2 0.02
120 84 0.72
121 24 0.21
122 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGAGCTAAACCCCAAAGAGCATTCATGCTAGTGATATA
Found at i:33598669 original size:40 final size:40
Alignment explanation
Indices: 33598610--33598837 Score: 348
Period size: 40 Copynumber: 5.7 Consensus size: 40
33598600 GAGCATTGGA
*
33598610 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
33598650 ATATATCCGGGCTATGACCCGAAAGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33598690 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
33598730 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
33598770 ATATATCTGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
33598810 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
33598838 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:33603032 original size:49 final size:49
Alignment explanation
Indices: 33602963--33603398 Score: 656
Period size: 49 Copynumber: 9.1 Consensus size: 49
33602953 GAAATGATAG
*
33602963 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33603012 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33603059 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33603108 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33603157 TAGGGCCTAATGGCCGATGTGATGAATGT-AAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33603203 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
33603252 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
33603299 TAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
33603348 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
33603395 TAAG
1 TAAG
33603399 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
46 39 0.11
47 100 0.28
48 7 0.02
49 206 0.59
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:33603127 original size:96 final size:97
Alignment explanation
Indices: 33602966--33603398 Score: 648
Period size: 96 Copynumber: 4.5 Consensus size: 97
33602956 ATGATAGTAA
*
33602966 GGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
*
33603031 TGATGAATGTGAAAGTG-TATATATGTGATAA
66 TGATGAATGTGAAAGTGATATATATGTGATAG
33603062 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
33603127 TGATGAATGTGAAAGTGTATATATATGTGATAG
66 TGATGAATGTGAAAGTG-ATATATATGTGATAG
33603160 GGCCTAATGGCCGATGTGATGAATGT-AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
* *
33603222 TGATGAATGTGGAAGTGTATATATATGTGACAG
66 TGATGAATGTGAAAGTG-ATATATATGTGATAG
* * * *
33603255 GGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
* *
33603318 TGATGAATATGAAAGTGTATATATATGTGACAG
66 TGATGAATGTGAAAGTG-ATATATATGTGATAG
* * * * *
33603351 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
33603399 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
95 83 0.26
96 190 0.59
97 7 0.02
98 41 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (97 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGATATATATGTGATAG
Found at i:33603386 original size:240 final size:238
Alignment explanation
Indices: 33602963--33603396 Score: 706
Period size: 240 Copynumber: 1.8 Consensus size: 238
33602953 GAAATGATAG
* * * *
33602963 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCA
* *
33603028 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAG
* * * *
33603093 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
131 TGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGAT
33603158 AGGGCCTAATGGCCGATGTGATGAATGTAAAGTGTATATATGTGA
194 AGGGCCTAATGGCCGATGTGATGAATGTAAAGTGTATATATGTGA
* * *
33603203 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCA
33603268 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAG
66 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAG
* * *
33603333 TGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
131 TGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATA
33603397 AGTCCCGAAG
Statistics
Matches: 178, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
238 8 0.04
239 1 0.01
240 169 0.95
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (238 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAG
TGTATATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAG
GGCCTAATGGCCGATGTGATGAATGTAAAGTGTATATATGTGA
Found at i:33606557 original size:12 final size:12
Alignment explanation
Indices: 33606540--33606564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33606530 GCTGTTTGGT
33606540 TTAGGGTGTCAG
1 TTAGGGTGTCAG
33606552 TTAGGGTGTCAG
1 TTAGGGTGTCAG
33606564 T
1 T
33606565 GCAGTGAGGT
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:0.16, C:0.08, G:0.40, T:0.36
Consensus pattern (12 bp):
TTAGGGTGTCAG
Found at i:33609196 original size:12 final size:12
Alignment explanation
Indices: 33609179--33609220 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
33609169 CTTCACATTA
33609179 AATAAATAATGG
1 AATAAATAATGG
**
33609191 AATAAA-ACATTA
1 AATAAATA-ATGG
33609203 AATAAATAATGG
1 AATAAATAATGG
33609215 AATAAA
1 AATAAA
33609221 ACATACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (12 bp):
AATAAATAATGG
Found at i:33609200 original size:24 final size:24
Alignment explanation
Indices: 33609173--33609224 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
33609163 ACGGTTCTTC
33609173 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
33609197 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGGAATAAA
33609221 ACAT
1 ACAT
33609225 ACCTTACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (24 bp):
ACATTAAATAAATAATGGAATAAA
Found at i:33610943 original size:22 final size:23
Alignment explanation
Indices: 33610900--33610945 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33610890 AAAAATGTTA
*
33610900 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
33610923 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
33610945 A
1 A
33610946 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:33616478 original size:40 final size:40
Alignment explanation
Indices: 33616423--33616694 Score: 454
Period size: 40 Copynumber: 6.8 Consensus size: 40
33616413 AACATTGGAT
33616423 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33616463 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33616503 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33616543 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAATTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * * *
33616583 TATATCCGGGCTATGACCCGAAGGTAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
33616623 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
33616663 TATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 TATATCCGGGCTAAGACCCGAAGGCAATTATG
33616695 TTTGCGGCTG
Statistics
Matches: 216, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:33624375 original size:25 final size:25
Alignment explanation
Indices: 33624347--33624396 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33624337 TGTATGTGTG
*
33624347 TATATGTTCCAATTGCTCTACCACA
1 TATATGTTCCAATTGCTCCACCACA
33624372 TATATGTTCCAATTGCTCCACCACA
1 TATATGTTCCAATTGCTCCACCACA
33624397 ATAAAAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (25 bp):
TATATGTTCCAATTGCTCCACCACA
Found at i:33626438 original size:22 final size:23
Alignment explanation
Indices: 33626413--33626459 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
33626403 TGGACTCATA
33626413 AAATA-TAAAAATAAAATATTTT
1 AAATATTAAAAATAAAATATTTT
* *
33626435 AAATATTTTAATATAAAATATTTT
1 AAATA-TTAAAAATAAAATATTTT
33626459 A
1 A
33626460 TTTCGAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
24 16 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTAAAAATAAAATATTTT
Found at i:33626517 original size:32 final size:31
Alignment explanation
Indices: 33626476--33626541 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 31
33626466 AATATAATTT
*
33626476 AAAATAAAATATTTTAATATAATTCAATATA
1 AAAATAAAATATTTTAATATAATTCAAAATA
*
33626507 AAAATAAAAATATTTTAATATAATTTAAAATA
1 AAAAT-AAAATATTTTAATATAATTCAAAATA
33626539 AAA
1 AAA
33626542 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATAAAATATTTTAATATAATTCAAAATA
Found at i:33626546 original size:25 final size:25
Alignment explanation
Indices: 33626466--33626556 Score: 119
Period size: 25 Copynumber: 3.4 Consensus size: 25
33626456 TTTATTTCGA
33626466 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
33626491 AATATAATTCAATATAAAAATAAAAATATTTT
1 AATATAA-T---T-T-AAAAT-AAAATATTTT
33626523 AATATAATTTAAAATAAAATATTTT
1 AATATAATTTAAAATAAAATATTTT
33626548 AATATAATT
1 AATATAATT
33626557 AATTACATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
25 26 0.44
26 6 0.10
27 1 0.02
28 1 0.02
29 1 0.02
30 1 0.02
31 6 0.10
32 17 0.29
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATAATTTAAAATAAAATATTTT
Found at i:33626781 original size:44 final size:46
Alignment explanation
Indices: 33626724--33626812 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
33626714 ACATCTATTT
33626724 CATTCAAAGAAAC-ATAAGAA-TACT-ATTACAATTTTATTCCATTC
1 CATTCAAAGAAACAAT-AGAATTACTAATTACAATTTTATTCCATTC
** * **
33626768 CATTCAATTAAACAATTGAATTACTAATTACGGTTTTATTCCATT
1 CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATT
33626813 ATAGCCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 14 0.38
45 6 0.16
46 17 0.46
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (46 bp):
CATTCAAAGAAACAATAGAATTACTAATTACAATTTTATTCCATTC
Found at i:33634550 original size:6 final size:6
Alignment explanation
Indices: 33634539--33634591 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
33634529 TAATTTAACC
* * * * *
33634539 ATTTTT ATTTTT ATTTTT ATTATA ATTTTT GTTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
33634587 ATTTT
1 ATTTT
33634592 CTAATATTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:33634566 original size:18 final size:18
Alignment explanation
Indices: 33634545--33634591 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
33634535 AACCATTTTT
33634545 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
33634563 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
33634581 ATTTTTATTTT
1 ATTTTTATTTT
33634592 CTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:33640164 original size:6 final size:6
Alignment explanation
Indices: 33640155--33640211 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
33640145 TTTGTTTTCC
* *
33640155 TTTTAG TTTT-A TTTTAA TTTTAA TTTTAA TTTTTTA TTTT-A TGTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA T-TTTAA
33640203 -TTTAA TTTT
1 TTTTAA TTTT
33640212 TAGTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 11 0.25
6 27 0.61
7 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:33640180 original size:12 final size:12
Alignment explanation
Indices: 33640155--33640211 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
33640145 TTTGTTTTCC
*
33640155 TTTTAGTTTT-A
1 TTTTAATTTTAA
33640166 TTTTAATTTTAA
1 TTTTAATTTTAA
*
33640178 TTTTAATTTTTTA
1 TTTTAA-TTTTAA
33640191 TTTT-ATGTTTAA
1 TTTTAAT-TTTAA
33640203 -TTTAATTTT
1 TTTTAATTTT
33640212 TAGTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 16 0.41
12 14 0.36
13 9 0.23
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:33640193 original size:19 final size:19
Alignment explanation
Indices: 33640166--33640205 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33640156 TTTAGTTTTA
33640166 TTTTAATTTTAAT-TTTAAT
1 TTTTAATTTT-ATGTTTAAT
*
33640185 TTTTTATTTTATGTTTAAT
1 TTTTAATTTTATGTTTAAT
33640204 TT
1 TT
33640206 AATTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTATGTTTAAT
Found at i:33640195 original size:25 final size:24
Alignment explanation
Indices: 33640161--33640212 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
33640151 TTCCTTTTAG
33640161 TTTTATTTTAAT-TTTAATTTTAATT
1 TTTTATTTT-ATGTTTAA-TTTAATT
33640186 TTTTATTTTATGTTTAATTTAATT
1 TTTTATTTTATGTTTAATTTAATT
33640210 TTT
1 TTT
33640213 AGTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTATTTTATGTTTAATTTAATT
Found at i:33640229 original size:12 final size:11
Alignment explanation
Indices: 33640155--33640233 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
33640145 TTTGTTTTCC
*
33640155 TTTTAGTTTTA
1 TTTTATTTTTA
*
33640166 TTTTAATTTTAA
1 TTTT-ATTTTTA
33640178 TTTTAATTTTTTA
1 TTTT-A-TTTTTA
*
33640191 TTTTATGTTTAA
1 TTTTAT-TTTTA
*
33640203 TTTAATTTTTA
1 TTTTATTTTTA
*
33640214 -GTTATTTTTA
1 TTTTATTTTTA
33640224 TTGTTATTTT
1 TT-TTATTTT
33640234 CTTAGACTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.15
11 9 0.17
12 28 0.52
13 9 0.17
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:33644990 original size:22 final size:21
Alignment explanation
Indices: 33644959--33645003 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
33644949 TAACATATAG
*
33644959 TTAATTAAGT-TAATTAGCAAA
1 TTAATTAAGTATAAATAG-AAA
33644980 TTAATCTAAGTATAAATAGAAA
1 TTAAT-TAAGTATAAATAGAAA
33645002 TT
1 TT
33645004 CAAGTGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
TTAATTAAGTATAAATAGAAA
Found at i:33648875 original size:13 final size:13
Alignment explanation
Indices: 33648859--33648891 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33648849 ATCCATTTCA
*
33648859 CATTTCATATTTT
1 CATTTCACATTTT
33648872 CATTTCACATTTT
1 CATTTCACATTTT
33648885 CATTTCA
1 CATTTCA
33648892 AGTATCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (13 bp):
CATTTCACATTTT
Found at i:33648901 original size:13 final size:13
Alignment explanation
Indices: 33648885--33648941 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
33648875 TTCACATTTT
*
33648885 CATTTCAAGTATC
1 CATTTCAAATATC
*
33648898 CATTTCAAATATG
1 CATTTCAAATATC
* *
33648911 CATTTCATATAAC
1 CATTTCAAATATC
* *
33648924 CATTTTACAT-TC
1 CATTTCAAATATC
33648936 CATTTC
1 CATTTC
33648942 CACCAAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
12 6 0.17
13 29 0.83
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (13 bp):
CATTTCAAATATC
Found at i:33649024 original size:25 final size:25
Alignment explanation
Indices: 33648984--33649044 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
33648974 ACCTGGGAAC
33648984 AATGCTCACACAAGCTATGACGGTA
1 AATGCTCACACAAGCTATGACGGTA
* ** *
33649009 TATGCTCACATGAGCTATGACTGTA
1 AATGCTCACACAAGCTATGACGGTA
33649034 AATGCTCACAC
1 AATGCTCACAC
33649045 GAACTGTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTATGACGGTA
Found at i:33652975 original size:17 final size:17
Alignment explanation
Indices: 33652953--33652986 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33652943 AAGAGAGTTG
33652953 TGAGAGAGGATGA-GAGA
1 TGAGAG-GGATGATGAGA
33652970 TGAGAGGGATGATGAGA
1 TGAGAGGGATGATGAGA
33652987 AATGAGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (17 bp):
TGAGAGGGATGATGAGA
Found at i:33656037 original size:48 final size:48
Alignment explanation
Indices: 33655966--33656061 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
33655956 AGGCATAAAA
33655966 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
1 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
33656014 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
1 CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
33656062 TCTCTTCGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (48 bp):
CTGTAGCGAACAAAATAAAACCATACATTTGCTACTGGTTTTAAATAT
Found at i:33666278 original size:23 final size:22
Alignment explanation
Indices: 33666235--33666278 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33666225 TTCTAAGTCA
33666235 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33666258 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33666279 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33666482 original size:51 final size:51
Alignment explanation
Indices: 33666422--33666608 Score: 209
Period size: 51 Copynumber: 3.7 Consensus size: 51
33666412 TCAGTTCACA
* *
33666422 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACAAG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACAAG
* * ** * *
33666473 TAGTAGCCTGCACATAGTACTACACACATGATCAAAACTATCCGGTACGCA-
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTAC-AAG
* ** * * *
33666524 TAGTAGCCTGCACATAGTACTACACATGCAACC--TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCCGGTACAAG
33666574 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
33666609 AACTTTCACT
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 37 0.34
51 69 0.63
52 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGGTACAAG
Found at i:33667659 original size:19 final size:18
Alignment explanation
Indices: 33667623--33667659 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33667613 CATAAAAATA
33667623 TAATGAAAATAATTTTTT
1 TAATGAAAATAATTTTTT
33667641 TAATGAAAATAATTTTTT
1 TAATGAAAATAATTTTTT
33667659 T
1 T
33667660 CTCGTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATGAAAATAATTTTTT
Found at i:33669914 original size:40 final size:40
Alignment explanation
Indices: 33669855--33670121 Score: 446
Period size: 40 Copynumber: 6.7 Consensus size: 40
33669845 GAGCATTGGA
* *
33669855 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33669895 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
33669935 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33669975 ATATATCCGGGCTATGACCCGAAGGCAATT-TGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33670014 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33670054 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33670094 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
33670122 ATGTGTTTGC
Statistics
Matches: 216, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 36 0.17
40 180 0.83
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:33670066 original size:119 final size:120
Alignment explanation
Indices: 33669854--33670121 Score: 457
Period size: 119 Copynumber: 2.2 Consensus size: 120
33669844 TGAGCATTGG
* *
33669854 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAG
* *
33669919 GCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
66 GCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
33669974 AATATATCCGGGCTATGACCCGAAGGCAATT-TGCGAGATGATATATCCGGGCTAAAACCCGAAG
1 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAG
*
33670038 GCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
66 GCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* * *
33670093 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 AATATATCCGGGCTATGACCCGAAGGCAA
33670122 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 109 0.78
120 31 0.22
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (120 bp):
AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAG
GCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:33673344 original size:27 final size:26
Alignment explanation
Indices: 33673288--33673344 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
33673278 CAACCTTAAC
* * *
33673288 CCTAGGGGTATATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
*
33673314 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
33673341 CCTA
1 CCTA
33673345 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Found at i:33686157 original size:8 final size:8
Alignment explanation
Indices: 33686144--33686172 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33686134 TTTTAAATGA
33686144 TATTTTAT
1 TATTTTAT
33686152 TATTTTAT
1 TATTTTAT
33686160 TATTTTAT
1 TATTTTAT
33686168 TATTT
1 TATTT
33686173 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:33688561 original size:27 final size:27
Alignment explanation
Indices: 33688531--33688836 Score: 173
Period size: 27 Copynumber: 11.4 Consensus size: 27
33688521 TATCTGGACT
*
33688531 GAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGATC
* **
33688558 GAAATACCCTTGAAGAATAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGATC
* *
33688585 GAAATACCCTCGATGGGTAAAATG-CC
1 GAAATACCCTCGAAGGGTAAAATGATC
* *
33688611 TGAAATACCCTCGATGGGTAAAAAT-ACC
1 -GAAATACCCTCGAAGGGT-AAAATGATC
* * * *
33688639 AAAATGCCC-CCATAGGGTGAAATGATC
1 GAAATACCCTCGA-AGGGTAAAATGATC
** * *
33688666 GAAATACCCTCTTAGGGTAGAAT-ATT
1 GAAATACCCTCGAAGGGTAAAATGATC
33688692 GAAATACCCTC-ATAGGGTAAAATGA-C
1 GAAATACCCTCGA-AGGGTAAAATGATC
* * * *
33688718 CATAATACCCTTGTAGGGTAAAAT-AAC
1 GA-AATACCCTCGAAGGGTAAAATGATC
* * *
33688745 TGTAATAACCCT-GTAGGGTAAAATGACC
1 -GAAAT-ACCCTCGAAGGGTAAAATGATC
* * *
33688773 GTAATGCCC-CTGTAGGGTAAAATGATC
1 GAAATACCCTC-GAAGGGTAAAATGATC
* * * *
33688800 GTAATGCCCT-TATAGGGTTAAATGATC
1 GAAATACCCTCGA-AGGGTAAAATGATC
* *
33688827 GTAATGCCCT
1 GAAATACCCT
33688837 GGTGGGTAAA
Statistics
Matches: 225, Mismatches: 36, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
26 34 0.15
27 176 0.78
28 15 0.07
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGATC
Found at i:33689269 original size:96 final size:96
Alignment explanation
Indices: 33689112--33689346 Score: 285
Period size: 96 Copynumber: 2.4 Consensus size: 96
33689102 CTAGCAGCTT
* * ** ** *
33689112 TGTGCCAATCATAGT-ACCATTACTGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTT
1 TGTGCCGATCATA-TCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTT
* *
33689176 TGTGCCGATCATATTACCG-TTACTAATGGTTG
65 TGTACCGATCATATTA-CGATTACTAATGGCTG
* * * *
33689208 TGTGCCGATCATTTCACTGTTACTGATGGCTGTGTGCCGATCATAACACTACTACTAATGGCTTT
1 TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTTT
* *
33689273 GTACCGATCATGTTACGATTACTGATGGCTG
66 GTACCGATCATATTACGATTACTAATGGCTG
* *
33689304 TGTGCCGATCATATCACTACTACTGATGGCTTTGTGCCAATCA
1 TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCA
33689347 CATTACTTTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
95 3 0.03
96 114 0.97
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (96 bp):
TGTGCCGATCATATCACTATTACTGATGGCTTTGTGCCGATCATAACACCACTACTAATGGCTTT
GTACCGATCATATTACGATTACTAATGGCTG
Found at i:33689328 original size:32 final size:32
Alignment explanation
Indices: 33689108--33689363 Score: 241
Period size: 32 Copynumber: 8.0 Consensus size: 32
33689098 GTTACTAGCA
* *
33689108 GCTTTGTGCCAATCATAGT-ACCATTACTGATG
1 GCTTTGTGCCGATCATA-TCACTATTACTGATG
**
33689140 GCTTTGTGCCGATCATAGT-ACCGTTACTGATG
1 GCTTTGTGCCGATCATA-TCACTATTACTGATG
* ** *
33689172 GCTTTGTGCCGATCATATTACCGTTACTAATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* *
33689204 G-TTGTGTGCCGATCATTTCACTGTTACTGATG
1 GCTT-TGTGCCGATCATATCACTATTACTGATG
* * * *
33689236 GCTGTGTGCCGATCATAACACTACTACTAATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* * * *
33689268 GCTTTGTACCGATCATGTTACGATTACTGATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* *
33689300 GCTGTGTGCCGATCATATCACTACTACTGATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
* * * *
33689332 GCTTTGTGCCAATCACATTACT-TTACTTATG
1 GCTTTGTGCCGATCATATCACTATTACTGATG
33689363 G
1 G
33689364 ATTGTAGCCA
Statistics
Matches: 188, Mismatches: 33, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
31 11 0.06
32 176 0.94
33 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (32 bp):
GCTTTGTGCCGATCATATCACTATTACTGATG
Found at i:33689393 original size:22 final size:22
Alignment explanation
Indices: 33689368--33689422 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
33689358 TTATGGATTG
*
33689368 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
33689389 ATAGCTATCCTATTTACAGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
33689412 TAGCCATTCTG
1 TAGCCATTCTG
33689423 ACTACTGGCA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:33693517 original size:42 final size:42
Alignment explanation
Indices: 33693436--33693573 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
33693426 GGCTCAGTAC
** * * *
33693436 CTAGCAGGCTTGTTGCCAATGAAAT-CATTCAAACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
* *
33693477 CTAGCAAGCTTCATGCCGATGAAATAAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
* * * * *
33693519 CTAACAGGCTTAATGCTGGTGAAATAAATTC-GTACTATAAGT
1 CTAGCAGGCTTAATGCCGATGAAATAAATTCAG-ACTTTACGT
33693561 CTAGCAGGCTTAA
1 CTAGCAGGCTTAA
33693574 AGCCAGTGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 22 0.27
42 59 0.73
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCGATGAAATAAATTCAGACTTTACGT
Found at i:33695727 original size:19 final size:19
Alignment explanation
Indices: 33695681--33695736 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
33695671 AATCTTCAAG
33695681 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33695700 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
33695721 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33695737 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33695758 original size:23 final size:22
Alignment explanation
Indices: 33695681--33695759 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
33695671 AATCTTCAAG
*
33695681 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
33695703 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33695721 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33695743 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33695760 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33696623 original size:16 final size:16
Alignment explanation
Indices: 33696604--33696636 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33696594 CATCAACACA
33696604 TCATGAA-TAATAGATT
1 TCATGAACTAATA-ATT
33696620 TCATGAACTAATAATT
1 TCATGAACTAATAATT
33696636 T
1 T
33696637 TGGGAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (16 bp):
TCATGAACTAATAATT
Found at i:33702288 original size:16 final size:16
Alignment explanation
Indices: 33702243--33702301 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
33702233 TTTTCTATCA
*
33702243 TTTTCACAGTCTACAG
1 TTTTCACAGTCTATAG
* * *
33702259 TTTTCATAATCTATGG
1 TTTTCACAGTCTATAG
33702275 TTTTCACAGTCTATA-
1 TTTTCACAGTCTATAG
*
33702290 ATTTCACA-TCTA
1 TTTTCACAGTCTA
33702302 AAGATCACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 4 0.11
15 7 0.20
16 24 0.69
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (16 bp):
TTTTCACAGTCTATAG
Found at i:33706023 original size:8 final size:8
Alignment explanation
Indices: 33706006--33706037 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
33705996 TTATCAGCTC
33706006 TTATTATT
1 TTATTATT
*
33706014 TTATTTTT
1 TTATTATT
33706022 TTATTATT
1 TTATTATT
33706030 TTATTATT
1 TTATTATT
33706038 GTAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTATTATT
Found at i:33715653 original size:18 final size:18
Alignment explanation
Indices: 33715632--33715677 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
33715622 TTTTTTGATC
33715632 TCTTTTTCTTTTGCAATT
1 TCTTTTTCTTTTGCAATT
* * *
33715650 TCTTTTCCTTTTTCACTT
1 TCTTTTTCTTTTGCAATT
*
33715668 TCGTTTTCTT
1 TCTTTTTCTT
33715678 GTTGTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (18 bp):
TCTTTTTCTTTTGCAATT
Found at i:33717686 original size:27 final size:27
Alignment explanation
Indices: 33717656--33717707 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33717646 TTATTGAAGC
*
33717656 ATCTTCATTGCTGTCCATGCATGTATT
1 ATCTTCAATGCTGTCCATGCATGTATT
33717683 ATCTTCAATGCTGTCCATGCATGTA
1 ATCTTCAATGCTGTCCATGCATGTA
33717708 CCTACAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (27 bp):
ATCTTCAATGCTGTCCATGCATGTATT
Found at i:33719765 original size:18 final size:18
Alignment explanation
Indices: 33719744--33719778 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33719734 TTTTTATTTT
33719744 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33719762 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33719779 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33719829 original size:18 final size:18
Alignment explanation
Indices: 33719766--33719850 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 18
33719756 TCAATCTCAA
33719766 TTTCTTTTTCAATTTTCTTT
1 TTTCTTTTTCAA-TTTC-TT
* ** *
33719786 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCAATTTCTT
** *
33719805 TCACTTTTTCGATTTCTT
1 TTTCTTTTTCAATTTCTT
**
33719823 TTTCTTTGGCAATTTCTT
1 TTTCTTTTTCAATTTCTT
*
33719841 TTTCATTTTC
1 TTTCTTTTTC
33719851 TTGCTCGCGC
Statistics
Matches: 46, Mismatches: 18, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
18 31 0.67
19 2 0.04
20 5 0.11
21 8 0.17
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:33721008 original size:17 final size:17
Alignment explanation
Indices: 33720986--33721019 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33720976 AACCTCACAG
*
33720986 GAACAATAGTTCATTCA
1 GAACAATAGTTAATTCA
33721003 GAACAATAGTTAATTCA
1 GAACAATAGTTAATTCA
33721020 ATAAAATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (17 bp):
GAACAATAGTTAATTCA
Found at i:33721679 original size:20 final size:21
Alignment explanation
Indices: 33721654--33721703 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
33721644 GCAAGCTGGC
*
33721654 CTAGCTCAAATTTAGCTCG-TT
1 CTAGCTCAAA-TAAGCTCGATT
*
33721675 C-AGCTTAAATAAGCTCGATT
1 CTAGCTCAAATAAGCTCGATT
33721695 CTAGCTCAA
1 CTAGCTCAA
33721704 TGAACTCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (21 bp):
CTAGCTCAAATAAGCTCGATT
Found at i:33722089 original size:27 final size:27
Alignment explanation
Indices: 33722051--33722102 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33722041 TGTTTGTAGG
*
33722051 TACATGCATGGACAACATTGAAGATAA
1 TACATGCATGGACAACAATGAAGATAA
33722078 TACATGCATGGACAACAATGAAGAT
1 TACATGCATGGACAACAATGAAGAT
33722103 GCTTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAACAATGAAGATAA
Found at i:33722797 original size:23 final size:22
Alignment explanation
Indices: 33722760--33722814 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
33722750 GCCGAATTCA
*
33722760 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
33722784 TGAACCCT-TTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
33722805 TGAACACATC
1 TGAAC-CATC
33722815 AGTAGCCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 6 0.23
24 7 0.27
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Found at i:33727529 original size:22 final size:23
Alignment explanation
Indices: 33727504--33727555 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
33727494 TCGACAAGCC
33727504 ACCACATAATTGTC-GATAAA-TG
1 ACCACATAATT-TCAGATAAACTG
*
33727526 ACCACCTAATTTCAGATAAACTG
1 ACCACATAATTTCAGATAAACTG
33727549 -CCACATA
1 ACCACATA
33727556 TCTTCCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (23 bp):
ACCACATAATTTCAGATAAACTG
Found at i:33729647 original size:48 final size:48
Alignment explanation
Indices: 33729556--33729649 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
33729546 CAGCAATTAC
***
33729556 ACATAACATATAACACATATAGAGTCATATTTGTTTACCCTTTTCAAT
1 ACATAACATATAACACATATAGAGTCATATTAACTTACCCTTTTCAAT
* *
33729604 ACATAACATATAACATATACTA-AGTCATATTAACTTACTCTTTTCA
1 ACATAACATATAACACATA-TAGAGTCATATTAACTTACCCTTTTCA
33729650 TATCCTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.37
Consensus pattern (48 bp):
ACATAACATATAACACATATAGAGTCATATTAACTTACCCTTTTCAAT
Found at i:33730080 original size:54 final size:54
Alignment explanation
Indices: 33730016--33730154 Score: 260
Period size: 54 Copynumber: 2.6 Consensus size: 54
33730006 GCATGCCTTA
33730016 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
* *
33730070 GGTCTAGCACATATGCTATTCTGGTTTGCAACTCAACTAGCATGCCTTACCAGT
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
33730124 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
1 GGTCTAGCACATCTGCTATTCTGGTTTGCAA
33730155 ACAACAAGCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (54 bp):
GGTCTAGCACATCTGCTATTCTGGTTTGCAACTCAACTAGCATGCCCTACCAGT
Found at i:33732006 original size:138 final size:138
Alignment explanation
Indices: 33731625--33732125 Score: 805
Period size: 138 Copynumber: 3.7 Consensus size: 138
33731615 TGTTAACCTT
* * *
33731625 AATTAATCAATATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* * *
33731690 GAATCAAATTCATATATTAATTATATTCTTTCCTAAATAATATTAATTTCCA-AGTATTTTATAT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATA-TCTTTTATAT
*
33731754 TTTGACCGA
130 TTTGACCAA
33731763 AATTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATAT--AATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
*
33731824 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTTATATCTTTTATATT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
*
33731889 TTGACTAA
131 TTGACCAA
* *
33731897 AATTAATTAATATAATTTTTTATATTAATAAATTCGGTAAAATATATACCATTAATATTTTGTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
* * *
33731962 GAATCAAATTCATATATTAGTTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATT
66 GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
33732027 TTGACCAA
131 TTGACCAA
* *
33732035 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTGAAATATATACAATTAATATTTTTTAT
1 AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
*
33732100 GAATCGAATTCATATATTAATTATAT
66 GAATCAAATTCATATATTAATTATAT
33732126 CTATATTCTC
Statistics
Matches: 336, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
134 118 0.35
135 1 0.00
136 14 0.04
138 203 0.60
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (138 bp):
AATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTAT
GAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTTCATATCTTTTATATT
TTGACCAA
Found at i:33732285 original size:12 final size:12
Alignment explanation
Indices: 33732268--33732292 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33732258 CTTCGTTTCA
33732268 ACTAAATACAAT
1 ACTAAATACAAT
33732280 ACTAAATACAAT
1 ACTAAATACAAT
33732292 A
1 A
33732293 TAAGACCCTA
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ACTAAATACAAT
Found at i:33736886 original size:20 final size:20
Alignment explanation
Indices: 33736863--33736905 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
33736853 ACTTGATGAA
* *
33736863 AGGTATCGATACTTTTTTAT
1 AGGTATCAAAACTTTTTTAT
33736883 AGGTATCAAAACTTTTTTAT
1 AGGTATCAAAACTTTTTTAT
33736903 AGG
1 AGG
33736906 GGGTTGCGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (20 bp):
AGGTATCAAAACTTTTTTAT
Found at i:33740025 original size:12 final size:12
Alignment explanation
Indices: 33739994--33740026 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
33739984 CATTCATATG
33739994 TCCAAAACACAT
1 TCCAAAACACAT
33740006 T-C-AAACACAT
1 TCCAAAACACAT
33740016 TCCAAAACACA
1 TCCAAAACACA
33740027 CCAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (12 bp):
TCCAAAACACAT
Found at i:33740721 original size:15 final size:15
Alignment explanation
Indices: 33740687--33740731 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
33740677 TATTATTTTT
33740687 ATAACCTTTTCCATCA
1 ATAACCTTTT-CATCA
*
33740703 ATAACCTTTTCATCG
1 ATAACCTTTTCATCA
*
33740718 ATAACTTTTTCATC
1 ATAACCTTTTCATC
33740732 CTTTTCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCA
Found at i:33752314 original size:12 final size:12
Alignment explanation
Indices: 33752297--33752340 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
33752287 CTTTCTCTTC
33752297 TTTTTTTTCGAA
1 TTTTTTTTCGAA
33752309 TTTTTTTTCGAA
1 TTTTTTTTCGAA
**
33752321 TTTTTTTTAAAA
1 TTTTTTTTCGAA
33752333 TTTTTTTT
1 TTTTTTTT
33752341 TGATTTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:33757145 original size:40 final size:40
Alignment explanation
Indices: 33757086--33757353 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
33757076 GAGCATTGGA
* *
33757086 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33757126 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
33757166 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33757206 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33757246 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33757286 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
33757326 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
33757354 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:33760040 original size:15 final size:15
Alignment explanation
Indices: 33760000--33760071 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
33759990 TATTATTTGT
*
33760000 ATAACCTTTTCAATCA
1 ATAACCTTTTC-ATCG
33760016 ATAACCTTTTCATCG
1 ATAACCTTTTCATCG
*
33760031 ATAGCCTTTTCATCG
1 ATAACCTTTTCATCG
* *
33760046 GTAACCTTTTTCATCA
1 ATAACC-TTTTCATCG
*
33760062 ATAACATTTT
1 ATAACCTTTT
33760072 AATCCTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
15 25 0.52
16 23 0.48
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.42
Consensus pattern (15 bp):
ATAACCTTTTCATCG
Found at i:33761195 original size:11 final size:11
Alignment explanation
Indices: 33761179--33761206 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33761169 ATATCATTTA
33761179 ATTATAAAAAT
1 ATTATAAAAAT
33761190 ATTATAAAAAT
1 ATTATAAAAAT
33761201 ATTATA
1 ATTATA
33761207 TTATATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTATAAAAAT
Found at i:33761209 original size:5 final size:5
Alignment explanation
Indices: 33761199--33761235 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
33761189 TATTATAAAA
33761199 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
33761236 TATGTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:33762649 original size:45 final size:45
Alignment explanation
Indices: 33762581--33762682 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 45
33762571 TGCCGACTAT
* * * *
33762581 TGTTACTATTACCGATTCGGCACTTTGTGTGCCGAATATTGTTAC
1 TGTTACTGTTACAGATTCAGCACTTTGTGTGCCGAATACTGTTAC
* **
33762626 TGTTATTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTAC
1 TGTTACTGTTACAGATTCAGCACTTTGTGTGCCGAATACTGTTAC
33762671 TGTTACTGTTAC
1 TGTTACTGTTAC
33762683 TGCTACCGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (45 bp):
TGTTACTGTTACAGATTCAGCACTTTGTGTGCCGAATACTGTTAC
Found at i:33762673 original size:6 final size:6
Alignment explanation
Indices: 33762662--33762696 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33762652 GTGTGTTGAA
* *
33762662 TACTGT TACTGT TACTGT TACTGC TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
33762697 ACTATTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (6 bp):
TACTGT
Found at i:33769464 original size:22 final size:22
Alignment explanation
Indices: 33769438--33769497 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
33769428 GTATCTAAAT
33769438 AATAATAAAAAAATAGTAGCAA
1 AATAATAAAAAAATAGTAGCAA
* * ** *
33769460 CATAATTAGGAAATGGTAGCAA
1 AATAATAAAAAAATAGTAGCAA
*
33769482 AATAGTGAAAAAAATA
1 AATAAT-AAAAAAATA
33769498 ACAAGAAAAT
Statistics
Matches: 26, Mismatches: 11, Indels: 1
0.68 0.29 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (22 bp):
AATAATAAAAAAATAGTAGCAA
Found at i:33769911 original size:29 final size:29
Alignment explanation
Indices: 33769869--33769940 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
33769859 TGTGTTAGAA
*
33769869 AGAAAATGAGAGAAGAAAAATATGTTGAG
1 AGAAAATGAGAGAAGAAAAAGATGTTGAG
* *
33769898 AGAAAATGGGAGAAGAAAAAGATGTTGGG
1 AGAAAATGAGAGAAGAAAAAGATGTTGAG
*
33769927 AGAAATTGAGAGAA
1 AGAAAATGAGAGAA
33769941 TTTTGATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.15
Consensus pattern (29 bp):
AGAAAATGAGAGAAGAAAAAGATGTTGAG
Found at i:33772879 original size:26 final size:26
Alignment explanation
Indices: 33772850--33772899 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33772840 TTCGGTTTTA
*
33772850 TTTAAAAT-ATTTATTTCGATTTTAAT
1 TTTAAAATGATTT-CTTCGATTTTAAT
*
33772876 TTTAAATTGATTTCTTCGATTTTA
1 TTTAAAATGATTTCTTCGATTTTA
33772900 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATGATTTCTTCGATTTTAAT
Found at i:33773279 original size:16 final size:16
Alignment explanation
Indices: 33773258--33773325 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
33773248 TTTGGTTCGC
*
33773258 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
33773274 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33773290 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33773306 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33773322 TGTA
1 TGTA
33773326 ATAGCAAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33773582 original size:18 final size:17
Alignment explanation
Indices: 33773561--33773595 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33773551 TTATTATTAA
*
33773561 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
33773579 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33773596 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:33773649 original size:157 final size:157
Alignment explanation
Indices: 33773455--33773762 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
33773445 CCCTTAGCAT
*
33773455 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
33773520 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
33773585 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
*
33773612 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
33773677 TAATAAATAATTTAATCATATTTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
33773742 TTTAATAAAATTCTTAATAAT
131 TTTAATAAAATTCTTAATAAT
33773763 CAATATTCTT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:33773834 original size:120 final size:120
Alignment explanation
Indices: 33773698--33774014 Score: 618
Period size: 120 Copynumber: 2.6 Consensus size: 120
33773688 TTAATCATAT
33773698 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
33773763 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
33773818 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
33773883 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
33773938 TTTAACATAATTATTATT-AAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
33774002 CAATATTCTTATA
66 CAATATTCTTATA
33774015 ACAAAAATTC
Statistics
Matches: 196, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
119 58 0.30
120 138 0.70
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:33778654 original size:2 final size:2
Alignment explanation
Indices: 33778647--33778676 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33778637 GGGTTTTGAA
33778647 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33778677 GTTTTCTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33782423 original size:49 final size:49
Alignment explanation
Indices: 33782364--33782467 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
33782354 TCATGTGTTA
* * * * *
33782364 TAATTCTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
33782413 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
33782462 TAATTT
1 TAATTT
33782468 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
Found at i:33785470 original size:41 final size:41
Alignment explanation
Indices: 33785413--33785665 Score: 398
Period size: 41 Copynumber: 6.1 Consensus size: 41
33785403 TATCTTATGC
* *
33785413 GATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
*
33785454 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
*
33785495 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
* * *
33785536 GATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGTCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
**
33785577 GATCTGAATCAGATTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
* *
33785618 GATCTGAATCAGGCTATAAGCCTAGCAGGCTACGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
33785659 GAATCTG
1 G-ATCTG
33785666 TTAAATTAAG
Statistics
Matches: 199, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
41 194 0.97
42 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
Found at i:33793353 original size:41 final size:41
Alignment explanation
Indices: 33793296--33793497 Score: 359
Period size: 41 Copynumber: 4.9 Consensus size: 41
33793286 TATCTTATGC
33793296 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
33793337 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* *
33793378 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * *
33793419 GATCTGAATCAGGTTATAAACCTTGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
33793460 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
33793498 AATGAATCTG
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 155 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:33794811 original size:21 final size:21
Alignment explanation
Indices: 33794787--33794829 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33794777 AATAAAGTAG
33794787 ATTATACATTAT-ATTTATAGT
1 ATTATACATTATGATTT-TAGT
*
33794808 ATTATATATTATGATTTTAGT
1 ATTATACATTATGATTTTAGT
33794829 A
1 A
33794830 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTATACATTATGATTTTAGT
Found at i:33794913 original size:99 final size:100
Alignment explanation
Indices: 33794794--33794974 Score: 303
Period size: 99 Copynumber: 1.8 Consensus size: 100
33794784 TAGATTATAC
33794794 ATTATATTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATT-GAA
1 ATTATATTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
33794857 TTTTATTAAATTATATTTAATAATAATTATTTTAA
66 TTTTATTAAATTATATTTAATAATAATTATTTTAA
* *
33794892 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATACGAATATTTAATATTAAG
1 ATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATT-AG
*
33794957 AATTTTATTAGATTATAT
64 AATTTTATTAAATTATAT
33794975 ATTTTATTAA
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
98 6 0.08
99 47 0.62
100 5 0.07
102 18 0.24
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (100 bp):
ATTATATTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
TTTTATTAAATTATATTTAATAATAATTATTTTAA
Done.