Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 110 of 211
Found at i:34675892 original size:50 final size:50
Alignment explanation
Indices: 34675601--34675892 Score: 334
Period size: 50 Copynumber: 5.9 Consensus size: 50
34675591 GATAATAACA
* ** * * * *
34675601 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
* * * * * ** *
34675650 TGCCAATTCCATATCCCAAATATAGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
* ** ** * * *
34675700 TGCCCATGCCATGTCTTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
* * *
34675750 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
34675800 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
*
34675850 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
34675893 TACCCAAATG
Statistics
Matches: 204, Mismatches: 38, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
49 35 0.17
50 169 0.83
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCAG
Found at i:34680400 original size:40 final size:40
Alignment explanation
Indices: 34680356--34680566 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
34680346 CTCGTGTTTC
* *
34680356 TACTTCGGTACCCCTGAATTCACATATGTTCCCCTATTTG
1 TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
* * * * *
34680396 TACTTTGCTACGCCTGAATTCACATATGTGCCCCTATTTT
1 TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
* * *
34680436 TACTTTGGTACCCTTGAATGCACATATGTACCCCTATTTG
1 TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
* * * *
34680476 TACTTCGGTACCCCTGAATGCATATACGTGCCCTTGTTTG
1 TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
* *
34680516 TACTTCGGTACCCCTGAATGCACATATGTGCCCTTGTTTG
1 TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
*
34680556 TACTTCAGTAC
1 TACTTCGGTAC
34680567 TTATGAAAGC
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (40 bp):
TACTTCGGTACCCCTGAATGCACATATGTGCCCCTATTTG
Found at i:34694645 original size:26 final size:26
Alignment explanation
Indices: 34694597--34694657 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
34694587 CCTGTAACTG
*
34694597 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTAATACATGCTATGATA
* * *
34694623 TTCTAAAACTAATATATGTTATGATA
1 TTCTGAAACTAATACATGCTATGATA
34694649 TTCTGAAAC
1 TTCTGAAAC
34694658 AACTGTAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (26 bp):
TTCTGAAACTAATACATGCTATGATA
Found at i:34697901 original size:11 final size:11
Alignment explanation
Indices: 34697885--34697921 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
34697875 CTTCATTCAT
*
34697885 CATCCCTTAAG
1 CATCCCTCAAG
34697896 CATCCCTCAAG
1 CATCCCTCAAG
34697907 CATCCCTCAAG
1 CATCCCTCAAG
34697918 CATC
1 CATC
34697922 ATTCTCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.43, G:0.08, T:0.22
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:34709334 original size:16 final size:17
Alignment explanation
Indices: 34709313--34709347 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
34709303 ACATCATCCA
34709313 TCATCTCTCATC-CCTC
1 TCATCTCTCATCTCCTC
34709329 TCATCTCTCATCTCCTC
1 TCATCTCTCATCTCCTC
34709346 TC
1 TC
34709348 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (17 bp):
TCATCTCTCATCTCCTC
Found at i:34716634 original size:13 final size:13
Alignment explanation
Indices: 34716616--34716640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34716606 CATACGGGCA
34716616 TGTGGCTTGGCCG
1 TGTGGCTTGGCCG
34716629 TGTGGCTTGGCC
1 TGTGGCTTGGCC
34716641 ATATGACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.44, T:0.32
Consensus pattern (13 bp):
TGTGGCTTGGCCG
Found at i:34726460 original size:31 final size:30
Alignment explanation
Indices: 34726403--34726462 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34726393 TGCCTTTGAA
* *
34726403 AATATTTACAAAAAGACACATCAAATTTTT
1 AATATTTACAAAAAAACACACCAAATTTTT
*
34726433 AATATTTACAAAAAAA-ACAACCAAAATTTT
1 AATATTTACAAAAAAACAC-ACCAAATTTTT
34726463 CAAAAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (30 bp):
AATATTTACAAAAAAACACACCAAATTTTT
Found at i:34728907 original size:27 final size:27
Alignment explanation
Indices: 34728879--34728962 Score: 88
Period size: 25 Copynumber: 3.3 Consensus size: 27
34728869 ACATAATCGG
* *
34728879 GAAGCTCTCTCTCGAGCCATATAACGG
1 GAAGCTCTATCTCGAGCCATATAACGA
* *
34728906 GAAGCTC-ATAT-GAGCCATGTAACGA
1 GAAGCTCTATCTCGAGCCATATAACGA
34728931 GAAGCT-TATC-C-AGGCCATATAACGA
1 GAAGCTCTATCTCGA-GCCATATAACGA
34728956 GAAGCTC
1 GAAGCTC
34728963 ATAAGAGCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
24 1 0.02
25 37 0.79
26 2 0.04
27 7 0.15
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (27 bp):
GAAGCTCTATCTCGAGCCATATAACGA
Found at i:34728928 original size:25 final size:25
Alignment explanation
Indices: 34728892--34729057 Score: 116
Period size: 25 Copynumber: 6.7 Consensus size: 25
34728882 GCTCTCTCTC
34728892 GAGCCATATAACGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* *
34728917 GAGCCATGTAACGAGAAGCT--TAT
1 GAGCCATATAACGGGAAGCTCATAT
* * *
34728940 CCAGGCCATATAACGAGAAGCTCATAA
1 -GA-GCCATATAACGGGAAGCTCATAT
* * *
34728967 GAGCCATA-ATCAGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATAT
*
34728991 GAGCCA-ATAACGGGTAA-CTC-TAAA
1 GAGCCATATAACGGG-AAGCTCAT-AT
34729015 GAGCCAT-TAATCGGGAAGCTCCGA-AT
1 GAGCCATATAA-CGGGAAGCT-C-ATAT
*
34729041 -AGCCATATATCGGGAAG
1 GAGCCATATAACGGGAAG
34729058 TTCAAGCGAG
Statistics
Matches: 110, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.05
24 36 0.33
25 62 0.56
26 5 0.05
27 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:34736511 original size:111 final size:110
Alignment explanation
Indices: 34736318--34736538 Score: 433
Period size: 111 Copynumber: 2.0 Consensus size: 110
34736308 GCTAAAAATA
34736318 GCAAAAAATCAGCAGTCATATACCCCCTTGGCCAGCCACACATGTGGCAAGTTTGAATGTTTCAA
1 GCAAAAAATCAGCAGTCATATACCCCCTTGGCCAGCCACACATGTGGCAAGTTTGAATGTTTCAA
34736383 ACCTGCTAAATTTAGCTTGGGGTGAATCTTTAAAGGCACAAAGAG
66 ACCTGCTAAATTTAGCTTGGGGTGAATCTTTAAAGGCACAAAGAG
34736428 GCAAAAAATCAGCAGTCATATACCCCCCTTGGCCAGCCACACATGTGGCAAGTTTGAATGTTTCA
1 GCAAAAAATCAGCAGTCATATA-CCCCCTTGGCCAGCCACACATGTGGCAAGTTTGAATGTTTCA
34736493 AACCTGCTAAATTTAGCTTGGGGTGAATCTTTAAAGGCACAAAGAG
65 AACCTGCTAAATTTAGCTTGGGGTGAATCTTTAAAGGCACAAAGAG
34736539 TGGAGGGGTT
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 22 0.20
111 88 0.80
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (110 bp):
GCAAAAAATCAGCAGTCATATACCCCCTTGGCCAGCCACACATGTGGCAAGTTTGAATGTTTCAA
ACCTGCTAAATTTAGCTTGGGGTGAATCTTTAAAGGCACAAAGAG
Found at i:34736963 original size:26 final size:25
Alignment explanation
Indices: 34736934--34736995 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
34736924 TTTACTATAA
34736934 AATTAATTAAAATTAAATATTTTAAT
1 AATTAATTAAAATTAAATATTTT-AT
* * *
34736960 AATTTAAGTACAATTAATTATTTTAT
1 AA-TTAATTAAAATTAAATATTTTAT
34736986 AATTATATTA
1 AATTA-ATTA
34736996 TATTTTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 3 0.10
26 9 0.30
27 18 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTAATTAAAATTAAATATTTTAT
Found at i:34736966 original size:27 final size:26
Alignment explanation
Indices: 34736936--34736989 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
34736926 TACTATAAAA
*
34736936 TTAATTAAAATTAAATATTTTAATAAT
1 TTAAGTAAAATTAAATATTTT-ATAAT
* *
34736963 TTAAGTACAATTAATTATTTTATAAT
1 TTAAGTAAAATTAAATATTTTATAAT
34736989 T
1 T
34736990 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TTAAGTAAAATTAAATATTTTATAAT
Found at i:34740138 original size:16 final size:16
Alignment explanation
Indices: 34740117--34740147 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34740107 TTAAAAAGCT
34740117 ATATGAATTTTTTTAA
1 ATATGAATTTTTTTAA
34740133 ATATGAATTTTTTTA
1 ATATGAATTTTTTTA
34740148 TTTAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
ATATGAATTTTTTTAA
Found at i:34747637 original size:13 final size:13
Alignment explanation
Indices: 34747603--34747640 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
34747593 TTACAAGACT
34747603 TGTTATAATTG-A
1 TGTTATAATTGAA
34747615 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
34747628 TGTTATAATTGAA
1 TGTTATAATTGAA
34747641 AAATGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:34748399 original size:9 final size:10
Alignment explanation
Indices: 34748370--34748414 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
34748360 TTTACATACA
34748370 TAATAAATA-
1 TAATAAATAT
*
34748379 TAA-ATATAT
1 TAATAAATAT
34748388 TAATAAAT-T
1 TAATAAATAT
34748397 TAATAAATAT
1 TAATAAATAT
34748407 ATAATAAA
1 -TAATAAA
34748415 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.13
9 15 0.50
10 4 0.13
11 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAAATAT
Found at i:34751161 original size:49 final size:49
Alignment explanation
Indices: 34751100--34751196 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
34751090 TGAGTTATAA
* * * *
34751100 TTTTATACAGTGTTGAGT-TTTTTATTCATGATATTGAACTTAATTTTAG
1 TTTTATAAAGTGTT-ACTCTTTTGATTCATGATATTAAACTTAATTTTAG
*
34751149 TTTTATAAAGTGTTCCTCTTTTGATTCATGATATTAAACTTAATTTTA
1 TTTTATAAAGTGTTACTCTTTTGATTCATGATATTAAACTTAATTTTA
34751197 TTCTGTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (49 bp):
TTTTATAAAGTGTTACTCTTTTGATTCATGATATTAAACTTAATTTTAG
Found at i:34752700 original size:10 final size:9
Alignment explanation
Indices: 34752673--34752699 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
34752663 TTAATGTTTA
34752673 AAATTTTTT
1 AAATTTTTT
34752682 AAATTTTTT
1 AAATTTTTT
34752691 AAATTTTTT
1 AAATTTTTT
34752700 TTTTCATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AAATTTTTT
Found at i:34752915 original size:18 final size:17
Alignment explanation
Indices: 34752885--34752918 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34752875 AATTTTAAGA
*
34752885 ATAAATGTTAAATTGAT
1 ATAAATGTAAAATTGAT
34752902 ATAATATGTAAAATTGA
1 ATAA-ATGTAAAATTGA
34752919 AGGTTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATAAATGTAAAATTGAT
Found at i:34753105 original size:121 final size:121
Alignment explanation
Indices: 34752979--34753211 Score: 430
Period size: 121 Copynumber: 1.9 Consensus size: 121
34752969 GTAAGTATTG
* *
34752979 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGAATTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
34753044 ATTATTTATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
*
34753100 TAGTATTATATATTATGAATTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 TAGTATTATATATTATGAATTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
34753165 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
34753212 ATGATTAAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 108 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (121 bp):
TAGTATTATATATTATGAATTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
Found at i:34753177 original size:18 final size:18
Alignment explanation
Indices: 34753143--34753189 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
34753133 ATAAGAATAT
34753143 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
34753161 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
34753179 TTAAATTATAT
1 TTAAATTATAT
34753190 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:34753253 original size:44 final size:40
Alignment explanation
Indices: 34753140--34753256 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
34753130 CATATAAGAA
* *
34753140 TATTTAATATTAATAATTTTATT-AAATTATATATTTTTAT
1 TATTT-ATATTAATAATATTATTAAAATTATAAATTTTTAT
*
34753180 TAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 T-ATTTATA-TTAATAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTAT
*
34753229 TATTTATATTAATAATCTTATTAAAATT
1 TATTTATATTAATAATATTATTAAAATT
34753257 TAATAACAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
40 4 0.06
41 11 0.18
42 3 0.05
43 1 0.02
44 9 0.15
45 4 0.06
46 4 0.06
47 9 0.15
48 11 0.18
49 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TATTTATATTAATAATATTATTAAAATTATAAATTTTTAT
Found at i:34753443 original size:16 final size:16
Alignment explanation
Indices: 34753422--34753474 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
34753412 ATGATTATTT
*
34753422 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
34753438 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
34753454 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
34753470 ATTAC
1 ATTAC
34753475 AGCGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:34756314 original size:43 final size:43
Alignment explanation
Indices: 34756264--34756353 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
34756254 ATCATACTAG
* *
34756264 CACATAGTGCCTCATCAGACGAA-CAGAAGCAAATATAATAGCA
1 CACATAGTGCATCAACAGAC-AAGCAGAAGCAAATATAATAGCA
* * * *
34756307 CACATAGTGCATCAACAGACAAGCCGAAGTAAGTATACTAGCA
1 CACATAGTGCATCAACAGACAAGCAGAAGCAAATATAATAGCA
34756350 CACA
1 CACA
34756354 AAATGCATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 2 0.05
43 38 0.95
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (43 bp):
CACATAGTGCATCAACAGACAAGCAGAAGCAAATATAATAGCA
Found at i:34756393 original size:19 final size:19
Alignment explanation
Indices: 34756369--34756454 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
34756359 CATACAAGCG
34756369 AAAGTGCATCA-TGGCACAC
1 AAAGTGCAT-ATTGGCACAC
*
34756388 AAAGTGCATATTGGCACAT
1 AAAGTGCATATTGGCACAC
* *
34756407 GAAGTGCATATTGACACAC
1 AAAGTGCATATTGGCACAC
* ** *
34756426 GAAGTGCATCCTGGCAAAC
1 AAAGTGCATATTGGCACAC
*
34756445 AAAGTACATA
1 AAAGTGCATA
34756455 AACCCATACA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
18 1 0.02
19 54 0.98
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (19 bp):
AAAGTGCATATTGGCACAC
Found at i:34757225 original size:149 final size:151
Alignment explanation
Indices: 34756962--34757263 Score: 473
Period size: 149 Copynumber: 2.0 Consensus size: 151
34756952 TTTTTCATTT
* * *
34756962 TATTTAGTTTAGTCCCTATACTCGGGATACACATATCTTTTTTATATTCAACATTGGATAAAAAT
1 TATTCAGTTTAGTCCCTATACTCGGGATACACA-ATCTTTTTTATATTCAACATCGAATAAAAAT
* **
34757027 TTGATTTCACATTCTTTCATTAGGGACCTTATACTTTTCATCTACAACATAATCTCATGGAAATT
65 CTGATTTCACATTCTTTCATTAGGGACAATATACTTTTCATCTACAACATAATCTCATGGAAATT
* *
34757092 TTCAATTTATTTAATTTAGTCC
130 TTAAATTTATTCAATTTAGTCC
*
34757114 TATTCAGTTTAGTCCCTATACTCGGGATACAC-ATC-TTTTTATATTCAACATCGAATTAAAATC
1 TATTCAGTTTAGTCCCTATACTCGGGATACACAATCTTTTTTATATTCAACATCGAATAAAAATC
* * *
34757177 TGATTTCACATTCTTTCATTAGGGACAATATACTTTTCATCTATAACATAATCTCATGGCACTTT
66 TGATTTCACATTCTTTCATTAGGGACAATATACTTTTCATCTACAACATAATCTCATGGAAATTT
34757242 TAAATTTATTCAATTTAGTCC
131 TAAATTTATTCAATTTAGTCC
34757263 T
1 T
34757264 TAATGTTGCA
Statistics
Matches: 138, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
149 104 0.75
150 3 0.02
152 31 0.22
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (151 bp):
TATTCAGTTTAGTCCCTATACTCGGGATACACAATCTTTTTTATATTCAACATCGAATAAAAATC
TGATTTCACATTCTTTCATTAGGGACAATATACTTTTCATCTACAACATAATCTCATGGAAATTT
TAAATTTATTCAATTTAGTCC
Found at i:34761692 original size:73 final size:75
Alignment explanation
Indices: 34761573--34761768 Score: 247
Period size: 73 Copynumber: 2.6 Consensus size: 75
34761563 TAATTGCTTA
* * *
34761573 TATTGAGTATAAGTATGAAATTATATATGTATATGTTAAATTCGAATATGTATATGTATACAAGT
1 TATTGAATATAAGTATGAAATTATATA-GTATATGTTAGATTCGAATATGTATATATATACAAGT
34761638 ATAAGTACTTG
65 ATAAGTACTTG
* *
34761649 T-TTCGAATATAAGTAT-AAATTATATA-TATATGTTAGATTCGAATATGTATATATGTACATGT
1 TATT-GAATATAAGTATGAAATTATATAGTATATGTTAGATTCGAATATGTATATATATACAAGT
*
34761711 ATAAGTTCTTG
65 ATAAGTACTTG
** *
34761722 TATTGAA-ATGGGGTATGAAATTATATAGGTATATGTGAGATTCGAAT
1 TATTGAATAT-AAGTATGAAATTATATA-GTATATGTTAGATTCGAAT
34761769 GTTAAATGTA
Statistics
Matches: 105, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
72 2 0.02
73 50 0.48
74 12 0.11
75 12 0.11
76 29 0.28
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (75 bp):
TATTGAATATAAGTATGAAATTATATAGTATATGTTAGATTCGAATATGTATATATATACAAGTA
TAAGTACTTG
Found at i:34761790 original size:18 final size:18
Alignment explanation
Indices: 34761767--34761804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34761757 TGAGATTCGA
*
34761767 ATGTTA-AATGTACATAGT
1 ATGTTATAA-GTAAATAGT
34761785 ATGTTATAAGTAAATAGT
1 ATGTTATAAGTAAATAGT
34761803 AT
1 AT
34761805 AATAATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (18 bp):
ATGTTATAAGTAAATAGT
Found at i:34764218 original size:45 final size:45
Alignment explanation
Indices: 34764162--34764289 Score: 170
Period size: 45 Copynumber: 2.8 Consensus size: 45
34764152 TTTGACTTGA
* * * *
34764162 GAAATGAGAAAGACCATGGTTGAAAGATACCATGACATTATACCTG
1 GAAACGAGAAAGACCATAGTTGAAAGATACTATGACACTATA-CTG
*
34764208 G-AACGAGAAAGACCATAGTTGAAAGATACTATGGCACTATACTG
1 GAAACGAGAAAGACCATAGTTGAAAGATACTATGACACTATACTG
*
34764252 GAAATGA-ATAAGACCATAGTTGAAAGATACTATGACAC
1 GAAACGAGA-AAGACCATAGTTGAAAGATACTATGACAC
34764290 AGCTTCGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 5 0.07
45 67 0.92
46 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (45 bp):
GAAACGAGAAAGACCATAGTTGAAAGATACTATGACACTATACTG
Found at i:34771951 original size:25 final size:25
Alignment explanation
Indices: 34771923--34772018 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
34771913 ACACGAGAAT
*
34771923 AATGCTTACACAAGCTGTGACGATA
1 AATGCTCACACAAGCTGTGACGATA
* * *
34771948 AATGCTCATACAAGTTGTGACTATA
1 AATGCTCACACAAGCTGTGACGATA
** *
34771973 AATGCTCACATGAGCTGTGA-AATA
1 AATGCTCACACAAGCTGTGACGATA
* *
34771997 AGCTTGCTCACACGAGCTGTGA
1 A--ATGCTCACACAAGCTGTGA
34772019 AGAATTTGCA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.07
25 37 0.64
26 17 0.29
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTGACGATA
Found at i:34777052 original size:82 final size:80
Alignment explanation
Indices: 34776949--34777138 Score: 224
Period size: 82 Copynumber: 2.4 Consensus size: 80
34776939 ATAAATGATT
*
34776949 GAAATACCCTCG-AAGGGTAAAATGACCGAAATACCTTCG-AAGGCTAAAATGACCAAAATACCC
1 GAAATACCCTCGTAA-GGTAAAATGACCGAAATACCCTCGAAAGG-TAAAATGACCAAAATACCC
34777012 TCGAAAGGTAAAAGTGACC
64 -CGAAAGGTAAAA-TGACC
* * * * *
34777031 GAAATACCCTCGTAAGGTAAAATGATCAAAATACCCTCGAAAGGTAAAATGACCGAGATACCCCT
1 GAAATACCCTCGTAAGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCAAAATACCCCG
* * *
34777096 TAGGGTAAGATGACC
66 AAAGGTAAAATGACC
*
34777111 AAAATAGCCCT-GTAAGGTAAAATGACCG
1 GAAATA-CCCTCGTAAGGTAAAATGACCG
34777139 TAATGCCCCT
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 25 0.27
81 12 0.13
82 50 0.54
83 6 0.06
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (80 bp):
GAAATACCCTCGTAAGGTAAAATGACCGAAATACCCTCGAAAGGTAAAATGACCAAAATACCCCG
AAAGGTAAAATGACC
Found at i:34777054 original size:55 final size:54
Alignment explanation
Indices: 34776950--34777138 Score: 258
Period size: 55 Copynumber: 3.5 Consensus size: 54
34776940 TAAATGATTG
* *
34776950 AAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCG-AAGGCTAAAATGACCA
1 AAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCGTAAGG-TAAAATGACCA
*
34777004 AAATACCCTCGAAAGGTAAAAGTGACCGAAATACCCTCGTAAGGTAAAATGATCA
1 AAATACCCTCGAAAGGTAAAA-TGACCGAAATACCCTCGTAAGGTAAAATGACCA
* * * *
34777059 AAATACCCTCGAAAGGTAAAATGACCGAGATACCC-CTTAGGGTAAGATGACCA
1 AAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCGTAAGGTAAAATGACCA
*
34777112 AAATAGCCCT-GTAAGGTAAAATGACCG
1 AAATA-CCCTCGAAAGGTAAAATGACCG
34777139 TAATGCCCCT
Statistics
Matches: 123, Mismatches: 9, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
53 35 0.28
54 37 0.30
55 47 0.38
56 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATACCCTCGAAAGGTAAAATGACCGAAATACCCTCGTAAGGTAAAATGACCA
Found at i:34777148 original size:27 final size:27
Alignment explanation
Indices: 34776949--34777138 Score: 217
Period size: 27 Copynumber: 7.0 Consensus size: 27
34776939 ATAAATGATT
34776949 GAAATACCCTCG-AAGGGTAAAATGACC
1 GAAATACCCTCGTAA-GGTAAAATGACC
*
34776976 GAAATACCTTCG-AAGGCTAAAATGACC
1 GAAATACCCTCGTAAGG-TAAAATGACC
* *
34777003 AAAATACCCTCGAAAGGTAAAAGTGACC
1 GAAATACCCTCGTAAGGTAAAA-TGACC
*
34777031 GAAATACCCTCGTAAGGTAAAATGATC
1 GAAATACCCTCGTAAGGTAAAATGACC
* *
34777058 AAAATACCCTCGAAAGGTAAAATGACC
1 GAAATACCCTCGTAAGGTAAAATGACC
* * * *
34777085 GAGATACCC-CTTAGGGTAAGATGACC
1 GAAATACCCTCGTAAGGTAAAATGACC
*
34777111 AAAATAGCCCT-GTAAGGTAAAATGACC
1 GAAATA-CCCTCGTAAGGTAAAATGACC
34777138 G
1 G
34777139 TAATGCCCCT
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.14
27 89 0.65
28 29 0.21
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (27 bp):
GAAATACCCTCGTAAGGTAAAATGACC
Found at i:34777148 original size:53 final size:51
Alignment explanation
Indices: 34776950--34777162 Score: 212
Period size: 55 Copynumber: 4.0 Consensus size: 51
34776940 TAAATGATTG
* * ** *
34776950 AAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCGAAGGCTAAAATGACCA
1 AAATACCCTCGAAAGGTAAAATGACCG-AATACC-CCTTAGGGT-AAATGACCA
* * *
34777004 AAATACCCTCGAAAGGTAAAAGTGACCGAAATACCCTCGTAAGGTAAAATGATCA
1 AAATACCCTCGAAAGGTAAAA-TGACCG-AATACCC-CTTAGGGT-AAATGACCA
34777059 AAATACCCTCGAAAGGTAAAATGACCGAGATACCCCTTAGGGTAAGATGACCA
1 AAATACCCTCGAAAGGTAAAATGACCGA-ATACCCCTTAGGGTAA-ATGACCA
* * *
34777112 AAATAGCCCT-GTAAGGTAAAATGACCGTAATGCCCCTAGAGGGTAAATGAC
1 AAATA-CCCTCGAAAGGTAAAATGACCG-AATACCCCT-TAGGGTAAATGAC
34777163 TATTTTGCCC
Statistics
Matches: 140, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
52 2 0.01
53 46 0.33
54 44 0.31
55 48 0.34
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (51 bp):
AAATACCCTCGAAAGGTAAAATGACCGAATACCCCTTAGGGTAAATGACCA
Found at i:34777466 original size:32 final size:32
Alignment explanation
Indices: 34777417--34777567 Score: 169
Period size: 32 Copynumber: 4.7 Consensus size: 32
34777407 GCAATGCTGT
*
34777417 TGATGGCTTTGTGCCGATCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATCACCGTTAC
* * * *
34777449 TGATGGCTGTGTACCGATTATATCA-CTTCTAC
1 TGATGGCTTTGTGCCGATCATATCACCGT-TAC
* *
34777481 TGATGGCTTTGTGTCGATCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATCACCGTTAC
* * * *
34777513 TGATGGCTATGTGCCGGTCATATCACTGCTAC
1 TGATGGCTTTGTGCCGATCATATCACCGTTAC
* *
34777545 TGGTGGCTTTGTGCCAATCATAT
1 TGATGGCTTTGTGCCGATCATAT
34777568 GATTGTATTT
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
31 2 0.02
32 92 0.96
33 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATCACCGTTAC
Found at i:34777518 original size:64 final size:64
Alignment explanation
Indices: 34777417--34777567 Score: 230
Period size: 64 Copynumber: 2.4 Consensus size: 64
34777407 GCAATGCTGT
* * *
34777417 TGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTGTGTACCGATTATATCACTTCTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTATGTACCGATCATATCACTGCTAC
* * *
34777481 TGATGGCTTTGTGTCGATCATATTACCGTTACTGATGGCTATGTGCCGGTCATATCACTGCTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTATGTACCGATCATATCACTGCTAC
* *
34777545 TGGTGGCTTTGTGCCAATCATAT
1 TGATGGCTTTGTGCCGATCATAT
34777568 GATTGTATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTATGTACCGATCATATCACTGCTAC
Found at i:34783297 original size:43 final size:43
Alignment explanation
Indices: 34783231--34783317 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
34783221 CGTTGTGGAA
*
34783231 AGCATGTTGTGTGATATTGATGCTTACTGTTAATTTGAAAAAT
1 AGCAAGTTGTGTGATATTGATGCTTACTGTTAATTTGAAAAAT
34783274 AGCAAGTTGTGTGATATTGATGCTTACTGTTAATTTGAAAAAT
1 AGCAAGTTGTGTGATATTGATGCTTACTGTTAATTTGAAAAAT
34783317 A
1 A
34783318 TGTACATCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (43 bp):
AGCAAGTTGTGTGATATTGATGCTTACTGTTAATTTGAAAAAT
Found at i:34783696 original size:19 final size:20
Alignment explanation
Indices: 34783657--34783698 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
34783647 GATGAGTAGG
34783657 ATCATTTTACTAAAATCTGC
1 ATCATTTTACTAAAATCTGC
*
34783677 ATCATTTTAC-AAAATGTGC
1 ATCATTTTACTAAAATCTGC
34783696 ATC
1 ATC
34783699 GACATGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (20 bp):
ATCATTTTACTAAAATCTGC
Found at i:34784379 original size:16 final size:18
Alignment explanation
Indices: 34784341--34784380 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
34784331 GAATCCTTGT
*
34784341 TAAAATAAAATATAGTGG
1 TAAAATAAAATATAGTAG
34784359 TAAAATAAAATA-AG-AG
1 TAAAATAAAATATAGTAG
34784375 TAAAAT
1 TAAAAT
34784381 CCATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (18 bp):
TAAAATAAAATATAGTAG
Found at i:34785441 original size:36 final size:36
Alignment explanation
Indices: 34785394--34785474 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
34785384 TATGGTATTA
34785394 AAATAAATTTTGAATTGGCAATTTATGTTATTTGAAT
1 AAAT-AATTTTGAATTGGCAATTTATGTTATTTGAAT
34785431 AAATAATTTTGAATTGGCAATTTATGTTATTTGAAT
1 AAATAATTTTGAATTGGCAATTTATGTTATTTGAAT
34785467 AAATAATT
1 AAATAATT
34785475 AGGTTCAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 40 0.91
37 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (36 bp):
AAATAATTTTGAATTGGCAATTTATGTTATTTGAAT
Found at i:34787912 original size:27 final size:27
Alignment explanation
Indices: 34787824--34787899 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
34787814 TAAATGACTA
*
34787824 AAATACCCTCAAAGGGTAAAATTACCG
1 AAATACCCTCGAAGGGTAAAATTACCG
34787851 AAATACCCTCGAAGGGTAAAATTACCG
1 AAATACCCTCGAAGGGTAAAATTACCG
34787878 AAATACCCTCGAAGGGTAAAAT
1 AAATACCCTCGAAGGGTAAAAT
34787900 GACTGTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATTACCG
Found at i:34788416 original size:27 final size:28
Alignment explanation
Indices: 34788378--34788438 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
34788368 GTCCATTTGC
34788378 CACTGTTACTGTA-TGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
34788405 CACTGATT-CTGTATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
34788433 CACTGT
1 CACTGT
34788439 ATTGTTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.34
28 21 0.66
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:34797094 original size:30 final size:31
Alignment explanation
Indices: 34797026--34797084 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
34797016 CACCCTTAAA
** *
34797026 ATATTTACACTATTGGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
34797057 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
34797085 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:34797915 original size:45 final size:47
Alignment explanation
Indices: 34797855--34797947 Score: 109
Period size: 49 Copynumber: 2.0 Consensus size: 47
34797845 CATATAGAAC
* * * *
34797855 TACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTTAT
1 TACACTTCATCTATTTATATTATTAGAATAAGATGTTTCAACCTTAT
*
34797900 TACACTTCATCTATTTGATATTGATTAGAATAAGATGTTTCATCCTTA
1 TACACTTCATCTATTT-ATATT-ATTAGAATAAGATGTTTCAACCTTA
34797948 CTAAACTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
45 14 0.36
47 4 0.10
49 21 0.54
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (47 bp):
TACACTTCATCTATTTATATTATTAGAATAAGATGTTTCAACCTTAT
Found at i:34797974 original size:49 final size:49
Alignment explanation
Indices: 34797875--34797974 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 49
34797865 TTATTTTATT
* * * * *
34797875 TTAGAATAAGGTTTTTCAACCTTATTACACTTCATCTATTTGATATTGA
1 TTAGAATAAGATGTTTCAACCTTACTAAACTTCATCTATTAGATATTGA
*
34797924 TTAGAATAAGATGTTTCATCCTTACTAAAC-TCATTCTATTAGA-ATATGA
1 TTAGAATAAGATGTTTCAACCTTACTAAACTTCA-TCTATTAGATAT-TGA
34797973 TT
1 TT
34797975 TTACAAGCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 5 0.12
49 38 0.88
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (49 bp):
TTAGAATAAGATGTTTCAACCTTACTAAACTTCATCTATTAGATATTGA
Found at i:34809280 original size:20 final size:20
Alignment explanation
Indices: 34809255--34809294 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34809245 AGTTTGATTT
34809255 GTTAAAAGAC-TTTTAACTTG
1 GTTAAAA-ACATTTTAACTTG
*
34809275 GTTAAAATCATTTTAACTTG
1 GTTAAAAACATTTTAACTTG
34809295 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
GTTAAAAACATTTTAACTTG
Found at i:34809425 original size:22 final size:24
Alignment explanation
Indices: 34809397--34809440 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
34809387 ATTTTGTTCA
34809397 ACTTTAAATT-TTAT-TCAAAAAT
1 ACTTTAAATTGTTATATCAAAAAT
*
34809419 ACTTTAATTTGTTATATCAAAA
1 ACTTTAAATTGTTATATCAAAA
34809441 TATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
ACTTTAAATTGTTATATCAAAAAT
Found at i:34818248 original size:17 final size:18
Alignment explanation
Indices: 34818223--34818260 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
34818213 AATTAGTATA
* *
34818223 AAATATTAACAATTCAAT
1 AAATATTAAAAATTAAAT
34818241 AAAT-TTAAAAATTAAAT
1 AAATATTAAAAATTAAAT
34818258 AAA
1 AAA
34818261 ATTGAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATTAAAAATTAAAT
Found at i:34818986 original size:16 final size:15
Alignment explanation
Indices: 34818961--34818994 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
34818951 AAAGTTGATA
*
34818961 ATAATCAATATATATT
1 ATAATAAATATA-ATT
34818977 ATAATAAATATAATT
1 ATAATAAATATAATT
34818992 ATA
1 ATA
34818995 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:34819116 original size:30 final size:30
Alignment explanation
Indices: 34819059--34819117 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34819049 TGCCTTTGAA
* * *
34819059 AATATTTATAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
34819089 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
34819118 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:34822868 original size:13 final size:13
Alignment explanation
Indices: 34822850--34822876 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34822840 TTTCTAAATA
34822850 TGGACATAGGCAT
1 TGGACATAGGCAT
34822863 TGGACATAGGCAT
1 TGGACATAGGCAT
34822876 T
1 T
34822877 AAGTTAATAC
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:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (13 bp):
TGGACATAGGCAT
Found at i:34835763 original size:16 final size:16
Alignment explanation
Indices: 34835739--34835771 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34835729 TTCTACTGTT
*
34835739 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
34835755 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
34835771 T
1 T
34835772 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:34835807 original size:45 final size:44
Alignment explanation
Indices: 34835750--34835859 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
34835740 GGATTAGAGG
34835750 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAAT-GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
34835795 TGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATG-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
34835839 TG----GAATAGAGGTGTAATAGCA
1 TGTAATGAATAGAGGTGTAATAGCA
34835860 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 19 0.34
45 21 0.38
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAATGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:34835857 original size:39 final size:40
Alignment explanation
Indices: 34835753--34835859 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 40
34835743 TTAGAGGTGT
34835753 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * ***
34835793 AATGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG----G-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
34835837 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
34835860 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 19 0.35
45 15 0.28
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:34836013 original size:25 final size:25
Alignment explanation
Indices: 34835981--34836035 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
34835971 TAATTTAATC
*
34835981 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
34836005 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
34836030 ATATAT
1 ATATAT
34836036 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:34836268 original size:88 final size:88
Alignment explanation
Indices: 34836176--34836389 Score: 279
Period size: 88 Copynumber: 2.4 Consensus size: 88
34836166 AATTTAAAAT
* * * *
34836176 AATTATAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
34836241 TTTAAT-A-ATATATAATTTCATAA
64 TTTAATAAGATATATAATTTCATAA
* *
34836264 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAA-ATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
34836329 TTTAATAATGATATATAATTTCATAA
64 TTTAATAA-GATATATAATTTCATAA
*
34836355 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
34836390 CTAAAATCAA
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
88 59 0.54
89 5 0.05
91 27 0.25
92 18 0.17
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (88 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAAGATATATAATTTCATAA
Found at i:34836349 original size:44 final size:43
Alignment explanation
Indices: 34836210--34836349 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
34836200 TATGAATTTG
* *
34836210 TATAATTTAAAATAATTATTATTACATATAATTTAATAATATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
* * * * ** *
34836253 TA-ATTTCATAAAATTATTGATAAT-AAT-TTTTCTTATATGAATTTA
1 TATAATT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
34836298 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
34836342 TATAATTT
1 TATAATTT
34836350 CATAAAATTC
Statistics
Matches: 71, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
42 5 0.07
43 10 0.14
44 38 0.54
45 13 0.18
46 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:34842605 original size:27 final size:27
Alignment explanation
Indices: 34842571--34842623 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
34842561 AATTTTTAAA
*
34842571 AAAATTCAAAATAATTT-TCAAATTTTC
1 AAAATTCAAAAT-ATTTATAAAATTTTC
34842598 AAAATTCAAAATATTTATAAAATTTT
1 AAAATTCAAAATATTTATAAAATTTT
34842624 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTCAAAATATTTATAAAATTTTC
Found at i:34843576 original size:5 final size:5
Alignment explanation
Indices: 34843565--34843606 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
34843555 CATAATTGGA
* *
34843565 AGATC GGATC GGATC AGATC AGATC AGATC AGATC AGATC AG
1 AGATC AGATC AGATC AGATC AGATC AGATC AGATC AGATC AG
34843607 TTTTATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (5 bp):
AGATC
Found at i:34844455 original size:13 final size:13
Alignment explanation
Indices: 34844437--34844469 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34844427 AATGGCATAA
34844437 AAATAATATAAAC-
1 AAATAA-ATAAACG
34844450 AAATAAATAAACG
1 AAATAAATAAACG
34844463 AAATAAA
1 AAATAAA
34844470 AAGCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:34844890 original size:21 final size:21
Alignment explanation
Indices: 34844851--34844891 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34844841 TTATACTACA
* *
34844851 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
34844872 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
34844892 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:34844955 original size:30 final size:33
Alignment explanation
Indices: 34844911--34844974 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 33
34844901 AAAATAACAA
34844911 AATATAAAAAAAAG-AAT-AAAAAA-ACTAATT
1 AATATAAAAAAAAGAAATGAAAAAAGACTAATT
34844941 AATA-AAAAATAAAGAAAATGAAAAAAGACTAATT
1 AATATAAAAA-AAAG-AAATGAAAAAAGACTAATT
34844975 TGAACTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 8 0.28
32 3 0.10
33 6 0.21
34 7 0.24
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (33 bp):
AATATAAAAAAAAGAAATGAAAAAAGACTAATT
Found at i:34845502 original size:21 final size:21
Alignment explanation
Indices: 34845476--34845551 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
34845466 AATCATATCT
34845476 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
34845497 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
34845518 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
34845537 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
34845552 CCTCAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:34845511 original size:19 final size:19
Alignment explanation
Indices: 34845489--34845552 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
34845479 AAGATTGTAT
34845489 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
34845508 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
34845529 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
34845548 ATATC
1 ATATC
34845553 CTCAAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:34845921 original size:44 final size:44
Alignment explanation
Indices: 34845756--34846189 Score: 134
Period size: 44 Copynumber: 9.8 Consensus size: 44
34845746 GGAATTCGTG
* * ** * *
34845756 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-ATAG-
1 CTTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCT-GT
* * ** * *
34845800 CTTTAATCTGTTCCACTACCACTTCA-GGAGGATAAGACTTGCTGG
1 CTTCAATCTGCTCCACTACTGCTT-AGGGA-GATAAGATTTGCTGT
* * **
34845845 CTTAAATCTGCTTCCCACTA-T-CTAAGAAAGATAAGATTTGCTGT
1 CTTCAATCTGC-T-CCACTACTGCTTAGGGAGATAAGATTTGCTGT
* * * **
34845889 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGT
* * * * * * * ** * *
34845933 CTTCAACCTACTCCGCTGCTGCTCATGGAGAAAAGGCTTGGTGG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGT
* * **
34845977 CTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCAT
1 CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCTGT
*** * * **
34846021 CTTTGTTCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGT
* * * * * * * ** * *
34846065 CTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCTTGGTGG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGT
* * * *
34846109 CTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTACCGT
1 CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTTGCTGT
* * *
34846153 CCTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
34846190 CTACGATCTC
Statistics
Matches: 272, Mismatches: 98, Indels: 40
0.66 0.24 0.10
Matches are distributed among these distances:
42 18 0.07
43 12 0.04
44 206 0.76
45 21 0.08
46 9 0.03
47 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCTGT
Found at i:34846031 original size:132 final size:132
Alignment explanation
Indices: 34845837--34846234 Score: 654
Period size: 132 Copynumber: 3.0 Consensus size: 132
34845827 GAGGATAAGA
* ** *
34845837 CTTGCTGGCTTAAATCTGCTTCCCACTATCTAAGAAAGATAAGATTTGCTGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
34845902 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCATGGAGAAAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
34845967 GG
131 GG
* * *
34845969 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGTTCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
*
34846034 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
34846099 GG
131 GG
* * *
34846101 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCCTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
34846166 CACTACTGCTTAGGGAGATAAGATCTACGATC-TCAACCTACTCCGCTGTTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
34846230 GG
131 GG
34846232 CTT
1 CTT
34846235 AGTGTTTCAC
Statistics
Matches: 247, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
131 35 0.14
132 212 0.86
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
GG
Found at i:34846722 original size:33 final size:33
Alignment explanation
Indices: 34846680--34846745 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34846670 TTACACCATT
34846680 CCCAGGGTATCATACCAAAGGCTCATGCACAAA
1 CCCAGGGTATCATACCAAAGGCTCATGCACAAA
34846713 CCCAGGGTATCATACCAAAGGCTCATGCACAAA
1 CCCAGGGTATCATACCAAAGGCTCATGCACAAA
34846746 TGAAGGCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.15
Consensus pattern (33 bp):
CCCAGGGTATCATACCAAAGGCTCATGCACAAA
Found at i:34853325 original size:13 final size:13
Alignment explanation
Indices: 34853307--34853339 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34853297 AATGGCATAA
34853307 AAATAATATAAAC-
1 AAATAA-ATAAACG
34853320 AAATAAATAAACG
1 AAATAAATAAACG
34853333 AAATAAA
1 AAATAAA
34853340 AAGCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:34853745 original size:21 final size:21
Alignment explanation
Indices: 34853721--34853762 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34853711 TTATACTACA
* *
34853721 AAAAATAAATATGCGTATATT
1 AAAAATAAATATACATATATT
*
34853742 AAAAATATATATACATATATT
1 AAAAATAAATATACATATATT
34853763 TTTTTAAAAA
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:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAATAAATATACATATATT
Found at i:34854368 original size:21 final size:21
Alignment explanation
Indices: 34854342--34854396 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
34854332 AATCATATCT
34854342 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
34854363 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
34854382 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
34854397 CCTCGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:34854382 original size:24 final size:20
Alignment explanation
Indices: 34854333--34854384 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
34854323 AGATTACAAA
34854333 ATCATATCTTCTAAGATTGT
1 ATCATATCTTCTAAGATTGT
34854353 AT-ATATCATATCTAAGATTGCAT
1 ATCATATC-T-TCTAAGATTG--T
34854376 ATCATATCT
1 ATCATATCT
34854385 AAGATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 10 0.37
23 4 0.15
24 5 0.19
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (20 bp):
ATCATATCTTCTAAGATTGT
Found at i:34856602 original size:14 final size:14
Alignment explanation
Indices: 34856564--34856611 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
34856554 TCCTGATTGG
34856564 TTTATTTATTTA-T
1 TTTATTTATTTATT
* *
34856577 TTTGTTTGTTTATT
1 TTTATTTATTTATT
34856591 TTTATTTATTTATT
1 TTTATTTATTTATT
34856605 TTTATTT
1 TTTATTT
34856612 CCTGAATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:34857547 original size:25 final size:25
Alignment explanation
Indices: 34857517--34857586 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
34857507 TAGGCCCATT
34857517 TCACAGCTCGTGTGAGCATTTACAA
1 TCACAGCTCGTGTGAGCATTTACAA
* **
34857542 TCACAGCTCATGTGAGCATTTACCT
1 TCACAGCTCGTGTGAGCATTTACAA
* *
34857567 TCACAACTTGTGTGAGCATT
1 TCACAGCTCGTGTGAGCATT
34857587 GTTCCCGCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATTTACAA
Found at i:34857685 original size:13 final size:13
Alignment explanation
Indices: 34857632--34857714 Score: 69
Period size: 13 Copynumber: 6.4 Consensus size: 13
34857622 ATCAAGTGAA
34857632 AAATGAATATATG
1 AAATGAATATATG
** *
34857645 AAATGGTTATACG
1 AAATGAATATATG
*
34857658 AAATGATTATATG
1 AAATGAATATATG
*
34857671 AAATGAATATTTG
1 AAATGAATATATG
* *
34857684 AATTGGATACT-TG
1 AAATGAATA-TATG
* *
34857697 AAATGAAAATGTG
1 AAATGAATATATG
34857710 AAATG
1 AAATG
34857715 TTAACTTGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
12 1 0.02
13 54 0.96
14 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (13 bp):
AAATGAATATATG
Found at i:34864463 original size:14 final size:15
Alignment explanation
Indices: 34864444--34864478 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
34864434 TACATACGAA
34864444 TTATTATATTG-ATG
1 TTATTATATTGTATG
34864458 TTATTA-ATTGTATG
1 TTATTATATTGTATG
34864472 TTATTAT
1 TTATTAT
34864479 GTATTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (15 bp):
TTATTATATTGTATG
Found at i:34873120 original size:20 final size:20
Alignment explanation
Indices: 34873094--34873138 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34873084 AATAGTTGAA
* *
34873094 AAAAAATCAAAACTTTGTTTT
1 AAAAATTCAAAA-TTTGCTTT
*
34873115 AAAAATTTAAAATTTGCTTT
1 AAAAATTCAAAATTTGCTTT
34873135 AAAA
1 AAAA
34873139 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAATTTGCTTT
Found at i:34875401 original size:19 final size:19
Alignment explanation
Indices: 34875377--34875413 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34875367 ACACACGATC
34875377 GTGTCACTA-GGCCATGTGT
1 GTGTCAC-ACGGCCATGTGT
34875396 GTGTCACACGGCCATGTG
1 GTGTCACACGGCCATGTG
34875414 ATAGCCCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.27
Consensus pattern (19 bp):
GTGTCACACGGCCATGTGT
Found at i:34881865 original size:15 final size:15
Alignment explanation
Indices: 34881847--34881894 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
34881837 TTCTAGATTG
34881847 TGAAACTATAGACTA
1 TGAAACTATAGACTA
* * *
34881862 TGAAACAATAAACTG
1 TGAAACTATAGACTA
* *
34881877 TGAAACTTTAGATTA
1 TGAAACTATAGACTA
34881892 TGA
1 TGA
34881895 CGAAACTTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (15 bp):
TGAAACTATAGACTA
Found at i:34883034 original size:22 final size:21
Alignment explanation
Indices: 34882981--34883044 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
34882971 ACCAGTAGTA
*
34882981 AGAATGGCTAAGAGCTGTAAAC
1 AGAATGGCTAA-AGCTATAAAC
* *
34883003 AGGATAGCTATAAGCTATAAAC
1 AGAATGGCTA-AAGCTATAAAC
*
34883025 AGAATGGCTACAAGCCATAA
1 AGAATGGCTA-AAGCTATAA
34883045 GTATAGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (21 bp):
AGAATGGCTAAAGCTATAAAC
Found at i:34883283 original size:96 final size:96
Alignment explanation
Indices: 34883050--34883302 Score: 294
Period size: 96 Copynumber: 2.6 Consensus size: 96
34883040 CATAAGTATA
* * * * *
34883050 GTAATATGATTGACACAAAGCCATCAGTAGCAGTGATATGATTGACACACAACCATCAGTAACGG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG
* * * * *
34883115 TAATATGTTCGGCACAAAGCCATTAGTAGCG
66 TAATATGATCGGCACAAAACCATCAATAACG
* * * *
34883146 GTAATATGATCGGTACAAAGCCATCAGTAACAGTGAAATGATCGGTACACAGCCATC-GATAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAG-TAACG
* *
34883210 GTAATATGATCGGTATAAAACCATCAATAACG
65 GTAATATGATCGGCACAAAACCATCAATAACG
* ** *
34883242 GTATTATGATCGGCACAAAGCCATCAGTAGTGGT-ACTATGATCGGCACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGA-TATGATCGGCACACAGCCATCAGTA
34883303 GCATTGCAGC
Statistics
Matches: 130, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
95 2 0.02
96 127 0.98
97 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (96 bp):
GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG
TAATATGATCGGCACAAAACCATCAATAACG
Found at i:34883303 original size:32 final size:32
Alignment explanation
Indices: 34883050--34883302 Score: 260
Period size: 32 Copynumber: 7.9 Consensus size: 32
34883040 CATAAGTATA
* * * *
34883050 GTAATATGATTGACACAAAGCCATCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * *
34883082 GTGATATGATTGACACACAA-CCATCAGTAACG
1 GTAATATGATCGGCACA-AAGCCATCAGTAACG
* * *
34883114 GTAATATGTTCGGCACAAAGCCATTAGTAGCG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
34883146 GTAATATGATCGGTACAAAGCCATCAGTAACA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
34883178 GTGAA-ATGATCGGTACACAGCCATC-GATAACG
1 GT-AATATGATCGGCACAAAGCCATCAG-TAACG
* * * *
34883210 GTAATATGATCGGTATAAAACCATCAATAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* **
34883242 GTATTATGATCGGCACAAAGCCATCAGTAGTG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
34883274 GTACTATGATCGGCACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
34883303 GCATTGCAGC
Statistics
Matches: 187, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
31 5 0.03
32 178 0.95
33 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:34883501 original size:24 final size:23
Alignment explanation
Indices: 34883474--34883546 Score: 92
Period size: 24 Copynumber: 3.1 Consensus size: 23
34883464 CCATGCTCAG
34883474 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
34883498 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* * *
34883522 AATCATTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
34883545 AA
1 AA
34883547 ACAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.28
24 27 0.63
25 4 0.09
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:34883633 original size:27 final size:27
Alignment explanation
Indices: 34883575--34883948 Score: 418
Period size: 27 Copynumber: 13.9 Consensus size: 27
34883565 GGGAAAAATA
* *
34883575 GTCA-TTTACCC-ATAAGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883600 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883627 GTCATTTTACCCTAT-GAAGGTATTACA
1 GTCATTTTACCCTATAG-GGGTATTACG
* * *
34883654 GTCATTTTACCTTATGGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883681 GTCATTTTACCCTATGGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
*
34883708 GTCATTTTAACCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883735 ATCATTTTACCCTAT-GAGAGTATTACG
1 GTCATTTTACCCTATAG-GGGTATTACG
* * *
34883762 GTTATTTTACCTTAT-GAGGGTACTACG
1 GTCATTTTACCCTATAG-GGGTATTACG
* *
34883789 GTCATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
*
34883816 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
*
34883843 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883870 ATCATTTTACCCTATGGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
34883897 GTCGTTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
34883924 ATCATTTTGCCCT-TCAGGGGTATTA
1 GTCATTTTACCCTAT-AGGGGTATTA
34883949 TTGTTATTAC
Statistics
Matches: 295, Mismatches: 47, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
25 3 0.01
26 9 0.03
27 282 0.96
28 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:34886013 original size:111 final size:111
Alignment explanation
Indices: 34885819--34886042 Score: 448
Period size: 111 Copynumber: 2.0 Consensus size: 111
34885809 TCAAGATTTC
34885819 AATACATTTTTGAGTTTGATATTATTGAAAAGGTATGAAATTGATGTTAATGTAGAGTTTTATTA
1 AATACATTTTTGAGTTTGATATTATTGAAAAGGTATGAAATTGATGTTAATGTAGAGTTTTATTA
34885884 TATAAGGTTTTATGTTCTTGGTATGTTAGTGAAGAGAAAATAAGAG
66 TATAAGGTTTTATGTTCTTGGTATGTTAGTGAAGAGAAAATAAGAG
34885930 AATACATTTTTGAGTTTGATATTATTGAAAAGGTATGAAATTGATGTTAATGTAGAGTTTTATTA
1 AATACATTTTTGAGTTTGATATTATTGAAAAGGTATGAAATTGATGTTAATGTAGAGTTTTATTA
34885995 TATAAGGTTTTATGTTCTTGGTATGTTAGTGAAGAGAAAATAAGAG
66 TATAAGGTTTTATGTTCTTGGTATGTTAGTGAAGAGAAAATAAGAG
34886041 AA
1 AA
34886043 AGTGATGAGA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (111 bp):
AATACATTTTTGAGTTTGATATTATTGAAAAGGTATGAAATTGATGTTAATGTAGAGTTTTATTA
TATAAGGTTTTATGTTCTTGGTATGTTAGTGAAGAGAAAATAAGAG
Found at i:34886068 original size:24 final size:21
Alignment explanation
Indices: 34886022--34886068 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
34886012 TTGGTATGTT
34886022 AGTGAAGAGAAAATAAGAGAA
1 AGTGAAGAGAAAATAAGAGAA
*
34886043 AGTGATGAGAAATAGTATAGAGAA
1 AGTGAAGAGAAA-A-TA-AGAGAA
34886067 AG
1 AG
34886069 AAAATAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (21 bp):
AGTGAAGAGAAAATAAGAGAA
Found at i:34891203 original size:29 final size:29
Alignment explanation
Indices: 34891170--34891231 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
34891160 AAATAATGAG
34891170 ATCTTTCTCCTTGGCAGATTCAAGCTTCA
1 ATCTTTCTCCTTGGCAGATTCAAGCTTCA
34891199 ATCTTTCTCCTTGGCAGATTCAAGCTTCA
1 ATCTTTCTCCTTGGCAGATTCAAGCTTCA
34891228 ATCT
1 ATCT
34891232 CTCATTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCTTTCTCCTTGGCAGATTCAAGCTTCA
Found at i:34893206 original size:34 final size:34
Alignment explanation
Indices: 34893163--34893232 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
34893153 AAGTGTTCAA
34893163 ATCATTTTCTAATATGTTTGGAAGTCTTGAAATG
1 ATCATTTTCTAATATGTTTGGAAGTCTTGAAATG
34893197 ATCATTTTCTAATATGTTTGGAAGTCTTGAAATG
1 ATCATTTTCTAATATGTTTGGAAGTCTTGAAATG
34893231 AT
1 AT
34893233 TTTTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (34 bp):
ATCATTTTCTAATATGTTTGGAAGTCTTGAAATG
Found at i:34893445 original size:21 final size:21
Alignment explanation
Indices: 34893421--34893466 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
34893411 CTAATGGTTT
** *
34893421 ATTTGAGTGTGTAGGGCATCA
1 ATTTGAGCATGTAGGACATCA
*
34893442 ATTTGGGCATGTAGGACATCA
1 ATTTGAGCATGTAGGACATCA
34893463 ATTT
1 ATTT
34893467 AGGCTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (21 bp):
ATTTGAGCATGTAGGACATCA
Found at i:34896549 original size:19 final size:21
Alignment explanation
Indices: 34896507--34896549 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34896497 ATGGTTTTCT
*
34896507 GAAGGTGAATCTATTTTTGCA
1 GAAGGTGAATCTATTTTTGAA
*
34896528 GAAGGTGATTCT-TTTTT-AA
1 GAAGGTGAATCTATTTTTGAA
34896547 GAA
1 GAA
34896550 AACCAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (21 bp):
GAAGGTGAATCTATTTTTGAA
Found at i:34902035 original size:44 final size:45
Alignment explanation
Indices: 34901946--34902035 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
34901936 TGTATTGGAT
* *
34901946 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAA
1 TGGAATAGAGGCGTAATAGCAAAACAACTGTTTGGTTGAATGTAA
* **
34901991 TGGAATAGAGGCGTAATAGTAAAAC-TGTGTTTGGTTGAATGTAA
1 TGGAATAGAGGCGTAATAGCAAAACAACTGTTTGGTTGAATGTAA
34902035 T
1 T
34902036 AGATGTGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCAAAACAACTGTTTGGTTGAATGTAA
Found at i:34902218 original size:18 final size:17
Alignment explanation
Indices: 34902197--34902231 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34902187 TTATTATTTA
*
34902197 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34902215 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34902232 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:34902225 original size:28 final size:27
Alignment explanation
Indices: 34902155--34902227 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
34902145 TTTATTATCA
*
34902155 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
34902183 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
34902210 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
34902228 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:34902344 original size:144 final size:147
Alignment explanation
Indices: 34902116--34902387 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
34902106 ATGATTATTG
34902116 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
34902181 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
34902246 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
34902265 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
34902327 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
34902388 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:34902362 original size:18 final size:17
Alignment explanation
Indices: 34902341--34902375 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34902331 TTATTATTAA
*
34902341 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
34902359 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34902376 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:34902419 original size:54 final size:54
Alignment explanation
Indices: 34902361--34902539 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
34902351 ATTAAAATAT
*
34902361 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
34902415 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
34902478 TAT
53 -AC
*
34902481 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
34902535 ATAAT
1 ATAAT
34902540 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:34902421 original size:61 final size:61
Alignment explanation
Indices: 34902356--34902543 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
34902346 TTTTAATTAA
*
34902356 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
34902417 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
34902476 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
34902537 AATATAT
1 AATATAT
34902544 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:34902454 original size:120 final size:120
Alignment explanation
Indices: 34902324--34902546 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
34902314 ATCATATTTA
* *
34902324 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
34902389 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
34902444 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
34902509 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
34902547 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:34902482 original size:18 final size:17
Alignment explanation
Indices: 34902461--34902495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34902451 TTATTATTAA
34902461 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
34902479 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
34902496 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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:34902558 original size:17 final size:16
Alignment explanation
Indices: 34902536--34902582 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
34902526 ACTCAAATCA
34902536 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
34902553 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
34902567 TAAATATATGATTTAA
1 T-AATATATGATTTAA
34902583 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:34902583 original size:17 final size:17
Alignment explanation
Indices: 34902555--34902588 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34902545 ATTATAACTA
*
34902555 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
34902572 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
34902589 TTAAAATTAT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:34902731 original size:93 final size:92
Alignment explanation
Indices: 34902621--34902815 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
34902611 GATTATAGTT
* * *
34902621 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
34902684 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
34902714 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
34902779 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
34902806 TATGAATTTA
1 TATGAATTTA
34902816 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:34907219 original size:20 final size:20
Alignment explanation
Indices: 34907191--34907230 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34907181 TACATTTTAT
*
34907191 ATATTTATAGCTATT-ATTAC
1 ATATCTATAGC-ATTAATTAC
34907211 ATATCTATAGCATTAATTAC
1 ATATCTATAGCATTAATTAC
34907231 CTAAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATCTATAGCATTAATTAC
Found at i:34909499 original size:50 final size:50
Alignment explanation
Indices: 34909437--34909722 Score: 342
Period size: 50 Copynumber: 5.7 Consensus size: 50
34909427 GGGAATGAGA
* *
34909437 TCCCATGAAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
34909487 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
34909537 TCCCATGTAAGACCATGTTTGGGACATGGCAATGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
34909587 TCCCCCGTAAGAGCATGTCTGGGACATTGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * ** * **
34909637 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAAAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
34909686 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34909723 TGTTATTATC
Statistics
Matches: 201, Mismatches: 34, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
48 1 0.00
49 37 0.18
50 163 0.81
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:34916660 original size:50 final size:50
Alignment explanation
Indices: 34916603--34916788 Score: 239
Period size: 50 Copynumber: 3.7 Consensus size: 50
34916593 GGGAATGAGA
* * *
34916603 TCCCATGTAAGATCATGTTTGGGACATGGCATTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
34916653 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
34916703 TCCC-CGTAAGAGCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
34916752 TCCCATGTAAGACCATATCTGGGACATGACTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34916789 TGTTATTATC
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 41 0.35
50 75 0.65
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:34916787 original size:99 final size:99
Alignment explanation
Indices: 34916609--34916788 Score: 261
Period size: 99 Copynumber: 1.8 Consensus size: 99
34916599 GAGATCCCAT
* * * * ** *
34916609 GTAAGATCATGTTTGGGACATGGCATTGACACCGAGATGAGAGGTCCCATGTAAGACCATGTCTG
1 GTAAGAGCATGTCTAGGACATGGCATGGACACCGAGATGAGAACTCCCATGTAAGACCATATCTG
*
34916674 GGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
66 GGACATGACGTTGGCACCGAGATGAGAGGTCCCC
* *
34916708 GTAAGAGCATGTCTAGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GTAAGAGCATGTCTAGGACATGGCATGGACACCGAGATGAGAACTCCCATGTAAGACCATATCTG
*
34916773 GGACATGACTTTGGCA
66 GGACATGACGTTGGCA
34916789 TGTTATTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (99 bp):
GTAAGAGCATGTCTAGGACATGGCATGGACACCGAGATGAGAACTCCCATGTAAGACCATATCTG
GGACATGACGTTGGCACCGAGATGAGAGGTCCCC
Found at i:34933148 original size:20 final size:20
Alignment explanation
Indices: 34933096--34933149 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
34933086 TTAATTAAAC
*
34933096 ATTAAAATAAATAATTAAAAT
1 ATTAAAATTAA-AATTAAAAT
* *
34933117 ATTTAAAGTAAAATTAAGAA-
1 ATTAAAATTAAAATTAA-AAT
34933137 ATTAAAATTAAAA
1 ATTAAAATTAAAA
34933150 GAATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
ATTAAAATTAAAATTAAAAT
Found at i:34936622 original size:15 final size:16
Alignment explanation
Indices: 34936602--34936633 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34936592 TAATATTTAG
34936602 ATGTG-AAACTATAGA
1 ATGTGAAAACTATAGA
34936617 ATGTGAAAACTATAGA
1 ATGTGAAAACTATAGA
34936633 A
1 A
34936634 AACTATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTGAAAACTATAGA
Found at i:34940074 original size:120 final size:120
Alignment explanation
Indices: 34939862--34940081 Score: 296
Period size: 120 Copynumber: 1.8 Consensus size: 120
34939852 TGTTATAATG
* *
34939862 GGAGACTCTGTGTACCTTCTAATTTTGAGTTGAGGAAGTCTATACTTCGGGAGGCGCATAGCAAC
1 GGAGACTCTGTGTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
* * * * * * *
34939927 CCCTACGCTATGCATTTTGATGGTAGTAAGATGTAAGGAGTTCTCTGTTATCGTC
66 CCCTACACCATACATCTTAAAGATAGTAAGATGTAAGGAGTTCTCTGTTATCGTC
* * * * * * *
34939982 GGAGACTCTGTTTACCTTCTGATTTTAAGTTGAGGTAGTCTATACTTCGGGAAGTGCTTAGTAGC
1 GGAGACTCTGTGTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
34940047 CCCTACACCATACATCTTAAAGATAGTAAGATGTA
66 CCCTACACCATACATCTTAAAGATAGTAAGATGTA
34940082 TCGCAATCTC
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
120 84 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (120 bp):
GGAGACTCTGTGTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
CCCTACACCATACATCTTAAAGATAGTAAGATGTAAGGAGTTCTCTGTTATCGTC
Found at i:34944740 original size:16 final size:16
Alignment explanation
Indices: 34944716--34944783 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
34944706 TGGTTCACTG
34944716 TAATGGAATA-AGGCTA
1 TAATGGAATAGA-GCTA
*
34944732 TAATTGAATAGAG-TA
1 TAATGGAATAGAGCTA
* * *
34944747 TTAATTGAATAAAGCTG
1 -TAATGGAATAGAGCTA
34944764 TAATGGAATAGAGCTA
1 TAATGGAATAGAGCTA
34944780 TAAT
1 TAAT
34944784 CAGTAATTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.05
16 39 0.91
17 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:34944757 original size:32 final size:32
Alignment explanation
Indices: 34944716--34944776 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
34944706 TGGTTCACTG
* *
34944716 TAATGGAATAAGGCTATAATTGAATAGAGTAT
1 TAATGGAATAAAGCTATAATGGAATAGAGTAT
* *
34944748 TAATTGAATAAAGCTGTAATGGAATAGAG
1 TAATGGAATAAAGCTATAATGGAATAGAG
34944777 CTATAATCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (32 bp):
TAATGGAATAAAGCTATAATGGAATAGAGTAT
Found at i:34944823 original size:51 final size:49
Alignment explanation
Indices: 34944765--34944862 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
34944755 ATAAAGCTGT
*
34944765 AATGGAATAGAGCTATAATCAGTAATTCAAT-TGTCTGGTTGAATGGAATGG
1 AATGGAATAGAACTATAAT-AGT-ATT-AATGTGTCTGGTTGAATGGAATGG
* *
34944816 AATGGAATAGAACTATAATAGTATTATTGTGTTTGGTTGAATGGAAT
1 AATGGAATAGAACTATAATAGTATTAATGTGTCTGGTTGAATGGAAT
34944863 AGATTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 20 0.47
50 3 0.07
51 18 0.42
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (49 bp):
AATGGAATAGAACTATAATAGTATTAATGTGTCTGGTTGAATGGAATGG
Found at i:34948752 original size:35 final size:35
Alignment explanation
Indices: 34948713--34948779 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
34948703 ATTAGTAAAA
* *
34948713 AGAAAA-ATAATAATATGAATTTAATA-ATTTTTAAG
1 AGAAAACAAAATAA-AT-AATTGAATATATTTTTAAG
34948748 AGAAAACAAAATAAATAATTGAATATATTTTT
1 AGAAAACAAAATAAATAATTGAATATATTTTT
34948780 TATAAAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 8 0.29
35 14 0.50
36 6 0.21
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (35 bp):
AGAAAACAAAATAAATAATTGAATATATTTTTAAG
Found at i:34965759 original size:15 final size:15
Alignment explanation
Indices: 34965739--34965769 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34965729 TATAGTCTTA
34965739 CATGTTATCACATAT
1 CATGTTATCACATAT
34965754 CATGTTATCACATAT
1 CATGTTATCACATAT
34965769 C
1 C
34965770 GATGCCTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (15 bp):
CATGTTATCACATAT
Found at i:34970440 original size:103 final size:104
Alignment explanation
Indices: 34970261--34970525 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
34970251 AACCGTTATT
* * * *
34970261 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
34970326 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
34970364 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
34970428 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
34970468 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
34970526 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:34970887 original size:30 final size:29
Alignment explanation
Indices: 34970853--34970917 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34970843 TAATCCACCA
34970853 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
34970883 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
34970913 CCCAA
1 CCCAA
34970918 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:34970891 original size:31 final size:30
Alignment explanation
Indices: 34970860--34970917 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34970850 CCACCCAACT
34970860 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
34970890 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
34970918 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:34977929 original size:103 final size:104
Alignment explanation
Indices: 34977750--34978014 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
34977740 AACCGTTATT
* * * *
34977750 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
34977815 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
34977853 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
34977917 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
34977957 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
34978015 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:34978376 original size:30 final size:29
Alignment explanation
Indices: 34978342--34978406 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34978332 TAATCCACCA
34978342 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
34978372 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
34978402 CCCAA
1 CCCAA
34978407 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:34978380 original size:31 final size:30
Alignment explanation
Indices: 34978349--34978406 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34978339 CCACCCAACT
34978349 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
34978379 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
34978407 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:34986085 original size:21 final size:22
Alignment explanation
Indices: 34986055--34986098 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
34986045 GGGTAAAATT
*
34986055 ATTAATAATTTATT-GGGGTAA
1 ATTAAAAATTTATTGGGGGTAA
34986076 ATTAAAAATTTATTGGGGGTAA
1 ATTAAAAATTTATTGGGGGTAA
34986098 A
1 A
34986099 ATAAGGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (22 bp):
ATTAAAAATTTATTGGGGGTAA
Found at i:34993266 original size:15 final size:15
Alignment explanation
Indices: 34993246--34993274 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34993236 GTCTAAGAAA
34993246 TAAAAATAAAAAAAC
1 TAAAAATAAAAAAAC
34993261 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
34993275 AACTGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAATAAAAAAAC
Done.