Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 107 of 335
Found at i:33334936 original size:44 final size:44
Alignment explanation
Indices: 33334711--33335066 Score: 113
Period size: 44 Copynumber: 8.0 Consensus size: 44
33334701 TATCTCTCTG
* * * * *
33334711 AGGTAGCAAAAGAGCAGGTTAAAGATTAAAGTCTTATCTT-CTCG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCT-A
* *
33334755 AGGTAGCAAG-GAAGCAGACT-AAGGATTGAAGATCTTATC-TCCCA
1 AGGTAGCAAGAG-AGCAGATTGAA-GATTGAAG-TCTTATCTTCCTA
* ** * *
33334799 AAGTAATAATG-GAGCAGATCGAAGATGGTGAA-TCTTATCTTCCTG
1 AGGTAGCAA-GAGAGCAGATTGAAGAT--TGAAGTCTTATCTTCCTA
* * * ** ***** * *
33334844 AGGTAGTAGGGGAGCAGATTTTAGCCACCAG-CTTTAT-TTCTTTG
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTC-TTATCTTC-CTA
*
33334888 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
* * * * ** ***** *
33334932 AGGTAGTAGGGGAGTAGATTTTAGCCACCAGCCTTATC-TCTCTA
1 AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTC-CTA
* * * *
33334976 AGGTAGCGAGAGAACA-AGTTGAAGATTGAAGTCTTATCTTCTTG
1 AGGTAGCAAGAGAGCAGA-TTGAAGATTGAAGTCTTATCTTCCTA
* * * *
33335020 AGGTAGCAAG-GAAGCAGACTGAAGATTGTAGATCTTGTCTCCCTA
1 AGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-TCTTATCTTCCTA
33335065 AG
1 AG
33335067 CAGTAGTGGA
Statistics
Matches: 216, Mismatches: 75, Indels: 41
0.65 0.23 0.12
Matches are distributed among these distances:
43 12 0.06
44 151 0.70
45 49 0.23
46 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
AGGTAGCAAGAGAGCAGATTGAAGATTGAAGTCTTATCTTCCTA
Found at i:33334938 original size:88 final size:88
Alignment explanation
Indices: 33334827--33335025 Score: 301
Period size: 88 Copynumber: 2.3 Consensus size: 88
33334817 TCGAAGATGG
* * * *
33334827 TGAA-TCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCTTTATTTCTTTGAGG
1 TGAAGTCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
* *
33334891 TAGCAAGAGAGCAGGTTGAAGAT
66 TAGCAAGAGAACAAGTTGAAGAT
* *
33334914 TGAAGTCTTATCTTCCTAAGGTAGTAGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
1 TGAAGTCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
*
33334979 TAGCGAGAGAACAAGTTGAAGAT
66 TAGCAAGAGAACAAGTTGAAGAT
*
33335002 TGAAGTCTTATCTTCTTGAGGTAG
1 TGAAGTCTTATCTTCCTGAGGTAG
33335026 CAAGGAAGCA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 4 0.04
88 96 0.96
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (88 bp):
TGAAGTCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
TAGCAAGAGAACAAGTTGAAGAT
Found at i:33335080 original size:44 final size:43
Alignment explanation
Indices: 33335032--33335169 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 43
33335022 GTAGCAAGGA
33335032 AGCAGACTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGG
1 AGCAGACTGAAGATTGT-GATCTTGTCTCCCTAAGCAGTAGTGG
** * ** * *
33335076 AGCAGA-TCGAAGACGGTGAGCCTTAACCCCCTAAACAGTAG-GG
1 AGCAGACT-GAAGATTGTGA-TCTTGTCTCCCTAAGCAGTAGTGG
* * * *
33335119 TAACAGGCTGAAAATTGTGGATCTTGTCTCCCTAAGTAGTAGTGG
1 -AGCAGACTGAAGATTGT-GATCTTGTCTCCCTAAGCAGTAGTGG
33335164 AGCAGA
1 AGCAGA
33335170 TCGAGGGCGG
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 5 0.07
44 58 0.85
45 5 0.07
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (43 bp):
AGCAGACTGAAGATTGTGATCTTGTCTCCCTAAGCAGTAGTGG
Found at i:33335150 original size:88 final size:88
Alignment explanation
Indices: 33335038--33335241 Score: 318
Period size: 88 Copynumber: 2.3 Consensus size: 88
33335028 AGGAAGCAGA
*
33335038 CTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAAATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
* *
33335103 CCCCTAAACAGTAGGGTAACAGG
66 CCCCTAAACAATAAGGTAACAGG
* * * *
33335126 CTGAAAATTGTGGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAGGGCGGTGAGCCTTAAC
1 CTGAAAATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
*
33335191 CCCCTAAGCAATAAGGTAACAGG
66 CCCCTAAACAATAAGGTAACAGG
* *
33335214 CTAAAAATTATAGATCTTGTCTCCCTAA
1 CTGAAAATTGTAGATCTTGTCTCCCTAA
33335242 AGTTGCAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 105 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (88 bp):
CTGAAAATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
CCCCTAAACAATAAGGTAACAGG
Found at i:33335257 original size:88 final size:88
Alignment explanation
Indices: 33335048--33335263 Score: 308
Period size: 88 Copynumber: 2.5 Consensus size: 88
33335038 CTGAAGATTG
*
33335048 TAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAACA
1 TAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAACA
* * * *
33335113 GTAGGGTAACAGGCTGAAAATTG
66 ATAAGGTAACAGGCTAAAAATTA
* * * *
33335136 TGGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAGGGCGGTGAGCCTTAACCCCCTAAGCA
1 TAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAACA
33335201 ATAAGGTAACAGGCTAAAAATTA
66 ATAAGGTAACAGGCTAAAAATTA
* * *
33335224 TAGATCTTGTCTCCCTAAAGTTGCAGTAG-GCAGATCGAAG
1 TAGATCTTGTCTCCCT-AAGTAGTAGTGGAGCAGATCGAAG
33335264 CCATAATCCT
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
88 104 0.92
89 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (88 bp):
TAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAACA
ATAAGGTAACAGGCTAAAAATTA
Found at i:33340808 original size:19 final size:19
Alignment explanation
Indices: 33340784--33340881 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
33340774 AATCTTTAAG
33340784 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
33340803 GATATGCAGTCTTACATAT
1 GATATGCAATCTTAGATAT
33340822 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33340839 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33340858 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33340879 GAT
1 GAT
33340882 CTTGTAATCT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.66
21 9 0.13
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33340830 original size:36 final size:37
Alignment explanation
Indices: 33340784--33340881 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
33340774 AATCTTTAAG
*
33340784 GATATGCAATCTTAGATATGATATGCAGTCTTACATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTACATAT
*
33340822 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTACATAT
33340858 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
33340882 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
40 9 0.17
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTACATAT
Found at i:33344860 original size:25 final size:25
Alignment explanation
Indices: 33344826--33344875 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33344816 AATGAATGCC
33344826 AAATTTAAAGGAGTCAAGACTTATG
1 AAATTTAAAGGAGTCAAGACTTATG
33344851 AAATTTAAAGGAGTCAAGACTTATG
1 AAATTTAAAGGAGTCAAGACTTATG
33344876 GGGCATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (25 bp):
AAATTTAAAGGAGTCAAGACTTATG
Found at i:33346519 original size:1 final size:1
Alignment explanation
Indices: 33346513--33346580 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
33346503 CTTCTATTTC
* * * * * * * * *
33346513 AAAAAAAAAAAAAAAGAGAAAAAAAGAGAAAAAAATAAAAAGAAAAAAAAAAGAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33346578 AAA
1 AAA
33346581 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.01
Consensus pattern (1 bp):
A
Found at i:33346552 original size:27 final size:27
Alignment explanation
Indices: 33346515--33346580 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
33346505 TCTATTTCAA
*
33346515 AAAAAAAAAAAAAG-AGAAAAAAAGAG
1 AAAAAAAAAAAAAGAAAAAAAAAAGAG
*
33346541 AAAAAAATAAAAAGAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAAAAAAAAAAGAG
*
33346568 AAAAAAGAAAAAA
1 AAAAAAAAAAAAA
33346581 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (27 bp):
AAAAAAAAAAAAAGAAAAAAAAAAGAG
Found at i:33346587 original size:20 final size:20
Alignment explanation
Indices: 33346513--33346580 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 20
33346503 CTTCTATTTC
33346513 AAAAA-AAAAAAAAAAGAGA
1 AAAAAGAAAAAAAAAAGAGA
* * *
33346532 AAAAA-AGAGAAAAAA-A-T
1 AAAAAGAAAAAAAAAAGAGA
33346549 AAAAAGAAAAAAAAAAGAGA
1 AAAAAGAAAAAAAAAAGAGA
33346569 AAAAAGAAAAAA
1 AAAAAGAAAAAA
33346581 TGGAGAGGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 5 0.12
18 9 0.22
19 14 0.35
20 12 0.30
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAAGAGA
Found at i:33347591 original size:44 final size:44
Alignment explanation
Indices: 33347536--33347637 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
33347526 AGCGCCTTAA
* * *
33347536 TCCCTTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCCTAAGTAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
*
33347580 TCCCCTAAGTAGTAGGGTAACAGGTCAAAATTGCGGATCTTATC
1 TCCCCTAAGTAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
*
33347624 T-CCCTAAGCAGTAG
1 TCCCCTAAGTAGTAG
33347638 TGGAGCAGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.23
44 41 0.77
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
TCCCCTAAGTAGTAGGGTAACAGGTCAAAATTGCAGATCTTATC
Found at i:33348144 original size:220 final size:220
Alignment explanation
Indices: 33347695--33348706 Score: 1537
Period size: 220 Copynumber: 4.6 Consensus size: 220
33347685 AGGTTAAAGT
* * * *
33347695 ATAGCAGATCTGGCCTTCAGGTGTTCACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * * *
33347760 TGTCAGATAATAAATCGAAGAAAAAGATTTGGCATCTCCATATTCGAC-G-GAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAAGA
** * *
33347823 CATAGTGGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGTATTCTTG
131 CATAGCAGATCTGACCTTTGGATATTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
33347888 TGTTTACAAGGAGCAAATCAAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
*
33347913 ATAGCAGATCTGACCTTCAGGTGTTTACAATGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
33347978 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAAGG
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAAGA
* * *
33348043 CATAACAGATCTGACCTTTGGATATTTTCACATCGAAGCATATCCAAGATAATTTGGCATTCTTG
131 CATAGCAGATCTGACCTTTGGATATTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
33348108 TGTTTACAAGGAGCAAATTGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* * *
33348133 ATAGTAGATCTGACCTTCAGTTGTTTACACTGAAACAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
33348198 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAA-ATCGAAG
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAG-AAGATCGAAG
* *
33348262 ACATAGCAGATCTGACCTTTGGATGTTTTCACATCAAAGCAGATCCAAGATGATTTGGCATTCTT
130 ACATAGCAGATCTGACCTTTGGATATTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTT
33348327 GTGTTTACAAGGAGCAAATCGAAGAC
195 GTGTTTACAAGGAGCAAATCGAAGAC
* *
33348353 ATAGCAGATCTGACCTTCAGTTGTTTACACTGAAGCAGATCCAAGATGATTTGACATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * * * *
33348418 TGTCAAAGAACAAATTGAATAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAAGA
* * * *
33348483 CATAGCAGATCTGACCTTCGGATATTTTCACATTGAAGCAGATCCAAGATGATTTAGCATCCTTG
131 CATAGCAGATCTGACCTTTGGATATTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
33348548 TGTTTACAAGGAGCAAATCGAAGAC
196 TGTTTACAAGGAGCAAATCGAAGAC
* * * *
33348573 ATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGACATATCTATAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * ** * ** *
33348638 TGTCA-AGGAACGAATCGAAGGTAGTAGATTTGACATCTCTGTATTCGATGGAGAGAAGATCGAA
66 TGTCAGA-GAACAAATCGAA-GAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAA
*
33348702 AACAT
129 GACAT
33348707 CAACATGACA
Statistics
Matches: 727, Mismatches: 61, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
218 105 0.14
219 3 0.00
220 579 0.80
221 40 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (220 bp):
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGAAGATCGAAGA
CATAGCAGATCTGACCTTTGGATATTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAGCAAATCGAAGAC
Found at i:33348654 original size:87 final size:89
Alignment explanation
Indices: 33348475--33348657 Score: 216
Period size: 87 Copynumber: 2.1 Consensus size: 89
33348465 CAGAGAGCAG
* *
33348475 ATCGAAGACATAGCAGATCTGACCTTCGGATATTTTCACATTGAAGCAGATCCAAGATGATTTAG
1 ATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAGATGATTTAG
* * *
33348540 CATCCTTGTGTTTACAAGGAGCAA
66 CATCCTTATGTGTACAAGGAACAA
*
33348564 ATCGAAGACATAGCAGATCTGACCTTCAGG-T-GTTT-ACGCTGAAGCAGATCCAAGATGATTT-
1 ATCGAAGACATAGCAGATCTGACCTTC-GGATAGTTTCACACTGAAGCAGATCCAAGATGATTTA
* *
33348625 GACATATCTATAT-TGT-CAAGGAACGA
65 G-CAT-CCT-TATGTGTACAAGGAACAA
33348651 ATCGAAG
1 ATCGAAG
33348658 GTAGTAGATT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
86 1 0.01
87 42 0.51
88 7 0.09
89 30 0.37
90 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (89 bp):
ATCGAAGACATAGCAGATCTGACCTTCGGATAGTTTCACACTGAAGCAGATCCAAGATGATTTAG
CATCCTTATGTGTACAAGGAACAA
Found at i:33349059 original size:19 final size:19
Alignment explanation
Indices: 33349035--33349110 Score: 98
Period size: 19 Copynumber: 3.8 Consensus size: 19
33349025 AATCTTTAAG
33349035 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33349054 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
33349073 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
33349094 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
33349111 GATTTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 30 0.60
20 3 0.06
21 9 0.18
22 8 0.16
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33355421 original size:26 final size:26
Alignment explanation
Indices: 33355370--33355441 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
33355360 TTTTAATCCT
**
33355370 TTTTTATTT-TAAATATTTTTTA-TA
1 TTTTTATTTATAAATATTAGTTATTA
33355394 TTATTTATTTTTATAAATATTAGTTATTA
1 TT-TTTA--TTTATAAATATTAGTTATTA
*
33355423 TTTTTATTTATATATATTA
1 TTTTTATTTATAAATATTA
33355442 TCCATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.05
25 4 0.10
26 12 0.30
27 3 0.08
28 15 0.38
29 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTATTTATAAATATTAGTTATTA
Found at i:33355442 original size:22 final size:22
Alignment explanation
Indices: 33355390--33355442 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
33355380 AAATATTTTT
33355390 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
33355413 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
33355435 TATATTAT
1 TATATTAT
33355443 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:33355448 original size:26 final size:26
Alignment explanation
Indices: 33355393--33355454 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
33355383 TATTTTTTAT
*
33355393 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
33355419 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
33355445 ATTATATTAT
1 ATTAT-TTAT
33355455 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:33355497 original size:12 final size:12
Alignment explanation
Indices: 33355480--33355522 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
33355470 ATCTATAAAT
33355480 TATATTTTATTA
1 TATATTTTATTA
*
33355492 TATATTTCATTA
1 TATATTTTATTA
*
33355504 TATATATATATATA
1 TATAT-TTTAT-TA
33355518 TATAT
1 TATAT
33355523 ATATATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 3 0.12
14 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:33355507 original size:2 final size:2
Alignment explanation
Indices: 33355502--33355528 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33355492 TATATTTCAT
33355502 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33355529 CTTATGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33366703 original size:3 final size:3
Alignment explanation
Indices: 33366695--33366760 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
33366685 TTTTCGACAA
33366695 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33366743 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
33366761 GGAGAGGCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33367766 original size:43 final size:43
Alignment explanation
Indices: 33367718--33367804 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
33367708 AAACAGATCC
* *
33367718 AAGATGATTTGGAGTCTCTGTATTGTCAGTGAGCAGATCGAAG
1 AAGATGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAG
* *
33367761 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAG
1 AAGATGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAG
33367804 A
1 A
33367805 CAGAGCTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (43 bp):
AAGATGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAG
Found at i:33367907 original size:87 final size:87
Alignment explanation
Indices: 33367761--33367978 Score: 346
Period size: 87 Copynumber: 2.5 Consensus size: 87
33367751 CAGATCGAAG
* *
33367761 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGACAGAGCTGATCTGGCTTTTAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGAAGATCGAAGACAGAGCTGATCTGGCTTTCAC
*
33367826 GTGTTTACGTTGAAGCAAATCT
66 GTGTTTACATTGAAGCAAATCT
* * *
33367848 AAGATGATTTGGCGTCTCTGTATTGGCAGGGAGAAGATCGAAGACATAGCTGATTTGGCTTTCAC
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGAAGATCGAAGACAGAGCTGATCTGGCTTTCAC
33367913 GTGTTTACATTGAAGCAAATCT
66 GTGTTTACATTGAAGCAAATCT
* * * *
33367935 AAGATGATTTGGCGTCTCTGCATTGTCAGAGAGCAGATTGAAGA
1 AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGAAGATCGAAGA
33367979 TAACAGATTT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 120 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (87 bp):
AAGATGATTTGGCGTCTCTGTATTGGCAGAGAGAAGATCGAAGACAGAGCTGATCTGGCTTTCAC
GTGTTTACATTGAAGCAAATCT
Found at i:33368124 original size:213 final size:213
Alignment explanation
Indices: 33367836--33368229 Score: 488
Period size: 213 Copynumber: 1.8 Consensus size: 213
33367826 GTGTTTACGT
* * ** * * *
33367836 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGAAGATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTCACAAGGAGAAGATCGAAGACACAGCAGA
* * * * * * *
33367901 TTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCTCTGCATTGTCAGAG
66 TTTAGCTTTCACGGGTTTACACTGAAGCAAATATAAGATGATTTGGCATCTCTGCACTGTCAGAA
* * *
33367966 AGCAGATTGAAGATAACAGATTTGGCATCTCCAT-TTCGACGGAGAGCAGATACATAGCAGATCT
131 AACAAATCGAAGA-AACAGATTTGGCATCTCCATGTTCGACGGAGAGCAGATACATAGCAGATCT
33368030 AACCTTCAGATGATTTTAC
195 AACCTTCAGATGATTTTAC
* *
33368049 TGAAGCAGATCCAAGATGATTTGGCATC-CTTGTGTTCACAAGGAGCAA-ATCGAAGACACAGCA
1 TGAAGCAAATCCAAGATGATTTGGCATCTC-TGTATTCACAAGGAG-AAGATCGAAGACACAGCA
* * * *
33368112 GATTTAGCTTTCACGGGTTTACGCTGAAGTAGATATAAGATGATTTGGCATCTCTGTACTGTCAG
64 GATTTAGCTTTCACGGGTTTACACTGAAGCAAATATAAGATGATTTGGCATCTCTGCACTGTCAG
** * **
33368177 AAAACAAATCGAAGAAGTAGATTTGGCGTCTCTGTGTTCGACGGAGAGCAGAT
129 AAAACAAATCGAAGAAACAGATTTGGCATCTCCATGTTCGACGGAGAGCAGAT
33368230 CGAAGATATA
Statistics
Matches: 150, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
212 16 0.11
213 132 0.88
214 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (213 bp):
TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTCACAAGGAGAAGATCGAAGACACAGCAGA
TTTAGCTTTCACGGGTTTACACTGAAGCAAATATAAGATGATTTGGCATCTCTGCACTGTCAGAA
AACAAATCGAAGAAACAGATTTGGCATCTCCATGTTCGACGGAGAGCAGATACATAGCAGATCTA
ACCTTCAGATGATTTTAC
Found at i:33385561 original size:16 final size:16
Alignment explanation
Indices: 33385540--33385572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33385530 TTGCTTTCTT
33385540 AAATAGA-AGAGACAGA
1 AAATAGATAGA-ACAGA
33385556 AAATAGATAGAACAGA
1 AAATAGATAGAACAGA
33385572 A
1 A
33385573 TCTAGGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.64, C:0.06, G:0.21, T:0.09
Consensus pattern (16 bp):
AAATAGATAGAACAGA
Found at i:33397564 original size:334 final size:334
Alignment explanation
Indices: 33396955--33397630 Score: 1226
Period size: 334 Copynumber: 2.0 Consensus size: 334
33396945 AAGAAGTAAG
*
33396955 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
33397020 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* **
33397085 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACTGT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
* *
33397150 AGCCATTATTTTAGATCATGAATACCATGTTTGCCTCGATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
* *
33397215 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
261 ACTCCAAACCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
33397280 CTTGTCAGT
326 CTTGTCAGT
*
33397289 ATAGATTATATTATCATATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
*
33397354 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* *
33397419 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTTTCCACACTTGTTTCGACAAAACACT
131 AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
33397484 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
33397549 ACTCCAAACCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTTGCATTCTGCTCCCTAAAA
261 ACTCCAAACCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
*
33397614 CTTGTTAGT
326 CTTGTCAGT
33397623 ATAGATTA
1 ATAGATTA
33397631 ACAAAAAATG
Statistics
Matches: 328, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
334 328 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (334 bp):
ATAGATTATATTATCACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
AATAGCAAATGAATATGGTCCCATTTGTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
AAGAAACTAGTAGCAAAATAAATGCATGCCCTTGTGTCTGTCCACACTTGTTTCAACAAAACACT
AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
ACTCCAAACCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCATTCTGCTCCCTAAAA
CTTGTCAGT
Found at i:33400034 original size:27 final size:27
Alignment explanation
Indices: 33399992--33400065 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
33399982 AACCATTTTC
* *
33399992 CGCCTCTGAGATAGGCACGATTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
* *
33400019 CGCCTCTGAGAAAGGCTCAACTAGTCG
1 CGCCTCTGAGATAGGCACAACTAGTCG
* *
33400046 CACCTCTGACATAGGCACAA
1 CGCCTCTGAGATAGGCACAA
33400066 TTTATATTCG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (27 bp):
CGCCTCTGAGATAGGCACAACTAGTCG
Found at i:33400495 original size:30 final size:30
Alignment explanation
Indices: 33400461--33400524 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
33400451 CTAATAATAG
*
33400461 TAAAATTTCACTTTAA-CCTCTCAAAAATGA
1 TAAAATTTCAATTTAATCCTCT-AAAAATGA
* *
33400491 TAAAATTTTAATTTAATCCTCTAAAAATTA
1 TAAAATTTCAATTTAATCCTCTAAAAATGA
33400521 TAAA
1 TAAA
33400525 GATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAAATTTCAATTTAATCCTCTAAAAATGA
Found at i:33402678 original size:17 final size:19
Alignment explanation
Indices: 33402648--33402694 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33402638 CTAAAATTTT
33402648 ATTTATAAATATAT-AAAAA
1 ATTTA-AAATATATCAAAAA
*
33402667 ATTTAAAA-ATATCAACAA
1 ATTTAAAATATATCAAAAA
*
33402685 ACTTAAAATA
1 ATTTAAAATA
33402695 GAGCACATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTAAAATATATCAAAAA
Found at i:33408185 original size:9 final size:9
Alignment explanation
Indices: 33408171--33408201 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
33408161 CCGAATTATT
33408171 ATTTTAATA
1 ATTTTAATA
33408180 ATTTTAATA
1 ATTTTAATA
33408189 ATTTTAATA
1 ATTTTAATA
33408198 ATTT
1 ATTT
33408202 ATGTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTTAATA
Found at i:33411545 original size:7 final size:7
Alignment explanation
Indices: 33411533--33411557 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33411523 TCAAATAAAT
33411533 AATTTTA
1 AATTTTA
33411540 AATTTTA
1 AATTTTA
33411547 AATTTTA
1 AATTTTA
33411554 AATT
1 AATT
33411558 ATTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:33415618 original size:18 final size:18
Alignment explanation
Indices: 33415597--33415631 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33415587 GTTCAATTCC
*
33415597 TTTTAATTTAATTTAATT
1 TTTTAATTTAATATAATT
33415615 TTTTAATTTAATATAAT
1 TTTTAATTTAATATAAT
33415632 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAATTTAATATAATT
Found at i:33415626 original size:23 final size:22
Alignment explanation
Indices: 33415597--33415640 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 22
33415587 GTTCAATTCC
33415597 TTTTAATTTAAT-T--T-AATT
1 TTTTAATTTAATATAATGAATT
33415615 TTTTAATTTAATATAATGAATT
1 TTTTAATTTAATATAATGAATT
33415637 TTTT
1 TTTT
33415641 TTATTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
21 1 0.05
22 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTAATTTAATATAATGAATT
Found at i:33416136 original size:25 final size:25
Alignment explanation
Indices: 33416088--33416136 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33416078 TTAGTGCTAA
* * *
33416088 ATTAAATAAAAAGCTTAACCACCAG
1 ATTAAAAAAAAACCTTAAACACCAG
*
33416113 ATTAAAAAAAAACCTTAAATACCA
1 ATTAAAAAAAAACCTTAAACACCA
33416137 AGAAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.20
Consensus pattern (25 bp):
ATTAAAAAAAAACCTTAAACACCAG
Found at i:33419725 original size:46 final size:46
Alignment explanation
Indices: 33419658--33419932 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
33419648 GGAGTGTGCT
33419658 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
33419704 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
33419750 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
33419796 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ***
33419842 CGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
33419888 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
33419933 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 215 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:33424147 original size:24 final size:24
Alignment explanation
Indices: 33424084--33424135 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33424074 TTTCTAAAAG
* * *
33424084 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33424108 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
33424132 ATTT
1 ATTT
33424136 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:33428510 original size:24 final size:24
Alignment explanation
Indices: 33428482--33428534 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
33428472 TTTCTAAAAG
*
33428482 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
*
33428506 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
33428530 ATTTA
1 ATTTA
33428535 ACTTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATGAGTATAATAT
Found at i:33428544 original size:24 final size:24
Alignment explanation
Indices: 33428489--33428545 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
33428479 AAGATTTAGT
* *
33428489 ATTTATGAGTATAATATATTTAGC
1 ATTTATTAGTATAATATATTTAAC
33428513 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGTATAATATATTTAAC
33428537 -TTTGATTAG
1 ATTT-ATTAG
33428546 AATTAGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTAAC
Found at i:33428966 original size:22 final size:23
Alignment explanation
Indices: 33428935--33428978 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
33428925 TTTATGAAGA
33428935 TTCATTAAAA-CATCATGCATTTC
1 TTCATTAAAATCATCAT-CATTTC
33428958 TTCA-TAAAATCATCATCATTT
1 TTCATTAAAATCATCATCATTT
33428979 AATTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (23 bp):
TTCATTAAAATCATCATCATTTC
Found at i:33429304 original size:13 final size:13
Alignment explanation
Indices: 33429286--33429312 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33429276 TCCTTTTTAC
33429286 AACTTAAAACCCA
1 AACTTAAAACCCA
33429299 AACTTAAAACCCA
1 AACTTAAAACCCA
33429312 A
1 A
33429313 TTACAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (13 bp):
AACTTAAAACCCA
Found at i:33431710 original size:14 final size:14
Alignment explanation
Indices: 33431658--33431711 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
33431648 TTCTTTTATG
33431658 TAAATATTTTCTTT
1 TAAATATTTTCTTT
* * *
33431672 TAAATCTTTATGTATA
1 TAAATATTT-TCT-TT
*
33431688 TATATATTTTCTTT
1 TAAATATTTTCTTT
33431702 TAAATATTTT
1 TAAATATTTT
33431712 TTGTGTATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
14 18 0.60
15 4 0.13
16 8 0.27
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (14 bp):
TAAATATTTTCTTT
Found at i:33433673 original size:21 final size:21
Alignment explanation
Indices: 33433649--33433688 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33433639 TATTTTTGTA
*
33433649 TTTGTTTACTATTATTTTTAG
1 TTTGCTTACTATTATTTTTAG
* *
33433670 TTTGCTTATTATTCTTTTT
1 TTTGCTTACTATTATTTTT
33433689 CTTATTTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTGCTTACTATTATTTTTAG
Found at i:33447185 original size:18 final size:19
Alignment explanation
Indices: 33447154--33447195 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
33447144 TAACACCCTG
* *
33447154 ATTTTCGGGTTTTTCGT-A
1 ATTTTCGAGATTTTCGTAA
*
33447172 ATTTTCGAGATTTTGGTAA
1 ATTTTCGAGATTTTCGTAA
33447191 ATTTT
1 ATTTT
33447196 GTAAAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (19 bp):
ATTTTCGAGATTTTCGTAA
Found at i:33448861 original size:25 final size:25
Alignment explanation
Indices: 33448813--33448861 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33448803 TTAAAATATA
* * * *
33448813 AAAAATGACTGTTTTGCCCTTAGGT
1 AAAAATGACTATTATACCCCTAGGT
33448838 AAAAATGACTATTATACCCCTAGG
1 AAAAATGACTATTATACCCCTAGG
33448862 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (25 bp):
AAAAATGACTATTATACCCCTAGGT
Found at i:33449049 original size:25 final size:25
Alignment explanation
Indices: 33448994--33449050 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
33448984 GGAGGAAGTG
* *
33448994 CAAAAAGGGCTTTGCCCGAGTTTAC
1 CAAAAAGGCCTTTGCCCCAGTTTAC
* *
33449019 CGAAAAGGCCTTTGCCCCAGTTTAT
1 CAAAAAGGCCTTTGCCCCAGTTTAC
33449044 CAAAAAG
1 CAAAAAG
33449051 AGTTTTACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (25 bp):
CAAAAAGGCCTTTGCCCCAGTTTAC
Found at i:33453566 original size:44 final size:44
Alignment explanation
Indices: 33453518--33453618 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 44
33453508 GTGGCCTTAC
* * * *
33453518 AGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTACAGTGG
1 AGCAGATTAAAGCAACAAATCCTATCTCCCTGAAATTACAGTGG
* * *
33453562 AGCAGATTGAAGCAACAAATCCTATCTCTCTGAAATTGCAGTGG
1 AGCAGATTAAAGCAACAAATCCTATCTCCCTGAAATTACAGTGG
33453606 AGCAGATTAAAGC
1 AGCAGATTAAAGC
33453619 GAGCTAATCC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (44 bp):
AGCAGATTAAAGCAACAAATCCTATCTCCCTGAAATTACAGTGG
Found at i:33453646 original size:45 final size:44
Alignment explanation
Indices: 33453518--33453648 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 44
33453508 GTGGCCTTAC
* * ** * *
33453518 AGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTACAGTGG
1 AGCAGATTAAAGCAACAAATCCAATCTCTCTGAAGTTGCAGTGG
* * *
33453562 AGCAGATTGAAGCAACAAATCCTATCTCTCTGAAATTGCAGTGG
1 AGCAGATTAAAGCAACAAATCCAATCTCTCTGAAGTTGCAGTGG
* *
33453606 AGCAGATTAAAGCGAGCTAATCCAATAC-CTCTGAAGTTGCAGT
1 AGCAGATTAAAGC-AACAAATCCAAT-CTCTCTGAAGTTGCAGT
33453649 AGGTCGGATT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 49 0.67
45 23 0.32
46 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (44 bp):
AGCAGATTAAAGCAACAAATCCAATCTCTCTGAAGTTGCAGTGG
Found at i:33454032 original size:13 final size:13
Alignment explanation
Indices: 33454014--33454041 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33454004 TCTTTTTTAC
33454014 AACTTTAAACCCA
1 AACTTTAAACCCA
33454027 AACTTTAAACCCA
1 AACTTTAAACCCA
33454040 AA
1 AA
33454042 AACAAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (13 bp):
AACTTTAAACCCA
Found at i:33454402 original size:10 final size:10
Alignment explanation
Indices: 33454387--33454425 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
33454377 CATGCTAAGG
33454387 TCCTTCTTTT
1 TCCTTCTTTT
33454397 TCCTTCTTTT
1 TCCTTCTTTT
*
33454407 TCCTTATTTT
1 TCCTTCTTTT
33454417 T--TTCTTTT
1 TCCTTCTTTT
33454425 T
1 T
33454426 TTACGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (10 bp):
TCCTTCTTTT
Found at i:33455894 original size:13 final size:13
Alignment explanation
Indices: 33455876--33455903 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33455866 TATATATATA
33455876 AAAGAAACAAAAG
1 AAAGAAACAAAAG
33455889 AAAGAAACAAAAG
1 AAAGAAACAAAAG
33455902 AA
1 AA
33455904 TAAAAGGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:33456700 original size:2 final size:2
Alignment explanation
Indices: 33456683--33456722 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
33456673 TAAATTGAAT
* *
33456683 TA TA TA T- TA TA AA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33456723 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:33456727 original size:2 final size:2
Alignment explanation
Indices: 33456722--33456769 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
33456712 TATATATATA
*
33456722 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
33456764 TG TG TG
1 TG TG TG
33456770 AATGAGATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:33456943 original size:15 final size:15
Alignment explanation
Indices: 33456925--33456981 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
33456915 TATTTGTTTT
*
33456925 ATTGAATTTCTATTG
1 ATTGAATTTATATTG
* * *
33456940 ATTGAAATTATTTTA
1 ATTGAATTTATATTG
33456955 ATTGAATTTATATTG
1 ATTGAATTTATATTG
33456970 ATTGAA-TTATAT
1 ATTGAATTTATAT
33456982 AATATATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 6 0.17
15 29 0.83
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:33456960 original size:30 final size:28
Alignment explanation
Indices: 33456921--33456979 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
33456911 TGAATATTTG
*
33456921 TTTTATTGAATTTCTATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
33456950 TTTTAATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
33456979 T
1 T
33456980 ATAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:33457307 original size:23 final size:23
Alignment explanation
Indices: 33457281--33457355 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
33457271 AGGCACTTTA
33457281 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
33457304 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
33457325 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
33457346 TGTGTCGTAT
1 TGTGTCGTAT
33457356 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:33457537 original size:18 final size:19
Alignment explanation
Indices: 33457516--33457556 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33457506 AATGAAATGA
33457516 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
33457534 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
33457553 GAAA
1 GAAA
33457557 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:33458717 original size:22 final size:21
Alignment explanation
Indices: 33458691--33458751 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
33458681 TACATACCAT
33458691 TTATTTTTGTATTTGTTTATTA
1 TTATTTTT-TATTTGTTTATTA
*
33458713 TTATTTTTTAGTTTGCTTATTA
1 TTATTTTTTA-TTTGTTTATTA
*
33458735 TTCTTTTTCTTATTTGT
1 TT-ATTTT-TTATTTGT
33458752 AATCAGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 20 0.61
23 8 0.24
24 3 0.09
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (21 bp):
TTATTTTTTATTTGTTTATTA
Found at i:33459785 original size:23 final size:23
Alignment explanation
Indices: 33459720--33459792 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
33459710 CTATCTCCTA
33459720 CCAAACACAACC-AATTTACCCT
1 CCAAACACAACCAAATTTACCCT
* **
33459742 CCAAACAGAACCAAACATACCCT
1 CCAAACACAACCAAATTTACCCT
* *
33459765 CCAAGCACAACCAAATTTACCCC
1 CCAAACACAACCAAATTTACCCT
33459788 CCAAA
1 CCAAA
33459793 TGCATCCACT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 11 0.27
23 30 0.73
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.12
Consensus pattern (23 bp):
CCAAACACAACCAAATTTACCCT
Found at i:33462481 original size:2 final size:2
Alignment explanation
Indices: 33462474--33462498 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33462464 TCTTTAATAC
33462474 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
33462499 GTTAGTGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33469257 original size:12 final size:12
Alignment explanation
Indices: 33469240--33469264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33469230 CTTTTTAGCC
33469240 AAAAAAAAAAGA
1 AAAAAAAAAAGA
33469252 AAAAAAAAAAGA
1 AAAAAAAAAAGA
33469264 A
1 A
33469265 CAAATTAAAC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:33471503 original size:14 final size:16
Alignment explanation
Indices: 33471471--33471505 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
33471461 TGACTCAAAT
33471471 AAAATATTTTATGTTA
1 AAAATATTTTATGTTA
33471487 AAAATATTTT-T-TTA
1 AAAATATTTTATGTTA
33471501 AAAAT
1 AAAAT
33471506 TATTGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAAATATTTTATGTTA
Found at i:33474371 original size:2 final size:2
Alignment explanation
Indices: 33474364--33474393 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33474354 CTAAAAATTA
33474364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33474394 GTGTGTGTGT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33474848 original size:30 final size:31
Alignment explanation
Indices: 33474785--33474854 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
33474775 AAATTACACC
* * * *
33474785 AACAATCACTCAACTTTGGAGTAACTGACAA
1 AACAATCACTCAACTTTCGAGAAAATAACAA
33474816 AACAATCACTCAACTTTCGA-AAAATAACAA
1 AACAATCACTCAACTTTCGAGAAAATAACAA
*
33474846 AACAGTCAC
1 AACAATCAC
33474855 CACTAACCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 15 0.44
31 19 0.56
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (31 bp):
AACAATCACTCAACTTTCGAGAAAATAACAA
Found at i:33474894 original size:30 final size:30
Alignment explanation
Indices: 33474860--33474935 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33474850 GTCACCACTA
33474860 ACCATTTTTCATTACAAACATAACAAAGCT
1 ACCATTTTTCATTACAAACATAACAAAGCT
** * ***
33474890 ACCATTTTTTGTTACAAACGTAATGGAGCT
1 ACCATTTTTCATTACAAACATAACAAAGCT
33474920 ACCATTTTTCATTACA
1 ACCATTTTTCATTACA
33474936 GTTTCACTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
ACCATTTTTCATTACAAACATAACAAAGCT
Found at i:33476387 original size:45 final size:46
Alignment explanation
Indices: 33476301--33476389 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 46
33476291 GGACGACAGG
33476301 GGAGAGGGAAAGAATCAGAGTAGGAGAAGGGATGGTGGGGAAGACAA
1 GGAGAGGGAAAGAATCAGAGTAGGAG-AGGGATGGTGGGGAAGACAA
33476348 GGAGAGGGAGAGAGAATCAGAGTA-G-G-GGGATGGTGGGGAAGA
1 GGAGAGGGA-A-AGAATCAGAGTAGGAGAGGGATGGTGGGGAAGA
33476390 GGGAGAGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
45 16 0.40
47 10 0.25
48 2 0.05
49 12 0.30
ACGTcount: A:0.37, C:0.03, G:0.51, T:0.09
Consensus pattern (46 bp):
GGAGAGGGAAAGAATCAGAGTAGGAGAGGGATGGTGGGGAAGACAA
Found at i:33482510 original size:2 final size:2
Alignment explanation
Indices: 33482503--33482529 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33482493 ACCCCTGCAG
33482503 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33482530 TTCATTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33482638 original size:22 final size:23
Alignment explanation
Indices: 33482608--33482656 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
33482598 AAAAAAGATT
33482608 TTTCGAAAAAATAAATAAAAAAC
1 TTTCGAAAAAATAAATAAAAAAC
*
33482631 TTTC-AAAAAATCAATAAAAAAC
1 TTTCGAAAAAATAAATAAAAAAC
33482653 TTTC
1 TTTC
33482657 CTTTCGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
TTTCGAAAAAATAAATAAAAAAC
Found at i:33483253 original size:2 final size:2
Alignment explanation
Indices: 33483246--33483276 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33483236 AAGTATTTAT
33483246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33483277 CTATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33484303 original size:5 final size:5
Alignment explanation
Indices: 33484293--33484320 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
33484283 CCTTTTCTCC
33484293 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
33484321 CGGCAGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:33486922 original size:3 final size:3
Alignment explanation
Indices: 33486914--33487055 Score: 121
Period size: 3 Copynumber: 47.7 Consensus size: 3
33486904 CATAAAAGAC
**
33486914 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT ACC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
33486961 GAT GAT ACT AAT AAT AGT AAT AAT AAG AA- AATT AAT ATT AGT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
33487006 AAT AAT AAT GGAA- AAT AAT AAT AAC AAT AAT AAT -AT AGT AAT AAT
1 AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33487051 AAT AA
1 AAT AA
33487056 AAGTGAAATA
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
2 8 0.07
3 101 0.89
4 2 0.02
5 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33487464 original size:3 final size:3
Alignment explanation
Indices: 33487456--33487510 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
33487446 GGATTAAAAT
* *
33487456 ATA ATA ATA ATA ATA ATA TTA ATA GTA ATA ATA ATA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
33487501 ATA ATA ATA A
1 ATA ATA ATA A
33487511 AGTAAAGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.96
4 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33487546 original size:26 final size:24
Alignment explanation
Indices: 33487475--33487557 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 24
33487465 ATAATAATAT
*
33487475 TAATAGTAATAATAATAGAAATAATAA
1 TAATAGTAA-AATAA-AG-AATCATAA
* *
33487502 TAATAATAAAGTAAAGAATACATTAA
1 TAATAGTAAAATAAAGAAT-CA-TAA
* *
33487528 TAATAGTAAAATCAGGAATCATAA
1 TAATAGTAAAATAAAGAATCATAA
33487552 TAATAG
1 TAATAG
33487558 CAGCAATAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.26
25 5 0.11
26 22 0.47
27 8 0.17
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.28
Consensus pattern (24 bp):
TAATAGTAAAATAAAGAATCATAA
Found at i:33490318 original size:21 final size:21
Alignment explanation
Indices: 33490280--33490321 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33490270 CAATGCAAAC
***
33490280 CACTCAATTATTGTTTTTTTT
1 CACTCAATTATAAATTTTTTT
33490301 CACTCAATTATAAATTTTTTT
1 CACTCAATTATAAATTTTTTT
33490322 ATTTTGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.57
Consensus pattern (21 bp):
CACTCAATTATAAATTTTTTT
Found at i:33490414 original size:30 final size:28
Alignment explanation
Indices: 33490347--33490417 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
33490337 TTATTGTCTT
*
33490347 TTTTTTTG-TCACCCAACTATTAAATTT
1 TTTTTTTGTTCACCCAACTATTAAATTA
*
33490374 TTTTAATTTGTTCACCCAACTAATCTAGATTA
1 TTTT--TTTGTTCACCCAACT-AT-TAAATTA
33490406 TTTTTTTGTTCA
1 TTTTTTTGTTCA
33490418 TTTCTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 4 0.11
29 4 0.11
30 18 0.49
31 2 0.05
32 9 0.24
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (28 bp):
TTTTTTTGTTCACCCAACTATTAAATTA
Found at i:33492018 original size:42 final size:42
Alignment explanation
Indices: 33491955--33492082 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
33491945 CTTCGTTTTC
** * * * *
33491955 TCGATGCCATAGTTCAACTATGGTTTTACACCTCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
33491998 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
33492039 TCGATGCCATAGCCTAGCTATGGTCTTACACATAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
33492081 TC
1 TC
33492083 ACATATCGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
41 2 0.03
42 71 0.96
43 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:33492180 original size:31 final size:31
Alignment explanation
Indices: 33492137--33492285 Score: 192
Period size: 31 Copynumber: 4.8 Consensus size: 31
33492127 TTTGTCACTT
* *
33492137 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
33492168 GTAGCC-AGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
33492199 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
33492230 GTAGCAGAAACTATCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
33492261 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
33492286 TGTCATTTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
30 1 0.01
31 98 0.99
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:33492369 original size:50 final size:51
Alignment explanation
Indices: 33492261--33492389 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
33492251 CACTGATTAG
* * * * *
33492261 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTAATCAGATAAGT
33492312 GTAGCCGAAGCTATCACTTATCACTT-TCACTTATCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTAATCAGATAAGT
*
33492362 GTAGCCGAAGCTATCACTTATCTCTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
33492390 TACCATAGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTAATCAGATAAGT
Found at i:33492417 original size:34 final size:34
Alignment explanation
Indices: 33492375--33492444 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
33492365 GCCGAAGCTA
33492375 TCACTTATCTCTTGTTACCATAGTCCAATCATGG
1 TCACTTATCTCTTGTTACCATAGTCCAATCATGG
*
33492409 TCACTTATCTCTTGTTGCCATAGTCCAATCATGG
1 TCACTTATCTCTTGTTACCATAGTCCAATCATGG
33492443 TC
1 TC
33492445 TTTTCCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (34 bp):
TCACTTATCTCTTGTTACCATAGTCCAATCATGG
Found at i:33500299 original size:14 final size:14
Alignment explanation
Indices: 33500280--33500309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33500270 TTATATCGAG
33500280 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
33500294 ACCAATCCAATTCA
1 ACCAATCCAAATCA
33500308 AC
1 AC
33500310 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:33520148 original size:17 final size:18
Alignment explanation
Indices: 33520123--33520160 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33520113 AAAGTAGACA
33520123 AAAAAAAATATAA-TACC
1 AAAAAAAATATAATTACC
* *
33520140 AAAATAAATCTAATTACC
1 AAAAAAAATATAATTACC
33520158 AAA
1 AAA
33520161 TTCAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAAAATATAATTACC
Found at i:33529183 original size:3 final size:3
Alignment explanation
Indices: 33529175--33529402 Score: 270
Period size: 3 Copynumber: 76.3 Consensus size: 3
33529165 TTAATTAATT
* *
33529175 TTA TTA TTA TTA TTA TTA TTT TTA CTA TTA TT- TATA TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA
* * *
33529221 TTA TTA TTA TTTA TTA TCA TCA TTA TTA TTA ATA TTA TTA TT- TT-
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33529265 TTA CTA TTA TTA TTTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33529311 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TCA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* *
33529357 TTA TTA TTA CTA TTA TT- TTA TT- TT- TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33529402 T
1 T
33529403 CATTTCTTAT
Statistics
Matches: 196, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
2 11 0.06
3 172 0.88
4 13 0.07
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:33531140 original size:38 final size:38
Alignment explanation
Indices: 33531089--33531165 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
33531079 TACATGCCAG
33531089 AGTTGTAAGATTTCACTCGTATCAGCATAAGCCAAAAT
1 AGTTGTAAGATTTCACTCGTATCAGCATAAGCCAAAAT
**
33531127 AGTTGTAAGATTTCACTCGTATTGGCATAAGCCAAAAT
1 AGTTGTAAGATTTCACTCGTATCAGCATAAGCCAAAAT
33531165 A
1 A
33531166 ATCTTCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (38 bp):
AGTTGTAAGATTTCACTCGTATCAGCATAAGCCAAAAT
Found at i:33533544 original size:16 final size:16
Alignment explanation
Indices: 33533523--33533555 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33533513 TAAAAGATTA
33533523 AAAGTAA-ATAATACAC
1 AAAGTAATAT-ATACAC
33533539 AAAGTAATATATACAC
1 AAAGTAATATATACAC
33533555 A
1 A
33533556 GGAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGTAATATATACAC
Found at i:33534804 original size:15 final size:16
Alignment explanation
Indices: 33534786--33534815 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33534776 GGTTTTGGGC
33534786 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
33534801 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
33534816 CCCGGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:33535672 original size:205 final size:205
Alignment explanation
Indices: 33535187--33536141 Score: 1522
Period size: 205 Copynumber: 4.7 Consensus size: 205
33535177 AAATCTGCTT
* * * *
33535187 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * *
33535252 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
33535317 GGATCTTGCTTCAGT-ATAAACATCTGAAGGCCAGATCTGCTATGTAT-TGCTCTCCATCGAAAT
131 AGATC-TACTTCAGTGA-AAACATCTGAAGGCTAGATCTGCTATGTATCTACTCTCCATCGAAAT
33535380 GGAGATGCCAG-
194 GGAGATGCCAGA
*
33535391 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* *
33535456 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* ** * * * * * *
33535521 GGATCTACTTCAGT-ATAAACATCTGAAGTTTGGATCTGCTATGTGTCTGCCCTCCTTCAAAATG
131 AGATCTACTTCAGTGA-AAACATCTGAAGGCTAGATCTGCTATGTATCTACTCTCCATCGAAATG
*
33535585 GAGATGCCAGG
195 GAGATGCCAGA
*
33535596 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
33535661 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
33535726 AGATCTACTTCAGTGAAATCATCTGAAGGCTAAATCTGCTATGTATCTACTCTCCATCGAAATGG
131 AGATCTACTTCAGTGAAAACATCTGAAGGCTAGATCTGCTATGTATCTACTCTCCATCGAAATGG
33535791 AGATGCCAGA
196 AGATGCCAGA
*
33535801 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
33535866 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * *
33535931 AGATCTACTTCAGTGAAATCATCTGAAGGCTAGATCTACTATGCATCTACTCTCCATCGAAATGG
131 AGATCTACTTCAGTGAAAACATCTGAAGGCTAGATCTGCTATGTATCTACTCTCCATCGAAATGG
33535996 AGATGCCAGA
196 AGATGCCAGA
* * * *
33536006 CTTCGACTTGTTCTCTGACAATACAGAGTTGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* *
33536071 GCGAAAATCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
33536136 AGATCT
131 AGATCT
33536142 GCTTTAGCTA
Statistics
Matches: 701, Mismatches: 47, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
203 35 0.05
204 149 0.21
205 516 0.74
206 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
AGATCTACTTCAGTGAAAACATCTGAAGGCTAGATCTGCTATGTATCTACTCTCCATCGAAATGG
AGATGCCAGA
Found at i:33539279 original size:35 final size:36
Alignment explanation
Indices: 33539240--33539311 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
33539230 ATCATCAAAT
* *
33539240 CCATACTGAGTT-AAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
*
33539275 CCATACCGAGTTAAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAAATGTAGGTATGGCATTTC
33539312 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 11 0.34
37 21 0.66
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
Found at i:33546648 original size:35 final size:35
Alignment explanation
Indices: 33546621--33546708 Score: 167
Period size: 35 Copynumber: 2.5 Consensus size: 35
33546611 CATGGCAAAG
33546621 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
33546656 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
33546691 TGTGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
33546709 ACAATAGGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.35
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:33548346 original size:35 final size:36
Alignment explanation
Indices: 33548307--33548377 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
33548297 ATCATCAAAT
* *
33548307 CCATACTGAGTT-AAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
*
33548342 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
33548378 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
CCATACCGAGTTAAAAAAATGTAGGTATGGCATTTC
Found at i:33552192 original size:19 final size:19
Alignment explanation
Indices: 33552168--33552208 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
33552158 CGTACCAACC
33552168 AACACACCTTGTGGGGAAT
1 AACACACCTTGTGGGGAAT
33552187 AACACACCTTGTGGGGAAT
1 AACACACCTTGTGGGGAAT
33552206 AAC
1 AAC
33552209 TCAACCCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (19 bp):
AACACACCTTGTGGGGAAT
Found at i:33552328 original size:23 final size:24
Alignment explanation
Indices: 33552259--33552424 Score: 203
Period size: 24 Copynumber: 7.0 Consensus size: 24
33552249 GCTTTATCAT
*
33552259 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
33552284 ATAACTTGGGAAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33552308 ATAACTGGGGCATAAG-TCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33552331 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33552354 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33552378 ATAATTGGGGCGTAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
**
33552402 ACGACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33552425 GCACTTCCTC
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
23 45 0.37
24 65 0.54
25 11 0.09
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33552331 original size:47 final size:48
Alignment explanation
Indices: 33552259--33552424 Score: 187
Period size: 47 Copynumber: 3.5 Consensus size: 48
33552249 GCTTTATCAT
* * *
33552259 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTTGGGAAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAG-CTCTTTTAATAACTTGGGCATAAGCCCTTTTA
*
33552308 ATAACTGGGGCATAAG-TCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCTCTTTTAATAACTTGGGCATAAGCCCTTTTA
* * *
33552354 ATAACTGGGGCATAAGCCCTTTTGATAA-TTGGGGCGTAAGCCCTTTTA
1 ATAACTGGGGCATAAGCTCTTTTAATAACTT-GGGCATAAGCCCTTTTA
** *
33552402 ACGACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCTCTTTT
33552425 GCACTTCCTC
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
46 21 0.20
47 43 0.42
48 29 0.28
49 10 0.10
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCTCTTTTAATAACTTGGGCATAAGCCCTTTTA
Found at i:33552499 original size:20 final size:20
Alignment explanation
Indices: 33552476--33552540 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
33552466 ATGAATGCAT
*
33552476 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAC
*
33552496 CATGTGCATATCATACATGC
1 CATGTGCATATCATACATAC
**
33552516 CATGTGCATATTGTACATAC
1 CATGTGCATATCATACATAC
33552536 CATGT
1 CATGT
33552541 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:33552623 original size:25 final size:25
Alignment explanation
Indices: 33552577--33552624 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33552567 ATATTTAAGC
* * * *
33552577 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
33552602 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33552625 CATTTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33560421 original size:23 final size:24
Alignment explanation
Indices: 33560346--33560511 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
33560336 GCTTTATCAT
*
33560346 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
33560371 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33560395 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33560418 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33560441 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33560465 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
33560490 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33560512 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
23 50 0.38
24 59 0.45
25 22 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33560421 original size:47 final size:47
Alignment explanation
Indices: 33560367--33560510 Score: 229
Period size: 47 Copynumber: 3.1 Consensus size: 47
33560357 CCTAGCCTCT
*
33560367 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
33560414 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
33560460 TTTTGATAACTGGGGCGTAAGCCCTTTTTAATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
33560508 TTT
1 TTT
33560511 TGCACTTCCT
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 23 0.25
47 46 0.51
48 12 0.13
49 10 0.11
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:33560586 original size:20 final size:20
Alignment explanation
Indices: 33560561--33560627 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
33560551 TTATGAATGC
33560561 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
33560581 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
33560601 GTCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
*
33560621 ACCATGT
1 ATCATGT
33560628 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:33560592 original size:11 final size:11
Alignment explanation
Indices: 33560561--33560614 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
33560551 TTATGAATGC
33560561 ATCATGTGCAT
1 ATCATGTGCAT
*
33560572 ATCA--TACAT
1 ATCATGTGCAT
33560581 ATCATGTGCAT
1 ATCATGTGCAT
*
33560592 ATCA--TACAT
1 ATCATGTGCAT
*
33560601 GTCATGTGCAT
1 ATCATGTGCAT
33560612 ATC
1 ATC
33560615 GTACATACCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:33567241 original size:16 final size:16
Alignment explanation
Indices: 33567220--33567252 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33567210 TAAAAGATTA
33567220 AAAGTAA-ATAATACAC
1 AAAGTAATAT-ATACAC
33567236 AAAGTAATATATACAC
1 AAAGTAATATATACAC
33567252 A
1 A
33567253 GGAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGTAATATATACAC
Found at i:33568018 original size:2 final size:2
Alignment explanation
Indices: 33568011--33568041 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33568001 ATATGTGTAG
*
33568011 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33568042 AAAGATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:33572435 original size:13 final size:13
Alignment explanation
Indices: 33572419--33572444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33572409 TATATCTTTG
33572419 CTCATATTACTGT
1 CTCATATTACTGT
33572432 CTCATATTACTGT
1 CTCATATTACTGT
33572445 TGTTAGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
CTCATATTACTGT
Found at i:33580030 original size:27 final size:27
Alignment explanation
Indices: 33580000--33580060 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
33579990 TAAGTAGGTA
33580000 TTACATTTTAATGAAACCATAAGATTT
1 TTACATTTTAATGAAACCATAAGATTT
* *
33580027 TTACATTTTAATGAAGCCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGATTT
33580054 TTACATT
1 TTACATT
33580061 CGGATTTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGATTT
Found at i:33580461 original size:3 final size:3
Alignment explanation
Indices: 33580453--33580490 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
33580443 AAATCTTTTA
* *
33580453 AAT AAT AAT AAT ATT TAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33580491 AAGATCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:33580476 original size:18 final size:17
Alignment explanation
Indices: 33580449--33580483 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
33580439 AATTAAATCT
33580449 TTTAAATAATAATAATA
1 TTTAAATAATAATAATA
33580466 TTTATAATAATAATAATA
1 TTTA-AATAATAATAATA
33580484 ATAATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATAATAATAATA
Found at i:33584016 original size:31 final size:31
Alignment explanation
Indices: 33583973--33584035 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
33583963 AAGAAAGAAC
33583973 ATTTTTTATGACAAATTCAAATAATTTTCTA
1 ATTTTTTATGACAAATTCAAATAATTTTCTA
*
33584004 ATTTTTTGTGACAAATTCAAATAATTTTCTA
1 ATTTTTTATGACAAATTCAAATAATTTTCTA
33584035 A
1 A
33584036 CTTTGGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (31 bp):
ATTTTTTATGACAAATTCAAATAATTTTCTA
Found at i:33598422 original size:7 final size:7
Alignment explanation
Indices: 33598410--33598460 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
33598400 ATTTCTAATT
33598410 ATCCCTC
1 ATCCCTC
33598417 ATCCCTC
1 ATCCCTC
33598424 ATCCCTC
1 ATCCCTC
33598431 ATCCCTC
1 ATCCCTC
33598438 ATCCCTC
1 ATCCCTC
33598445 ATCCCTC
1 ATCCCTC
33598452 ATCCCTC
1 ATCCCTC
33598459 AT
1 AT
33598461 TCATTCACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.16, C:0.55, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:33610932 original size:32 final size:32
Alignment explanation
Indices: 33610893--33610954 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
33610883 TGCTTAAAGA
*
33610893 GATGAAACCTTCTATTTTTAGCAAACTATCAT
1 GATGAAACCTCCTATTTTTAGCAAACTATCAT
33610925 GATGAAACCTCCTATTTTTAGCAAACTATC
1 GATGAAACCTCCTATTTTTAGCAAACTATC
33610955 CTCCCTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (32 bp):
GATGAAACCTCCTATTTTTAGCAAACTATCAT
Found at i:33615299 original size:3 final size:3
Alignment explanation
Indices: 33615293--33615362 Score: 97
Period size: 3 Copynumber: 23.0 Consensus size: 3
33615283 TTGTTATCAC
* *
33615293 TAT TAT T-T CTAT TAT TTT TAT TAT TACC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
33615339 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
33615363 GATTCTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:33615573 original size:3 final size:3
Alignment explanation
Indices: 33615505--33615561 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
33615495 CTGCTCTACT
* *
33615505 TTA TTA TTA CTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
33615551 TTT TTA TTA TT
1 TTA TTA TTA TT
33615562 TGACATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:33615634 original size:37 final size:35
Alignment explanation
Indices: 33615533--33615634 Score: 91
Period size: 37 Copynumber: 2.9 Consensus size: 35
33615523 TTATTACTAT
* *
33615533 TATTATTATTATTATTAATTTTTATTAT-TTGACA
1 TATTATTATTATTATTATTTTTTATTTTCTTGACA
* * * * *
33615567 TATTATTGTTATCACTATTTTTTTTCTTTCTTG-CTG
1 TATTATTATTATTATTATTTTTTAT-TTTCTTGAC-A
33615603 TCATTATTATTATTATTATTTTTCTATTTTCT
1 T-ATTATTATTATTATTATTTTT-TATTTTCT
33615635 CATTACTTAG
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
34 20 0.38
35 3 0.06
36 4 0.08
37 23 0.44
38 2 0.04
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.65
Consensus pattern (35 bp):
TATTATTATTATTATTATTTTTTATTTTCTTGACA
Found at i:33618659 original size:42 final size:42
Alignment explanation
Indices: 33618575--33619041 Score: 643
Period size: 42 Copynumber: 11.1 Consensus size: 42
33618565 GGAAAGCATC
*
33618575 CATTGCATTTAGAGGCCATGGGGTGTGGAGG-CCGATTTACTTTT
1 CATTGCATTTAGAGGCC-T-AGGTGTGGAGGTCC-ATTTACTTTT
* * * *
33618619 CATTGCATTTAAAGGCCCAGCTGTGGAGGTCCATTCACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* * * *
33618661 TATTGCATCTAGAGGCCTAGGTGTGAAGGTCCATTCACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
33618703 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* *
33618745 CATTGCATTTAGAGGCCTAAGTGTGGAGGTCCATTAACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* * * * *
33618787 TATTACATTTAGAGGCCCAGGTGTGGAGGTTCATCTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
*
33618829 CATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* *
33618871 CATTGCATTTAGAAGCC-AGGTGTGGAGGTCCATTCACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* *
33618912 CATTGCATTTAGA-GCTTAGGTGTGGAGGTCCGTTTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
*
33618953 CGTTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
* * * *
33618995 CATTCCATTTAAAAGCCTAGGTGTAGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
*
33619037 TATTG
1 CATTG
33619042 TGTTGTATAT
Statistics
Matches: 377, Mismatches: 43, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
40 2 0.01
41 70 0.19
42 287 0.76
43 2 0.01
44 16 0.04
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (42 bp):
CATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTT
Found at i:33620099 original size:145 final size:144
Alignment explanation
Indices: 33619828--33620115 Score: 375
Period size: 145 Copynumber: 2.0 Consensus size: 144
33619818 AAAAATTTTA
* *
33619828 TTTTTTCTTAAAAAAGAGAAATTTTAGATTTTAAAAAATAAAAATAATTTTTTAGTCATTTTAAA
1 TTTTTTCTTAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATAATTTTTTAATCA--TT--A
* * * * *
33619893 GGAAAGTTTAAAATTTTAAAATAAAGTTTTAATTCTTTTCAACTATTTCAAAATAAAAGCTTTGA
62 GAAAAGTTTAAAAATTTAAAACAAAATTTTAATTCTTTTCAACTATTTAAAAATAAAAGCTTTGA
*
33619958 TCTTTAAGAAAAATGAAT
127 TCATTAAGAAAAATGAAT
*
33619976 TTTTTTTTTAAAACAAGAGAAAGTTTAGATTTT-AAAAATAAAAATATATATTTTTTAATCA-T-
1 TTTTTTCTTAAAA-AAGAGAAAGTTTAGATTTTAAAAAAT-AAAA-ATA-ATTTTTTAATCATTA
* * *
33620038 GAAAATTTTAAAAATTTAAAACAAAATTTTGATTTTTTTCAACTATTTAAAAATAAAAGCTTTGA
62 GAAAAGTTTAAAAATTTAAAACAAAATTTTAATTCTTTTCAACTATTTAAAAATAAAAGCTTTGA
33620103 TCATTAAGAAAAA
127 TCATTAAGAAAAA
33620116 ATAGTATTAA
Statistics
Matches: 124, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
145 69 0.56
148 19 0.15
149 22 0.18
150 3 0.02
151 11 0.09
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (144 bp):
TTTTTTCTTAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATAATTTTTTAATCATTAGAAA
AGTTTAAAAATTTAAAACAAAATTTTAATTCTTTTCAACTATTTAAAAATAAAAGCTTTGATCAT
TAAGAAAAATGAAT
Found at i:33629436 original size:19 final size:18
Alignment explanation
Indices: 33629414--33629449 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33629404 TTTTAATTAT
33629414 ATTAAATATAAATAATAAG
1 ATTAAATATAAA-AATAAG
*
33629433 ATTAAATTTAAAAATAA
1 ATTAAATATAAAAATAA
33629450 ACTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTAAATATAAAAATAAG
Found at i:33631693 original size:17 final size:18
Alignment explanation
Indices: 33631668--33631705 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33631658 AAGTAGACAA
33631668 AAAAAAAATATAAT-ACC
1 AAAAAAAATATAATCACC
* *
33631685 AAAATAAATCTAATCACC
1 AAAAAAAATATAATCACC
33631703 AAA
1 AAA
33631706 TTTAGGGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAAAATATAATCACC
Found at i:33634065 original size:21 final size:23
Alignment explanation
Indices: 33634018--33634071 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
33634008 CATTCAAGAT
**
33634018 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
33634041 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
33634062 AAAAT-ATATA
1 AAAATAATATA
33634072 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:33634327 original size:29 final size:27
Alignment explanation
Indices: 33634295--33634380 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 27
33634285 ATGATAGTAG
33634295 AAATATAAATAGATAAATAATAATTAGAT
1 AAATATAAATAGATAAATAATAA-TA-AT
*
33634324 AAATA-ATAATAGTATTAGAATAACAA-AAT
1 AAATATA-AATAG-A-TA-AATAATAATAAT
33634353 AAATATAAATAGA-AACATAATAATAAT
1 AAATATAAATAGATAA-ATAATAATAAT
33634380 A
1 A
33634381 GCAATAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 4 0.08
28 2 0.04
29 22 0.46
30 3 0.06
31 2 0.04
32 7 0.15
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (27 bp):
AAATATAAATAGATAAATAATAATAAT
Found at i:33634333 original size:15 final size:15
Alignment explanation
Indices: 33634295--33634333 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
33634285 ATGATAGTAG
*
33634295 AAAT-ATAAATAGAT
1 AAATAATAATTAGAT
33634309 AAATAATAATTAGAT
1 AAATAATAATTAGAT
33634324 AAATAATAAT
1 AAATAATAAT
33634334 AGTATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
AAATAATAATTAGAT
Found at i:33634905 original size:5 final size:5
Alignment explanation
Indices: 33634895--33634959 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 5
33634885 TAACTAATTT
* *
33634895 AATAA ATTAA AATAA AATAA GAAT-A AATAA GAATAA GACTAA GAATAAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA -AATAA -AATAA -AAT-AA
33634944 AATAAA AATAA AATAA
1 AAT-AA AATAA AATAA
33634960 TATCTTCCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 3 0.06
5 22 0.42
6 25 0.48
7 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:33634919 original size:6 final size:6
Alignment explanation
Indices: 33634905--33634959 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
33634895 AATAAATTAA
* * *
33634905 AATAA- AATAAG AAT-A- AATAAG AATAAG ACTAAG AATAAA AATAAA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG
33634950 AATAA- AATAA
1 AATAAG AATAA
33634960 TATCTTCCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.07
5 12 0.27
6 29 0.66
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (6 bp):
AATAAG
Found at i:33634939 original size:12 final size:10
Alignment explanation
Indices: 33634895--33634959 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
33634885 TAACTAATTT
33634895 AATAAATTAA-
1 AATAAA-TAAG
33634905 AATAAAATAAG
1 AAT-AAATAAG
33634916 AATAAATAAG
1 AATAAATAAG
33634926 AATAAGACTAAG
1 AATAA-A-TAAG
*
33634938 AATAAA-AAT
1 AATAAATAAG
33634947 AA-AAATAA-
1 AATAAATAAG
33634955 AATAA
1 AATAA
33634960 TATCTTCCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
8 5 0.10
9 8 0.17
10 18 0.38
11 8 0.17
12 9 0.19
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (10 bp):
AATAAATAAG
Found at i:33634940 original size:22 final size:21
Alignment explanation
Indices: 33634895--33634959 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
33634885 TAACTAATTT
33634895 AATAAATTAAAATAAAATAAG
1 AATAAATTAAAATAAAATAAG
*
33634916 AATAAA-TAAGAATAAGACTAAG
1 AATAAATTAA-AATAA-AATAAG
*
33634938 AATAAAAATAAAAATAAAATAA
1 AAT--AAATTAAAATAAAATAA
33634960 TATCTTCCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 11 0.31
22 8 0.22
23 4 0.11
24 8 0.22
25 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (21 bp):
AATAAATTAAAATAAAATAAG
Done.