Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 229 of 255
Found at i:75867609 original size:25 final size:25
Alignment explanation
Indices: 75867581--75867630 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
75867571 GAGCAATACT
75867581 GAACAGAACAGAACAGAACAAAGCA
1 GAACAGAACAGAACAGAACAAAGCA
* *
75867606 GAACAGAATAGAACAGAACAGAGCA
1 GAACAGAACAGAACAGAACAAAGCA
75867631 AAACGAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.18, G:0.22, T:0.02
Consensus pattern (25 bp):
GAACAGAACAGAACAGAACAAAGCA
Found at i:75869354 original size:26 final size:26
Alignment explanation
Indices: 75869325--75869381 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
75869315 CTGTTATATG
75869325 GCTCTTCATGAGCTTCCCGATTAAAA
1 GCTCTTCATGAGCTTCCCGATTAAAA
** * * *
75869351 GCTCTTTGTGTGCTTCCTGATTAATA
1 GCTCTTCATGAGCTTCCCGATTAAAA
75869377 GCTCT
1 GCTCT
75869382 CTAGAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATTAAAA
Found at i:75871258 original size:104 final size:104
Alignment explanation
Indices: 75871078--75871352 Score: 331
Period size: 104 Copynumber: 2.6 Consensus size: 104
75871068 GGGTGTTACA
* * * *
75871078 TGGACACATGCCCATGTCCTTGCCCGTGTGGCACACAC-AGCCTGGGCACATACCCATGTCCTTG
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGA-CCTGGGCACACACCCATGTCCTTA
* *
75871142 GCCATGTGGTTCTAAAGCGTAAACAGT-AAGTTACACAGCT
65 GCCATGTGGTTCTAAAGCATAAACAGTGAA-TTACACAGCC
* * * *
75871182 TGGACACATGCTCATGTCCTTGCCTATGTGGCTCACACGACTTGGGCACACGCCCATG-CCTCTA
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCT-TA
*** *
75871246 GTTGTGTGGTTCTAAAGCATAAACAGTGAATTACACGGCC
65 GCCATGTGGTTCTAAAGCATAAACAGTGAATTACACAGCC
* * * * *
75871286 TGGACACACGCCCATGTCCTTGCCCATGTGGCTAACACGACCTGGGTACACACTCATGTCCCTAG
1 TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCTTAG
75871351 CC
66 CC
75871353 GTATGGCATC
Statistics
Matches: 142, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
103 3 0.02
104 134 0.94
105 5 0.04
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.24
Consensus pattern (104 bp):
TGGACACATGCCCATGTCCTTGCCCATGTGGCTCACACGACCTGGGCACACACCCATGTCCTTAG
CCATGTGGTTCTAAAGCATAAACAGTGAATTACACAGCC
Found at i:75873121 original size:17 final size:17
Alignment explanation
Indices: 75873099--75873148 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
75873089 CTTTTCTTTC
75873099 TTTTTCCTTCT-TATCCA
1 TTTTTCCTTCTCT-TCCA
*
75873116 TTTTT-CTTCTCCTTCGA
1 TTTTTCCTTCT-CTTCCA
75873133 TTTTTCCTTCTCTTCC
1 TTTTTCCTTCTCTTCC
75873149 GTTTAACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 5 0.18
17 17 0.61
18 6 0.21
ACGTcount: A:0.06, C:0.32, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTTCCTTCTCTTCCA
Found at i:75874183 original size:40 final size:40
Alignment explanation
Indices: 75874107--75874183 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
75874097 ACGGTACCTT
* *
75874107 TTGGTGTGTAGGATTGGAAGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCATAC
* ** *
75874147 TTGGTGTGTAGGTTTGGGTGGGTCGATTCTAACCCCA
1 TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCA
75874184 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.35
Consensus pattern (40 bp):
TTGGTGTGTAGGATTGGAAGGGTCGATTATAACCCCATAC
Found at i:75880237 original size:16 final size:16
Alignment explanation
Indices: 75880198--75880243 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
75880188 GCTGAAATTC
*
75880198 TTTTCTT-TTATTTCT
1 TTTTCTTCTTCTTTCT
*
75880213 TTTTCCTTCTTCTTTGT
1 TTTT-CTTCTTCTTTCT
75880230 TTTTCTTC-TCTTTC
1 TTTTCTTCTTCTTTC
75880244 GATTTTCCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCT
Found at i:75880972 original size:33 final size:33
Alignment explanation
Indices: 75880930--75880995 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
75880920 CTGTAGGGGC
75880930 GATAAGTGTTACTTAAACTCCATACTCTGATTG
1 GATAAGTGTTACTTAAACTCCATACTCTGATTG
75880963 GATAAGTGTTACTTAAACTCCATACTCTGATTG
1 GATAAGTGTTACTTAAACTCCATACTCTGATTG
75880996 ATTACTGAAT
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:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (33 bp):
GATAAGTGTTACTTAAACTCCATACTCTGATTG
Found at i:75883307 original size:19 final size:20
Alignment explanation
Indices: 75883285--75883322 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
75883275 ATAAATATTT
*
75883285 TTAAAATAATA-ATAAAAAA
1 TTAAAAAAATATATAAAAAA
75883304 TTAAAAAAATATATAAAAA
1 TTAAAAAAATATATAAAAA
75883323 TAAATAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAAAAAAATATATAAAAAA
Found at i:75891005 original size:9 final size:9
Alignment explanation
Indices: 75890991--75891051 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
75890981 TTAAATTTTA
75890991 ATAAAAAAT
1 ATAAAAAAT
*
75891000 ATAAAATAT
1 ATAAAAAAT
*
75891009 -TAAAAATT
1 ATAAAAAAT
75891017 ATAAAAAGAT
1 ATAAAAA-AT
75891027 CAT-AAAAAT
1 -ATAAAAAAT
*
75891036 CGTAAAAAAT
1 -ATAAAAAAT
75891046 ATAAAA
1 ATAAAA
75891052 TTTTATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 6 0.14
9 23 0.55
10 11 0.26
11 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:75891006 original size:20 final size:21
Alignment explanation
Indices: 75890950--75891011 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
75890940 GACATGTAGC
* **
75890950 AAAAAAGTTAAAAAATAAAAAT
1 AAAAAA-TTATAAAATATTAAT
* *
75890972 AAAAAATTATTAAATTTTAAT
1 AAAAAATTATAAAATATTAAT
75890993 AAAAAA-TATAAAATATTAA
1 AAAAAATTATAAAATATTAA
75891012 AAATTATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 11 0.33
21 16 0.48
22 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTATAAAATATTAAT
Found at i:75891032 original size:37 final size:34
Alignment explanation
Indices: 75890958--75891034 Score: 82
Period size: 37 Copynumber: 2.2 Consensus size: 34
75890948 GCAAAAAAGT
* ***
75890958 TAAAAAATAAAAATAAAAAATTATTAAATTTTAA
1 TAAAAAATAAAAATAAAAAATTATAAAAAGATAA
*
75890992 TAAAAAATATAAAATATTAAAAATTATAAAAAGATCA
1 TAAAAAATA-AAAATA--AAAAATTATAAAAAGATAA
75891029 TAAAAA
1 TAAAAA
75891035 TCGTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 9 0.26
35 6 0.17
37 20 0.57
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (34 bp):
TAAAAAATAAAAATAAAAAATTATAAAAAGATAA
Found at i:75891034 original size:29 final size:27
Alignment explanation
Indices: 75890966--75891051 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 27
75890956 GTTAAAAAAT
**
75890966 AAAAATA-AAAAATTATTAAATTTTAATA
1 AAAAATATAAAAA-TATTAAAAATT-ATA
75890994 AAAAATAT-AAAATATTAAAAATTATA
1 AAAAATATAAAAATATTAAAAATTATA
** *
75891020 AAAAGATCATAAAAATCGTAAAAAATATA
1 AAAA-AT-ATAAAAATATTAAAAATTATA
75891049 AAA
1 AAA
75891052 TTTTATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
26 7 0.14
27 11 0.22
28 13 0.27
29 18 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATATAAAAATATTAAAAATTATA
Found at i:75891079 original size:22 final size:21
Alignment explanation
Indices: 75891054--75891096 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
75891044 ATATAAAATT
75891054 TTATAAAA-ATCATACAAAAAAA
1 TTATAAAATA-CATA-AAAAAAA
75891076 TTATAAAATACATAAAAAAAA
1 TTATAAAATACATAAAAAAAA
75891097 CTCATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 12 0.60
23 1 0.05
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
TTATAAAATACATAAAAAAAA
Found at i:75891084 original size:39 final size:37
Alignment explanation
Indices: 75890993--75891085 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 37
75890983 AAATTTTAAT
*
75890993 AAAAAA-TATAAAATATTAAAAATTATAAAAAGATCA
1 AAAAAATTATAAAATATTAAAAATTATAAAAACATCA
* * *
75891029 TAAAAATCGTAAAAAATA-TAAAATTTTATAAAAATCATACA
1 AAAAAAT--TATAAAATATTAAAA-ATTATAAAAA-CAT-CA
75891070 AAAAAATTATAAAATA
1 AAAAAATTATAAAATA
75891086 CATAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
36 5 0.11
38 5 0.11
39 25 0.56
40 2 0.04
41 8 0.18
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (37 bp):
AAAAAATTATAAAATATTAAAAATTATAAAAACATCA
Found at i:75897230 original size:5 final size:5
Alignment explanation
Indices: 75897231--75897258 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75897221 TTTAATTTAA
75897231 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
75897259 AAGTAAGTAA
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:75897322 original size:15 final size:16
Alignment explanation
Indices: 75897302--75897332 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
75897292 TAAAAATTAA
75897302 TATATATTT-TTTATT
1 TATATATTTATTTATT
75897317 TATATATTTATTTATT
1 TATATATTTATTTATT
75897333 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATATATTTATTTATT
Found at i:75900841 original size:10 final size:10
Alignment explanation
Indices: 75900821--75900874 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
75900811 TAGACTTAAC
*
75900821 TTTTAAATAA
1 TTTTTAATAA
*
75900831 TTTTTATTAA
1 TTTTTAATAA
75900841 -TTTTAAT-A
1 TTTTTAATAA
75900849 TTTTT-ATAA
1 TTTTTAATAA
*
75900858 ATTTTAATAA
1 TTTTTAATAA
75900868 TATTTTA
1 T-TTTTA
75900875 TAAAATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.09
9 15 0.43
10 12 0.34
11 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:75900876 original size:20 final size:19
Alignment explanation
Indices: 75900821--75900878 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
75900811 TAGACTTAAC
*
75900821 TTTTAAATAATTTTTATTAA
1 TTTT-AATAATTTTTATAAA
75900841 TTTTAAT-ATTTTTATAAA
1 TTTTAATAATTTTTATAAA
75900859 TTTTAATAATATTTTATAAA
1 TTTTAATAAT-TTTTATAAA
75900879 ATTATAGAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 17 0.49
19 5 0.14
20 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATAATTTTTATAAA
Found at i:75903193 original size:13 final size:13
Alignment explanation
Indices: 75903157--75903194 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
75903147 TATTTAAGAA
75903157 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
75903171 -TAAAAATATAAT
1 ATAATAATATAAT
75903183 ATAATAATATAA
1 ATAATAATATAA
75903195 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:75903233 original size:20 final size:20
Alignment explanation
Indices: 75903208--75903246 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
75903198 AAAATAAATA
75903208 AAAGAAATAATAA-AAAGAAT
1 AAAGAAATAA-AAGAAAGAAT
75903228 AAAGAAATAAAAGAAAGAA
1 AAAGAAATAAAAGAAAGAA
75903247 ACAGAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAGAAATAAAAGAAAGAAT
Found at i:75910731 original size:13 final size:13
Alignment explanation
Indices: 75910695--75910732 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
75910685 TATTTAAGAA
75910695 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
75910709 -TAAAAATATAAT
1 ATAATAATATAAT
75910721 ATAATAATATAA
1 ATAATAATATAA
75910733 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:75910771 original size:20 final size:20
Alignment explanation
Indices: 75910746--75910784 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
75910736 AAAATAAATA
75910746 AAAGAAATAATAA-AAAGAAT
1 AAAGAAATAA-AAGAAAGAAT
75910766 AAAGAAATAAAAGAAAGAA
1 AAAGAAATAAAAGAAAGAA
75910785 ACAGAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAGAAATAAAAGAAAGAAT
Found at i:75911684 original size:6 final size:6
Alignment explanation
Indices: 75911673--75911698 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
75911663 AAGTGTCGTC
75911673 TTACTG TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TT
75911699 CCGGATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTACTG
Found at i:75911743 original size:6 final size:6
Alignment explanation
Indices: 75911723--75911772 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
75911713 ATGAGGTACT
* * *
75911723 CTGTGTA CTGCTA CTATTA CTGTTA CTGTTA CTGTTA TTGTTA CTGTTA
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA
75911772 C
1 C
75911773 AGTGTATTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 34 0.92
7 3 0.08
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGTTA
Found at i:75914264 original size:38 final size:38
Alignment explanation
Indices: 75914222--75914339 Score: 139
Period size: 38 Copynumber: 3.1 Consensus size: 38
75914212 ATTGATGATT
*
75914222 GCATGCCTATTGTTACTATTGAACTGAATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
* * * *
75914260 GCATGTCTACTATTACTACTGAACTGGATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
* * * *
75914298 GCATGTTTATTGTTATTGTT-AAATCGAATACATGTTAA
1 GCATGTCTATTGTTACTATTGAACT-GAATACATGTTAA
75914336 GCAT
1 GCAT
75914340 ATTTACTGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
37 3 0.05
38 63 0.95
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (38 bp):
GCATGTCTATTGTTACTATTGAACTGAATACATGTTAA
Found at i:75915736 original size:40 final size:41
Alignment explanation
Indices: 75915692--75915801 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 41
75915682 CGGATAATTT
* **
75915692 GAAGTAATAAATTGACACCCAGTGTCTCATTGGCTA-AACC
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGAATATAACC
* * *
75915732 GAAG---TAAATTGGCACCCA-TGCCTCATCGAATATATCC
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGAATATAACC
* *
75915769 GAAGTAATAATTTGACACCCAGTGTCTTATCGA
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGA
75915802 CTCAAAGTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
36 10 0.18
37 20 0.36
40 16 0.29
41 9 0.16
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (41 bp):
GAAGTAATAAATTGACACCCAGTGTCTCATCGAATATAACC
Found at i:75917379 original size:26 final size:24
Alignment explanation
Indices: 75917350--75917398 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
75917340 TAAATAAAAA
*
75917350 ATTTAAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
75917376 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
75917399 TTAAAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:75917423 original size:19 final size:20
Alignment explanation
Indices: 75917380--75917423 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75917370 AAATACATTT
*
75917380 AAAAACATAAAAACAAATAT
1 AAAAACATAAAAACAAATAA
* *
75917400 TAAAACA-AGAAACAAATAA
1 AAAAACATAAAAACAAATAA
75917419 AAAAA
1 AAAAA
75917424 TGAGACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAACATAAAAACAAATAA
Found at i:75917846 original size:54 final size:54
Alignment explanation
Indices: 75917786--75917906 Score: 179
Period size: 54 Copynumber: 2.2 Consensus size: 54
75917776 TTTATATTGC
* **
75917786 ATGCATGACATTTAATTTGAATAGAGGATATTGATCTATAAATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATAGAGGATATTGAAATATAAATATTAATTAATT
* * **
75917840 ATGCATGAGATTTAATTTGAATATAGGATATTGAAATATGGATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATAGAGGATATTGAAATATAAATATTAATTAATT
75917894 ATGCATGAAATTT
1 ATGCATGAAATTT
75917907 TGGTCTTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (54 bp):
ATGCATGAAATTTAATTTGAATAGAGGATATTGAAATATAAATATTAATTAATT
Found at i:75925907 original size:9 final size:9
Alignment explanation
Indices: 75925889--75925925 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
75925879 TATAGTTTGA
*
75925889 TATTCAAAT
1 TATTCGAAT
75925898 TATTCGAAT
1 TATTCGAAT
*
75925907 TATTCGAGT
1 TATTCGAAT
75925916 TATTCGAAT
1 TATTCGAAT
75925925 T
1 T
75925926 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:75927205 original size:10 final size:10
Alignment explanation
Indices: 75927186--75927245 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
75927176 TTAAATTCTC
75927186 AAAGATAAAT
1 AAAGATAAAT
75927196 ACAA-ATAAAT
1 A-AAGATAAAT
*
75927206 AAAGATAATT
1 AAAGATAAAT
75927216 AAAGATAAAT
1 AAAGATAAAT
75927226 AAAGATAAAT
1 AAAGATAAAT
75927236 GAAA-ATAAAT
1 -AAAGATAAAT
75927246 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:75930350 original size:14 final size:14
Alignment explanation
Indices: 75930331--75930360 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
75930321 ATATCACGTA
75930331 AAATTATAAATAAG
1 AAATTATAAATAAG
75930345 AAATTATAAATAAG
1 AAATTATAAATAAG
75930359 AA
1 AA
75930361 TTAAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AAATTATAAATAAG
Found at i:75931811 original size:18 final size:17
Alignment explanation
Indices: 75931780--75931821 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
75931770 AACCCAAAAT
75931780 AAAAAATAAAAAAAAGA
1 AAAAAATAAAAAAAAGA
*
75931797 AAAAAATGAAGAAAAAGA
1 AAAAAAT-AAAAAAAAGA
75931815 AAAAAAT
1 AAAAAAT
75931822 CTAATCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAAAAGA
Found at i:75932649 original size:13 final size:13
Alignment explanation
Indices: 75932631--75932655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75932621 ATACTTTATG
75932631 TATTTTTTATTTT
1 TATTTTTTATTTT
75932644 TATTTTTTATTT
1 TATTTTTTATTT
75932656 ATTTTACGAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:75933008 original size:19 final size:19
Alignment explanation
Indices: 75932981--75933018 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
75932971 TTGAGATTGC
*
75932981 CAACTTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
75933000 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
75933019 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
CAACCTATTTGCTTGAAAT
Found at i:75934918 original size:5 final size:6
Alignment explanation
Indices: 75934905--75934949 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
75934895 ATAATTTAAT
*
75934905 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA-AA AA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AA
75934950 CATATAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
8 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:75934933 original size:20 final size:21
Alignment explanation
Indices: 75934897--75934940 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
75934887 AATTACAAAT
75934897 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
75934918 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
75934938 AAT
1 AAT
75934941 AAAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:75934946 original size:20 final size:20
Alignment explanation
Indices: 75934908--75934946 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75934898 ATTTAATAAA
**
75934908 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
75934928 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
75934947 AAACATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:75934982 original size:9 final size:9
Alignment explanation
Indices: 75934968--75935017 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
75934958 TTTATACAAA
75934968 TAATTCGGT
1 TAATTCGGT
*
75934977 TAATTCGGA
1 TAATTCGGT
75934986 TAATTCGAG-
1 TAATTCG-GT
*
75934995 TAATTTGGT
1 TAATTCGGT
75935004 TAATTCGGT
1 TAATTCGGT
75935013 TAATT
1 TAATT
75935018 TTATACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:75937088 original size:26 final size:27
Alignment explanation
Indices: 75937032--75937097 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 27
75937022 GGCGTTCCAG
75937032 AGGCGGCACCGGTCACGCCTTCCCTAT
1 AGGCGGCACCGGTCACGCCTTCCCTAT
*
75937059 AGGCGGCATCGGTCACGCC-TCCCTAT
1 AGGCGGCACCGGTCACGCCTTCCCTAT
75937085 AGGCGGCACCGGT
1 AGGCGGCACCGGT
75937098 GCTGCTGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.15, C:0.38, G:0.30, T:0.17
Consensus pattern (27 bp):
AGGCGGCACCGGTCACGCCTTCCCTAT
Found at i:75937669 original size:30 final size:31
Alignment explanation
Indices: 75937609--75937668 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
75937599 TTGTGTGTAT
*
75937609 TGTTATTTTAAAAGTCGGTATAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAATTTTTTTA
*
75937640 TGTTATTTTAAAAGTTGATATAATTTTTT
1 TGTTATTTTAAAAGTCGATATAATTTTTT
75937669 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TGTTATTTTAAAAGTCGATATAATTTTTTTA
Found at i:75941585 original size:15 final size:15
Alignment explanation
Indices: 75941565--75941593 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
75941555 ATGTATAAGT
75941565 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
75941580 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
75941594 TACTTGAGAA
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:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:75943110 original size:32 final size:32
Alignment explanation
Indices: 75943044--75943111 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
75943034 TTTTTGTTAA
*
75943044 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTTTATGATATT
*
75943076 TGTTGGATTCTGAAATTATTATGTTT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTTTATGATATT
75943108 TGTT
1 TGTT
75943112 AGATATTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 22 0.69
33 6 0.19
34 4 0.12
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTTTATGATATT
Found at i:75943123 original size:27 final size:27
Alignment explanation
Indices: 75943107--75943179 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
75943097 TGTTTTGATT
75943107 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
75943134 TTGTTAGATATTGAGTTTATTATGTTTTAAGC
1 TTGTTAGATATT--G---ATTATGTTTCAAGC
*
75943166 TTGTTGGATATTGA
1 TTGTTAGATATTGA
75943180 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 13 0.33
29 1 0.03
30 1 0.03
32 24 0.62
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:75944198 original size:22 final size:22
Alignment explanation
Indices: 75944130--75944218 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
75944120 GATACTTTTA
75944130 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
75944153 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
75944176 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
75944198 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
75944219 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:75944662 original size:14 final size:14
Alignment explanation
Indices: 75944643--75944709 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
75944633 CCAGAAAAGT
75944643 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
75944657 AAATCATTTTTCAAA
1 AAATCA-TTTTCCAG
* **
75944672 AAATTATTTTTTAG
1 AAATCATTTTCCAG
*
75944686 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
75944700 AAAACATTTT
1 AAATCATTTT
75944710 ACCTGCAAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:75950735 original size:27 final size:27
Alignment explanation
Indices: 75950697--75950753 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
75950687 GCAATATATG
*
75950697 TAAAAACAATTTAAAGTATAAATTTAT
1 TAAAAACAATTTAAAATATAAATTTAT
75950724 TAAAAACAATTTAAAATATAAATTTAT
1 TAAAAACAATTTAAAATATAAATTTAT
75950751 TAA
1 TAA
75950754 TATATGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (27 bp):
TAAAAACAATTTAAAATATAAATTTAT
Found at i:75950884 original size:20 final size:19
Alignment explanation
Indices: 75950839--75950876 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
75950829 CATCCAAACA
75950839 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
75950858 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
75950877 TTCAGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:75950951 original size:15 final size:16
Alignment explanation
Indices: 75950911--75950952 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
75950901 ATTTTACTGG
75950911 CAAATAAATTATAAAT
1 CAAATAAATTATAAAT
75950927 CAATCTATAAATTATAAAT
1 CAA---ATAAATTATAAAT
75950946 C-AATAAA
1 CAAATAAA
75950953 AATGTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.22
16 3 0.13
18 1 0.04
19 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (16 bp):
CAAATAAATTATAAAT
Found at i:75951267 original size:12 final size:13
Alignment explanation
Indices: 75951252--75951284 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
75951242 TCCCTCTCTC
75951252 TTCTTTCTTT-TT
1 TTCTTTCTTTCTT
75951264 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
*
75951277 TCCTTTCT
1 TTCTTTCT
75951285 CGTCGCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTCTTTCTT
Found at i:75951438 original size:25 final size:23
Alignment explanation
Indices: 75951393--75951439 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
75951383 ATCCTCCACC
*
75951393 TTTTTTTTTTTTCTAGATTTTTG
1 TTTTTTTTTTTTCTACATTTTTG
*
75951416 TTTTTTTTTGTTTCTTACTTTTTT
1 TTTTTTTTT-TTTC-TACATTTTT
75951440 TAATAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTTTTTTTTTCTACATTTTTG
Found at i:75953466 original size:12 final size:12
Alignment explanation
Indices: 75953449--75953475 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75953439 ACTGACCATA
75953449 ATTTCAAACATT
1 ATTTCAAACATT
75953461 ATTTCAAACATT
1 ATTTCAAACATT
75953473 ATT
1 ATT
75953476 ACATTGCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (12 bp):
ATTTCAAACATT
Found at i:75954058 original size:21 final size:21
Alignment explanation
Indices: 75954032--75954071 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
75954022 AAGATAGTAA
75954032 ACTATTACTCCGGGCAAGAAG
1 ACTATTACTCCGGGCAAGAAG
75954053 ACTATTACTCCGGGCAAGA
1 ACTATTACTCCGGGCAAGA
75954072 CCCTATAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (21 bp):
ACTATTACTCCGGGCAAGAAG
Found at i:75955748 original size:21 final size:21
Alignment explanation
Indices: 75955722--75955762 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
75955712 TATTTCACTA
75955722 TTTTAAAT-ATAAAATATTTAT
1 TTTTAAATAATAAAA-ATTTAT
75955743 TTTTAAATAATAAAAATTTA
1 TTTTAAATAATAAAAATTTA
75955763 AATTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAATAATAAAAATTTAT
Found at i:75955768 original size:21 final size:21
Alignment explanation
Indices: 75955723--75955768 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
75955713 ATTTCACTAT
**
75955723 TTTAAATATAAAATATTTATT
1 TTTAAATATAAAATATTTAAA
75955744 TTTAAATAATAAAA-ATTTAAA
1 TTTAAAT-ATAAAATATTTAAA
75955765 TTTA
1 TTTA
75955769 TTATAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAATATAAAATATTTAAA
Found at i:75960036 original size:28 final size:28
Alignment explanation
Indices: 75960004--75960087 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
75959994 AACTTCGATC
75960004 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
75960032 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
75960054 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
75960082 ACGTGT
1 ACGTGT
75960088 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:75960077 original size:50 final size:49
Alignment explanation
Indices: 75959956--75960145 Score: 245
Period size: 50 Copynumber: 3.8 Consensus size: 49
75959946 TGAGGTCGCA
* * * *
75959956 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* **
75960007 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
75960057 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
75960106 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
75960146 CTTTGGCTAT
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 42 0.34
50 46 0.38
51 34 0.28
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:75962893 original size:15 final size:16
Alignment explanation
Indices: 75962875--75962908 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
75962865 TCTGGTATCA
75962875 TGGATTTCTTTATT-T
1 TGGATTTCTTTATTCT
75962890 TGGATTTCTTTATTCT
1 TGGATTTCTTTATTCT
75962906 TGG
1 TGG
75962909 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (16 bp):
TGGATTTCTTTATTCT
Found at i:75965807 original size:49 final size:48
Alignment explanation
Indices: 75965683--75965863 Score: 218
Period size: 49 Copynumber: 3.7 Consensus size: 48
75965673 CTATTGTGAG
* * *
75965683 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATAA-TTA
* **
75965733 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAATTA
* * * *
75965783 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATAATTA
*
75965832 GTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
75965864 TGCATACCAG
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 71 0.62
50 7 0.06
51 37 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAATTA
Found at i:75971531 original size:21 final size:21
Alignment explanation
Indices: 75971507--75971605 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
75971497 ACCTATAAGG
75971507 GTTAAACTGAAGCTCGAAAGA
1 GTTAAACTGAAGCTCGAAAGA
* * * *
75971528 GTTAAACTAAAAC-CCAGAAGG
1 GTTAAACTGAAGCTCGA-AAGA
75971549 GTTAAACTGAAGCTCGAAAGA
1 GTTAAACTGAAGCTCGAAAGA
* * * *
75971570 GCTAAACTAAAACCCAGAAAG-
1 GTTAAACTGAAGCTC-GAAAGA
75971591 GTTAAACTGAAGCTC
1 GTTAAACTGAAGCTC
75971606 ATGAGAGCTA
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.03
21 50 0.85
22 7 0.12
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (21 bp):
GTTAAACTGAAGCTCGAAAGA
Found at i:75971617 original size:42 final size:42
Alignment explanation
Indices: 75971444--75971605 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
75971434 AAGCACATAT
* * *
75971444 GCTAAACTGAAACCCATAAGGGTTGAA-TGGAAGCTC-ATAAGA
1 GCTAAACTAAAACCCAGAAGGGTTAAACT-GAAGCTCGA-AAGA
* * *
75971486 GCTGAA-TGAAAACCTATAAGGGTTAAACTGAAGCTCGAAAGA
1 GCTAAACT-AAAACCCAGAAGGGTTAAACTGAAGCTCGAAAGA
*
75971528 GTTAAACTAAAACCCAGAAGGGTTAAACTGAAGCTCGAAAGA
1 GCTAAACTAAAACCCAGAAGGGTTAAACTGAAGCTCGAAAGA
*
75971570 GCTAAACTAAAACCCAGAAAGGTTAAACTGAAGCTC
1 GCTAAACTAAAACCCAGAAGGGTTAAACTGAAGCTC
75971606 ATGAGAGCTA
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 102 0.96
43 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
GCTAAACTAAAACCCAGAAGGGTTAAACTGAAGCTCGAAAGA
Found at i:75983542 original size:19 final size:19
Alignment explanation
Indices: 75983506--75983542 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75983496 TGAGACAGGG
* *
75983506 GACACGCCCGTGTGCTCTT
1 GACACGCCCATGTCCTCTT
75983525 GACACGCCCATGTCCTCT
1 GACACGCCCATGTCCTCT
75983543 AGTCGTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.41, G:0.22, T:0.24
Consensus pattern (19 bp):
GACACGCCCATGTCCTCTT
Found at i:75989961 original size:22 final size:23
Alignment explanation
Indices: 75989931--75989984 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
75989921 TGGACTTTTA
75989931 TTGGTTTTTATCTTA-ATTTATTT
1 TTGGTTTTTAT-TTATATTTATTT
* *
75989954 TT-GTTTTTGTTTATTTTTATTT
1 TTGGTTTTTATTTATATTTATTT
75989976 TTGGTTTTT
1 TTGGTTTTT
75989985 CTCTAACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.59
23 8 0.30
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (23 bp):
TTGGTTTTTATTTATATTTATTT
Found at i:75989966 original size:16 final size:16
Alignment explanation
Indices: 75989947--75989978 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75989937 TTTATCTTAA
*
75989947 TTTATTTTTGTTTTTG
1 TTTATTTTTATTTTTG
75989963 TTTATTTTTATTTTTG
1 TTTATTTTTATTTTTG
75989979 GTTTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTG
Found at i:75990465 original size:43 final size:44
Alignment explanation
Indices: 75990382--75990476 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 44
75990372 AACTTCAGGG
** * *
75990382 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCCACCTCAGAA
1 AGATAAGA-CTTCAATCTTCAACCTGCTCTCCTGCCACCTCAGAA
* * *
75990427 AGATAAGA-TTCATTCTTCAACCTGCTCTCCTGCTACCTCAGAG
1 AGATAAGACTTCAATCTTCAACCTGCTCTCCTGCCACCTCAGAA
75990470 AGATAAG
1 AGATAAG
75990477 GCTGGTGGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 35 0.81
45 8 0.19
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
AGATAAGACTTCAATCTTCAACCTGCTCTCCTGCCACCTCAGAA
Found at i:75990615 original size:173 final size:169
Alignment explanation
Indices: 75990212--75990826 Score: 640
Period size: 173 Copynumber: 3.6 Consensus size: 169
75990202 TTGGAAAATT
* * * * *
75990212 AATCTTCAATCTTCAGTCTACTTCCTTACTACCTCAGGAATACAAGACTCATTCTTCAACCTGCT
1 AATCTTCAATCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
* ** *
75990277 TTCTTGCTACCTCAGAGAGATAAGGCTGAAGGTAAAATCTGCTTCATTTCTAATACATAGG-GAT
66 CTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATGTGCTTC----C-AATACAT-GGAGAT
* * *
75990341 AAAATTCACTATCTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAA
125 AAGATTCAC-ATCTTAGATCTGCTCC-CTACAACTTCAGGGAGATAA
* * * * * *
75990388 GATCTTCAATCTTCAGTCTGCTTTCTTGCCACCTCAGAAAGATAAGATTCATTCTTCAACCTGCT
1 AATCTTCAATCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
* *
75990453 CTCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATGTGC-TCC-ATACATGGAGATAAGAT
66 CTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATGTGCTTCCAATACATGGAGATAAGAT
* *
75990516 TAATCATCTATGAAGATTTGCTCCACTACAACTTCAGGGAGATAA
130 TCA-CATCT-T--AGATCTGCTCC-CTACAACTTCAGGGAGATAA
* *
75990561 AATCTTTAATCCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCATTCTTCAACCTGCT
1 AATCTTCAATCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
* * * * *
75990626 CTCTTGCTATCTCAGAGAGATAACGCTGGTGGTAAAATCTGCTCCATTGCCGATATATGGAGATA
66 CTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAA--TG-TGC-TT-CCAATACATGGAGATA
* * * *
75990691 AGATTCACCATTTTTGATCTACATACCTACAACTTC------A-AA
126 AGATTCA-CATCTTAGATCTGC-TCCCTACAACTTCAGGGAGATAA
* *
75990730 AATCTTTAATTCC-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCTTCAACCTGC
1 AATCTTCAA-TCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGC
75990794 TCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG
65 TCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG
75990827 CTTAAATCTG
Statistics
Matches: 378, Mismatches: 46, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
169 93 0.25
170 23 0.06
171 2 0.01
172 5 0.01
173 114 0.30
174 2 0.01
175 2 0.01
176 101 0.27
177 11 0.03
178 3 0.01
179 22 0.06
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (169 bp):
AATCTTCAATCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCT
CTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATGTGCTTCCAATACATGGAGATAAGATT
CACATCTTAGATCTGCTCCCTACAACTTCAGGGAGATAA
Found at i:75990880 original size:125 final size:125
Alignment explanation
Indices: 75990720--75990962 Score: 423
Period size: 125 Copynumber: 1.9 Consensus size: 125
75990710 TACATACCTA
* * *
75990720 CAACTTCAAAAATCTTTAATTCCCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTATTCT
1 CAACTTCAAAAATCTTCAATTCCCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTCATTCT
*
75990785 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCCCCGCTG
66 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGACTTAAATCTGCCCCGCTG
* * *
75990845 CAACTTCAAGAATCTTCAATTCCTAGTCTACTTCCTTGCTACCTTAGGAAGATAAGACTCATTCT
1 CAACTTCAAAAATCTTCAATTCCCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTCATTCT
75990910 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGACTTAAATCTGC
66 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGACTTAAATCTGC
75990963 TCCATTGCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (125 bp):
CAACTTCAAAAATCTTCAATTCCCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTCATTCT
TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGACTTAAATCTGCCCCGCTG
Found at i:75992546 original size:53 final size:53
Alignment explanation
Indices: 75992437--75992546 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
75992427 TTATTTTTTA
* **
75992437 TTTTATTGAGTCTCAAAGCACCCTTTGCGGGTTTTCACTTTAGCCCTTTTCAT
1 TTTTATTGAGTCTCAAAGCACCCTTTGCGGGTTTTCACCTTAGCCCCCTTCAT
* * * *
75992490 TTTTATT-AGGTCTCAAAGCGCCCTTTGCGGGTTTTCGCCTTGGCCCCCTTCTT
1 TTTTATTGA-GTCTCAAAGCACCCTTTGCGGGTTTTCACCTTAGCCCCCTTCAT
75992543 TTTT
1 TTTT
75992547 TTTTGTTGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (53 bp):
TTTTATTGAGTCTCAAAGCACCCTTTGCGGGTTTTCACCTTAGCCCCCTTCAT
Found at i:75999619 original size:24 final size:24
Alignment explanation
Indices: 75999592--75999670 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
75999582 TCTTAGCCAA
* *
75999592 TTGCTCTTGCATCT-GTGATTGCAT
1 TTGCTCTTGCATATCCT-ATTGCAT
*
75999616 TTGCTCTTGCATATCCTTTTGCAT
1 TTGCTCTTGCATATCCTATTGCAT
*
75999640 TTGCTCTTGCATATCCTTTTGCAT
1 TTGCTCTTGCATATCCTATTGCAT
75999664 TTGCTCT
1 TTGCTCT
75999671 AACTTTTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.11, C:0.24, G:0.15, T:0.49
Consensus pattern (24 bp):
TTGCTCTTGCATATCCTATTGCAT
Found at i:75999625 original size:12 final size:12
Alignment explanation
Indices: 75999592--75999670 Score: 70
Period size: 12 Copynumber: 6.6 Consensus size: 12
75999582 TCTTAGCCAA
75999592 TTGCTCTTGCAT
1 TTGCTCTTGCAT
* *
75999604 CTG-TGATTGCAT
1 TTGCT-CTTGCAT
75999616 TTGCTCTTGCAT
1 TTGCTCTTGCAT
* * *
75999628 ATCCTTTTGCAT
1 TTGCTCTTGCAT
75999640 TTGCTCTTGCAT
1 TTGCTCTTGCAT
* * *
75999652 ATCCTTTTGCAT
1 TTGCTCTTGCAT
75999664 TTGCTCT
1 TTGCTCT
75999671 AACTTTTCAA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
11 1 0.02
12 47 0.96
13 1 0.02
ACGTcount: A:0.11, C:0.24, G:0.15, T:0.49
Consensus pattern (12 bp):
TTGCTCTTGCAT
Found at i:76001078 original size:28 final size:28
Alignment explanation
Indices: 76001038--76001091 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
76001028 TAGGTTAGCC
76001038 CAGATTAAAAGTGATCTCATTTGGTTTA
1 CAGATTAAAAGTGATCTCATTTGGTTTA
76001066 CAGATTAAAAGTGATCTCATTTGGTT
1 CAGATTAAAAGTGATCTCATTTGGTT
76001092 AAGGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (28 bp):
CAGATTAAAAGTGATCTCATTTGGTTTA
Found at i:76012815 original size:22 final size:23
Alignment explanation
Indices: 76012789--76012834 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
76012779 CAACCAAACC
76012789 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
76012811 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
76012834 A
1 A
76012835 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:76012840 original size:23 final size:23
Alignment explanation
Indices: 76012796--76012840 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76012786 ACCAATTCAA
*
76012796 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
76012819 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
76012841 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:76015443 original size:12 final size:12
Alignment explanation
Indices: 76015426--76015457 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
76015416 TTTTTTACCC
76015426 AATTTCTTCAAT
1 AATTTCTTCAAT
76015438 AATTTCTTCAAT
1 AATTTCTTCAAT
76015450 AATTTCTT
1 AATTTCTT
76015458 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:76024689 original size:2 final size:2
Alignment explanation
Indices: 76024682--76024745 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
76024672 GGGAGGGAGG
* * * * *
76024682 GA GA GA GA GA GA GA GA GA GA GA GA AA GG GA GA GG GA CA GC GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
76024724 GC GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA
76024746 TTAGGTAGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.05, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:76024877 original size:16 final size:15
Alignment explanation
Indices: 76024856--76024885 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
76024846 CCAAAGCATA
76024856 TTTTCTTTTTCTTTTT
1 TTTTCTTTTT-TTTTT
76024872 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
76024886 CCTAATAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:76024880 original size:9 final size:10
Alignment explanation
Indices: 76024856--76024886 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
76024846 CCAAAGCATA
76024856 TTTTCTTTTTC
1 TTTT-TTTTTC
76024867 TTTTTTTTTC
1 TTTTTTTTTC
76024877 TTTTTTTTTC
1 TTTTTTTTTC
76024887 CTAATAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:76038209 original size:30 final size:30
Alignment explanation
Indices: 76038173--76038232 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
76038163 GACACGGCCA
* * *
76038173 TGACACACGGGCGTGTGGCCTACCCGTGTG
1 TGACACACAGGCATGTGGACTACCCGTGTG
*
76038203 TGACACACAGGCATGTGGATTACCCGTGTG
1 TGACACACAGGCATGTGGACTACCCGTGTG
76038233 GAAGTTCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (30 bp):
TGACACACAGGCATGTGGACTACCCGTGTG
Found at i:76040071 original size:4 final size:4
Alignment explanation
Indices: 76040062--76040088 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
76040052 TCTTTTATTC
76040062 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
76040089 ATCCTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:76040554 original size:6 final size:6
Alignment explanation
Indices: 76040479--76040534 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
76040469 AGGAAATAGA
76040479 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG
76040527 GAGAGG GA
1 GAGAGG GA
76040535 AAGAGGAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:76047724 original size:33 final size:33
Alignment explanation
Indices: 76047686--76047753 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
76047676 TTGCTTAGTG
76047686 ATTGGATAAAAAGTGGGTTGGTGCTGCCAATGT
1 ATTGGATAAAAAGTGGGTTGGTGCTGCCAATGT
76047719 ATTGGATAAAAAGTGGGTTGGTGCTGCCAATGT
1 ATTGGATAAAAAGTGGGTTGGTGCTGCCAATGT
76047752 AT
1 AT
76047754 CAAGTGACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.31
Consensus pattern (33 bp):
ATTGGATAAAAAGTGGGTTGGTGCTGCCAATGT
Found at i:76050843 original size:13 final size:13
Alignment explanation
Indices: 76050825--76050851 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76050815 GCTCGGCAGG
76050825 GACACGCCCGTGT
1 GACACGCCCGTGT
76050838 GACACGCCCGTGT
1 GACACGCCCGTGT
76050851 G
1 G
76050852 CGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:76053935 original size:47 final size:47
Alignment explanation
Indices: 76053866--76053959 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
76053856 TTGAGAGTAT
76053866 GCACCCAAATGTCTTTGTGTATAGGGTATTAATTTATTAGTTAAGTG
1 GCACCCAAATGTCTTTGTGTATAGGGTATTAATTTATTAGTTAAGTG
76053913 GCACCCAAATGTCTTTGTGTATAGGGTATTAATTTATTAGTTAAGTG
1 GCACCCAAATGTCTTTGTGTATAGGGTATTAATTTATTAGTTAAGTG
76053960 TATATATATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (47 bp):
GCACCCAAATGTCTTTGTGTATAGGGTATTAATTTATTAGTTAAGTG
Found at i:76057118 original size:42 final size:42
Alignment explanation
Indices: 76057059--76057143 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
76057049 AATGTTGAGA
76057059 CAGTCCAACATGTTGTGCGAGACTGTTTTTGCCAGAAACGTT
1 CAGTCCAACATGTTGTGCGAGACTGTTTTTGCCAGAAACGTT
76057101 CAGTCCAACATGTTGTGCGAGACTGTTTTTGCCAGAAACGTT
1 CAGTCCAACATGTTGTGCGAGACTGTTTTTGCCAGAAACGTT
76057143 C
1 C
76057144 GTGGTTCGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (42 bp):
CAGTCCAACATGTTGTGCGAGACTGTTTTTGCCAGAAACGTT
Found at i:76070634 original size:11 final size:11
Alignment explanation
Indices: 76070618--76070644 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
76070608 TAGAAATTAG
76070618 TTTGTGAAACT
1 TTTGTGAAACT
76070629 TTTGTGAAACT
1 TTTGTGAAACT
76070640 TTTGT
1 TTTGT
76070645 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:76072176 original size:92 final size:92
Alignment explanation
Indices: 76072040--76072233 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
76072030 TTGATTTTAG
* *
76072040 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
76072104 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
76072131 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
76072196 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
76072224 CAAATTCATA
1 TAAATTCATA
76072234 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:76072281 original size:48 final size:52
Alignment explanation
Indices: 76072211--76072309 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
76072201 AATAATTATT
76072211 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
76072259 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
76072310 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:76072291 original size:17 final size:17
Alignment explanation
Indices: 76072266--76072299 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
76072256 ATAATTTTAA
*
76072266 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
76072283 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
76072300 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:76072316 original size:17 final size:16
Alignment explanation
Indices: 76072271--76072318 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
76072261 TTTAAATTTT
76072271 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
76072288 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
76072302 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
76072319 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:76072512 original size:18 final size:17
Alignment explanation
Indices: 76072484--76072518 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76072474 ATTAAGCAGA
*
76072484 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76072501 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76072519 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76072518 original size:16 final size:17
Alignment explanation
Indices: 76072484--76072525 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
76072474 ATTAAGCAGA
76072484 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
76072501 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
76072517 ATTTATAAT
1 ATTT-TAAT
76072526 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:76072655 original size:18 final size:17
Alignment explanation
Indices: 76072627--76072661 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76072617 ATTATTAAGA
*
76072627 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76072644 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76072662 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76072871 original size:44 final size:45
Alignment explanation
Indices: 76072822--76072916 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
76072812 TTACACCTCT
* *
76072822 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
76072866 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
76072911 ATTACA
1 ATTACA
76072917 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:76072916 original size:16 final size:16
Alignment explanation
Indices: 76072895--76072927 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
76072885 TTGATTTGCT
*
76072895 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
76072911 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
76072927 A
1 A
76072928 ACCCAATACA
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:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:76073460 original size:31 final size:31
Alignment explanation
Indices: 76073408--76073467 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
76073398 GAATCACTAT
76073408 TTAAGGCTTGAATTTGACAATTATTTTCATG
1 TTAAGGCTTGAATTTGACAATTATTTTCATG
* * *
76073439 TTAAGTCTT-AATTTAGGCAATTGTTTTCA
1 TTAAGGCTTGAATTT-GACAATTATTTTCA
76073468 CATAAGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (31 bp):
TTAAGGCTTGAATTTGACAATTATTTTCATG
Found at i:76076419 original size:15 final size:15
Alignment explanation
Indices: 76076399--76076430 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
76076389 AGATAAAGTC
76076399 AGAAAAATTTTTAAG
1 AGAAAAATTTTTAAG
76076414 AGAAAAATTTTTAAG
1 AGAAAAATTTTTAAG
76076429 AG
1 AG
76076431 GGTCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
AGAAAAATTTTTAAG
Found at i:76077974 original size:16 final size:16
Alignment explanation
Indices: 76077953--76077986 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
76077943 ATTTATATAC
76077953 ATAATCATACAT-AATA
1 ATAATCATA-ATAAATA
76077969 ATAATCATAATAAATA
1 ATAATCATAATAAATA
76077985 AT
1 AT
76077987 CAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATCATAATAAATA
Found at i:76078437 original size:27 final size:28
Alignment explanation
Indices: 76078400--76078457 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
76078390 AATACATAAT
*
76078400 TCAATTTCCAA-TCAATATACAGTTTCAA
1 TCAATTTCCAATTCAATACAC-GTTTCAA
*
76078428 TCAA-TTCCAATTCAATACACTTTTCAA
1 TCAATTTCCAATTCAATACACGTTTCAA
76078455 TCA
1 TCA
76078458 TACACATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (28 bp):
TCAATTTCCAATTCAATACACGTTTCAA
Found at i:76079176 original size:25 final size:24
Alignment explanation
Indices: 76079131--76079186 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
76079121 TGCTATTCTG
* *
76079131 TTTATGTTCTTTATCTTTGTTTTTT
1 TTTAT-TTCTTTATCTTTGTTATGT
* *
76079156 TTTATTTTTTTATTTTATGTTATGT
1 TTTATTTCTTTATCTT-TGTTATGT
76079181 TTTATT
1 TTTATT
76079187 ATATTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (24 bp):
TTTATTTCTTTATCTTTGTTATGT
Found at i:76081676 original size:46 final size:45
Alignment explanation
Indices: 76081651--76081814 Score: 136
Period size: 46 Copynumber: 3.4 Consensus size: 45
76081641 GATCAAGTGA
* * * *
76081651 CAAGTGGA-AAGTGATAAGTAATAGCT-TCGGCTATACTTATTTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
76081696 CAAGTGACAAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
76081742 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
76081794 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
76081815 GCTACACTTA
Statistics
Matches: 105, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 55 0.52
52 42 0.40
53 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:76081677 original size:52 final size:51
Alignment explanation
Indices: 76081606--76081814 Score: 266
Period size: 52 Copynumber: 4.1 Consensus size: 51
76081596 ATCAAGTGAC
* *
76081606 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * * *
76081658 AAAGTGATAAGTAATAGCTTCGGCTATACTTATTTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
76081704 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
76081755 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
76081808 ATAAGTG
1 A-AAGTG
76081815 GCTACACTTA
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
46 43 0.31
52 84 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:76081714 original size:98 final size:98
Alignment explanation
Indices: 76081592--76081815 Score: 358
Period size: 98 Copynumber: 2.3 Consensus size: 98
76081582 TTTGAGTACT
*
76081592 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
76081657 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* * *
76081690 TTTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
76081755 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
*
76081788 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
76081816 CTACACTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:76081822 original size:37 final size:37
Alignment explanation
Indices: 76081778--76081886 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
76081768 GATAGCTTTA
76081778 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
76081815 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
76081852 GCTACACTTATCTGATC-AGGGA-TAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
76081887 ATCATACGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.17
36 3 0.05
37 52 0.79
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:76082567 original size:46 final size:46
Alignment explanation
Indices: 76082500--76082593 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
76082490 AACACTTAGA
76082500 CTGAGGCAATCAGACGATTGAGAAAGGAGATAGGGAGACATTACCT
1 CTGAGGCAATCAGACGATTGAGAAAGGAGATAGGGAGACATTACCT
*
76082546 CTGAGGCAATCAGACGATTGAGAAAGGAGATCGGGAGACATTACCT
1 CTGAGGCAATCAGACGATTGAGAAAGGAGATAGGGAGACATTACCT
76082592 CT
1 CT
76082594 TAGTTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (46 bp):
CTGAGGCAATCAGACGATTGAGAAAGGAGATAGGGAGACATTACCT
Found at i:76084751 original size:21 final size:20
Alignment explanation
Indices: 76084725--76084779 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
76084715 TTAAAAACTA
76084725 TTAAAATATTATAAAATTTG
1 TTAAAATATTATAAAATTTG
76084745 -TATAAA-ATTATAGAAATTTG
1 TTA-AAATATTATA-AAATTTG
76084765 TTAAAATATTATAAA
1 TTAAAATATTATAAA
76084780 CTTAGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.26
20 15 0.48
21 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTAAAATATTATAAAATTTG
Found at i:76084754 original size:19 final size:19
Alignment explanation
Indices: 76084732--76084771 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
76084722 CTATTAAAAT
76084732 ATTATA-AAATTTGTATAAA
1 ATTATAGAAATTTGT-TAAA
76084751 ATTATAGAAATTTGTTAAA
1 ATTATAGAAATTTGTTAAA
76084770 AT
1 AT
76084772 ATTATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
ATTATAGAAATTTGTTAAA
Found at i:76084825 original size:9 final size:9
Alignment explanation
Indices: 76084813--76084861 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
76084803 AATTATAGAA
76084813 AAAAATTAT
1 AAAAATTAT
*
76084822 AAAAAGTAT
1 AAAAATTAT
76084831 AAAAAATTAT
1 -AAAAATTAT
* *
76084841 TAAAACTAT
1 AAAAATTAT
*
76084850 AAAAAATAT
1 AAAAATTAT
76084859 AAA
1 AAA
76084862 TTTTCTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:76084836 original size:19 final size:19
Alignment explanation
Indices: 76084812--76084861 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
76084802 AAATTATAGA
*
76084812 AAAAAATTATAAAAAGTAT
1 AAAAAATTATAAAAACTAT
*
76084831 AAAAAATTATTAAAACTAT
1 AAAAAATTATAAAAACTAT
76084850 AAAAAA-TATAAA
1 AAAAAATTATAAA
76084862 TTTTCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAATTATAAAAACTAT
Found at i:76085201 original size:19 final size:20
Alignment explanation
Indices: 76085179--76085220 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
76085169 AGTTTTGAAT
*
76085179 TTTAAATAATAT-TTTATAA
1 TTTAAATAATATGCTTATAA
*
76085198 TTTATATAATATGCTTATAA
1 TTTAAATAATATGCTTATAA
76085218 TTT
1 TTT
76085221 TCGACAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAAATAATATGCTTATAA
Found at i:76085406 original size:20 final size:21
Alignment explanation
Indices: 76085378--76085417 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
76085368 TTAATTAGTA
*
76085378 ATTTTACT-ATTTTTTTAATT
1 ATTTCACTAATTTTTTTAATT
76085398 ATTTCACTAGATTTTTTTAA
1 ATTTCACTA-ATTTTTTTAA
76085418 AACATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTCACTAATTTTTTTAATT
Found at i:76085704 original size:3 final size:3
Alignment explanation
Indices: 76085696--76085724 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
76085686 CTTTACTCTT
76085696 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
76085725 TTCTTTCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:76088652 original size:3 final size:3
Alignment explanation
Indices: 76088644--76088674 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
76088634 AGTTTACCCT
*
76088644 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
76088675 GTGGCATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:76089729 original size:29 final size:29
Alignment explanation
Indices: 76089690--76089747 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
76089680 AAATTGTGTT
* * * *
76089690 ACCTTTTAAAATAGTTAAATAAATATTAA
1 ACCTTTCAAAAGAATTAAATAAAAATTAA
76089719 ACCTTTCAAAAGAATTAAATAAAAATTAA
1 ACCTTTCAAAAGAATTAAATAAAAATTAA
76089748 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (29 bp):
ACCTTTCAAAAGAATTAAATAAAAATTAA
Found at i:76091350 original size:31 final size:31
Alignment explanation
Indices: 76091315--76091378 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
76091305 CTTAATAGCC
*
76091315 CAATGACTTAAAT-AAAATCTTTCGAATGGTT
1 CAATGACTTAAATGAAAA-CTTTCGAATAGTT
*
76091346 CAATGACTTAAATGAAAACTTTTGAATAGTT
1 CAATGACTTAAATGAAAACTTTCGAATAGTT
76091377 CA
1 CA
76091379 GCGACCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATGAAAACTTTCGAATAGTT
Found at i:76093456 original size:10 final size:10
Alignment explanation
Indices: 76093443--76093515 Score: 62
Period size: 10 Copynumber: 7.4 Consensus size: 10
76093433 TTAAAATTAA
*
76093443 TTTTTATAGTT
1 TTTTTATA-AT
*
76093454 TTTTTATAAG
1 TTTTTATAAT
*
76093464 TTTTTA-CAT
1 TTTTTATAAT
76093473 TATTTTATAAT
1 T-TTTTATAAT
76093484 TTTTTATAAT
1 TTTTTATAAT
*
76093494 TTTTT-TAAA
1 TTTTTATAAT
*
76093503 TTTATAT-AT
1 TTTTTATAAT
76093512 TTTT
1 TTTT
76093516 AAGTGTTTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
9 13 0.26
10 26 0.52
11 11 0.22
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:76097248 original size:22 final size:24
Alignment explanation
Indices: 76097218--76097272 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
76097208 TAATTTACAA
*
76097218 AATATATTAATTTAA-TTATAT-TC
1 AATA-ATTAATTTAAGTAATATATC
76097241 AATAATTAATTTAAGTAATATATC
1 AATAATTAATTTAAGTAATATATC
76097265 AGATAATT
1 A-ATAATT
76097273 TTATAACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.36
23 9 0.32
24 3 0.11
25 6 0.21
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
AATAATTAATTTAAGTAATATATC
Found at i:76097311 original size:15 final size:15
Alignment explanation
Indices: 76097288--76097320 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
76097278 ACTTAAATTC
*
76097288 AATATTTAAATTTTT
1 AATACTTAAATTTTT
76097303 AATACTTAAATTTTT
1 AATACTTAAATTTTT
76097318 AAT
1 AAT
76097321 TTATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATACTTAAATTTTT
Found at i:76097385 original size:5 final size:5
Alignment explanation
Indices: 76097375--76097475 Score: 166
Period size: 5 Copynumber: 20.2 Consensus size: 5
76097365 GTAAACAAAG
* *
76097375 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATGA TATAA TATGA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* *
76097425 TATAA TATAA TATGA TATAA TATGA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
76097475 T
1 T
76097476 TATTGTCAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 88 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:76099574 original size:11 final size:11
Alignment explanation
Indices: 76099558--76099588 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
76099548 GTTTGTTTCT
76099558 GAGGAAAAATC
1 GAGGAAAAATC
76099569 GAGGAAAAATC
1 GAGGAAAAATC
76099580 GAGGAAAAA
1 GAGGAAAAA
76099589 GAAAATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.06, G:0.29, T:0.06
Consensus pattern (11 bp):
GAGGAAAAATC
Found at i:76099888 original size:15 final size:16
Alignment explanation
Indices: 76099849--76099891 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
76099839 TATAACTCTA
*
76099849 ATTTTATTGTTAAAATT
1 ATTTTATT-TTAAAAAT
76099866 ATTATTATTTTAAAAAT
1 ATT-TTATTTTAAAAAT
76099883 A-TTTATTTT
1 ATTTTATTTT
76099892 TATATATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 1 0.04
17 11 0.46
18 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTTATTTTAAAAAT
Done.