Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 14 of 313
Found at i:4417939 original size:57 final size:57
Alignment explanation
Indices: 4417852--4418011 Score: 200
Period size: 57 Copynumber: 2.8 Consensus size: 57
4417842 GGTTTATGAA
* * * * *
4417852 TTATGGGTTTAGGGATTATGGTTTATGGTTTAATAG-TTAGAGTTTAAGGTTTAGGGG
1 TTATGGGTTAAGGG-TTAAGGTTTAGGGTTTAATGGTTTAGAGTTTAAGGGTTAGGGG
* *
4417909 TTATGGGTTAAGGGTTAAGGGTTAGAGGTTT-ATGGTTTAGAGTCTAAGGGTTAGGGG
1 TTATGGGTTAAGGGTTAAGGTTTAG-GGTTTAATGGTTTAGAGTTTAAGGGTTAGGGG
*
4417966 TTAGGGGTTAAGGGTTAAGGATTTAGGGTTTAA-GGTTTAGAGTTTA
1 TTATGGGTTAAGGGTTAAGG-TTTAGGGTTTAATGGTTTAGAGTTTA
4418012 GTGTTTATGG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
56 11 0.12
57 73 0.82
58 5 0.06
ACGTcount: A:0.24, C:0.01, G:0.36, T:0.39
Consensus pattern (57 bp):
TTATGGGTTAAGGGTTAAGGTTTAGGGTTTAATGGTTTAGAGTTTAAGGGTTAGGGG
Found at i:4418004 original size:7 final size:7
Alignment explanation
Indices: 4417895--4418000 Score: 79
Period size: 7 Copynumber: 14.9 Consensus size: 7
4417885 TAGTTAGAGT
*
4417895 TTAAGGT
1 TTAAGGG
*
4417902 TTAGGGG
1 TTAAGGG
*
4417909 TTATGGG
1 TTAAGGG
4417916 TTAAGGG
1 TTAAGGG
4417923 TTAAGGG
1 TTAAGGG
4417930 TT-AGAGG
1 TTAAG-GG
* *
4417937 TTTATGG
1 TTAAGGG
* *
4417944 TTTAGAG
1 TTAAGGG
4417951 TCTAAGGG
1 T-TAAGGG
*
4417959 TTAGGGG
1 TTAAGGG
*
4417966 TTAGGGG
1 TTAAGGG
4417973 TTAAGGG
1 TTAAGGG
*
4417980 TTAAGGA
1 TTAAGGG
*
4417987 TTTAGGG
1 TTAAGGG
4417994 TTTAAGG
1 -TTAAGG
4418001 TTTAGAGTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
6 2 0.03
7 67 0.84
8 11 0.14
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:4418048 original size:57 final size:56
Alignment explanation
Indices: 4417888--4418045 Score: 185
Period size: 57 Copynumber: 2.8 Consensus size: 56
4417878 GGTTTAATAG
* * *
4417888 TTAGAGTTTAAGGTTTAGGGGTTATGGGTTAAGGGTTAAGGGTTAGAGGTTTATGGT
1 TTAGAGTTT-AGGTTTAGGGGTTAGGGGTTAAGGGTTAAGGTTTAGAGGTTTAAGGT
* *
4417945 TTAGAGTCTAAGGGTTAGGGGTTAGGGGTTAAGGGTTAAGGATTTAG-GGTTTAAGGT
1 TTAGAGT-TTAGGTTTAGGGGTTAGGGGTTAAGGGTTAAGG-TTTAGAGGTTTAAGGT
* * *
4418002 TTAGAGTTTAGTGTTTATGGGATAGGGGTTAGAGGCTT-AGGTTT
1 TTAGAGTTTAG-GTTTAGGGGTTAGGGGTTA-AGGGTTAAGGTTT
4418046 TAGATTAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
56 6 0.07
57 71 0.82
58 10 0.11
ACGTcount: A:0.23, C:0.01, G:0.39, T:0.37
Consensus pattern (56 bp):
TTAGAGTTTAGGTTTAGGGGTTAGGGGTTAAGGGTTAAGGTTTAGAGGTTTAAGGT
Found at i:4418583 original size:82 final size:80
Alignment explanation
Indices: 4418475--4418733 Score: 246
Period size: 73 Copynumber: 3.2 Consensus size: 80
4418465 TCGTAAACGA
*
4418475 CGTTTTAATAGGAGATTTAGGGGATTAGCGGCGTTTTGATATAAACGCCGCAAAAAGCAATATAG
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTT-ATATAAA-GCCGCAAAAAGCAATATAG
**
4418540 TATAACGAAAACGACAC
64 TATAACGAAAACGACGT
* * *
4418557 CGTTTTAATTGGAGATTTAGGGGATTAGCAGCGTTTT-T-T-----TGCAAAAAAC-ATAATAGT
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTTATATAAAGCCGCAAAAAGCAAT-ATAGT
* * ** *
4418614 TTATCCTAAACGTCGT
65 ATAACGAAAACGACGT
* * * *
4418630 TGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTCTTATAAAAAAAAGCCGCAAAAAAGCAAAAT
1 CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGT-TT-T-ATATAAAGCCGC-AAAAAGCAATAT
* *
4418695 AGTATAACGAGAACGGCGT
62 AGTATAACGAAAACGACGT
4418714 CGTTTTAATTGGAGATTTAG
1 CGTTTTAATTGGAGATTTAG
4418734 AGGAGAAATA
Statistics
Matches: 139, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
72 2 0.01
73 54 0.39
74 2 0.01
75 1 0.01
79 1 0.01
80 1 0.01
82 35 0.25
83 2 0.01
84 40 0.29
85 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (80 bp):
CGTTTTAATTGGAGATTTAGGGGATTAGCGGCGTTTTATATAAAGCCGCAAAAAGCAATATAGTA
TAACGAAAACGACGT
Found at i:4418760 original size:152 final size:149
Alignment explanation
Indices: 4418362--4418816 Score: 490
Period size: 152 Copynumber: 3.0 Consensus size: 149
4418352 GACGTTTTAC
* *
4418362 AAAAAAAAGCCGCAAAGAAGCAAAATAGTATAACGAGAACGACATCTTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* * * *
4418427 GGGATTTTAAAAAACGCCGCAAAAAACATAATAGTTTCTCGTAAACGAC--GTTTTAATAGGAGA
66 GGGA----AAAAAACGCCGCAAAAAACATAATAGTTTATCCTAAACGTCGTGTTTTAATTGGAGA
4418490 TTTAGGGGATTAGCGGCGTTTTG
127 TTTAGGGGATTAGCGGCGTTTTG
* * * * * *
4418513 ATATAAACGCCGC-AAAAAGCAATATAGTATAACGAAAACGACACCGTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* ** * **
4418577 GGGATTAGCAGCGTTTTTTTGCAAAAAACATAATAGTTTATCCTAAACGTCGTTGTTTTAATTGG
66 GGGA-AAAAAACG-----CCGCAAAAAACATAATAGTTTATCCTAAACGTCG-TGTTTTAATTGG
4418642 AGATTTAGGGGATTAGCGGCGTCTTAT-
124 AGATTTAGGGGATTAGCGGCGT-TT-TG
* *
4418669 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGGCGTCGTTTTAATTGGAGATTTAG
1 AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
* * * * * *
4418734 AGGAGAAATACGCCGCAAAAAAACATAATAGTTCATCTTAAACGTCGTCGTTTTAATTGGAAATT
66 GGGAAAAAAACGCCGC-AAAAAACATAATAGTTTATCCTAAACGTCGT-GTTTTAATTGGAGATT
*
4418799 TA-GGGAGTAGC-GCGTTTT
129 TAGGGGATTAGCGGCGTTTT
4418817 TTGGCATTTT
Statistics
Matches: 253, Mismatches: 38, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
147 5 0.02
148 1 0.00
149 2 0.01
150 54 0.21
151 21 0.08
152 73 0.29
155 32 0.13
156 15 0.06
157 50 0.20
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (149 bp):
AAAAAAAAGCCGCAAAAAAGCAAAATAGTATAACGAGAACGACATCGTTTTAATTGGAGATTTAG
GGGAAAAAAACGCCGCAAAAAACATAATAGTTTATCCTAAACGTCGTGTTTTAATTGGAGATTTA
GGGGATTAGCGGCGTTTTG
Found at i:4422661 original size:30 final size:30
Alignment explanation
Indices: 4422602--4422661 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
4422592 AAATATAAAA
*
4422602 AGAAAAAAATTACAATATATTTATTATTTT
1 AGAAAAAAATTACAATATATTTATCATTTT
*
4422632 AGAAAATAATTA-AATA-ATTTAATACATTTT
1 AGAAAAAAATTACAATATATTT-AT-CATTTT
4422662 TAACTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 6 0.23
30 16 0.62
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
AGAAAAAAATTACAATATATTTATCATTTT
Found at i:4422958 original size:9 final size:9
Alignment explanation
Indices: 4422946--4423339 Score: 139
Period size: 9 Copynumber: 45.4 Consensus size: 9
4422936 ATATCTTAAT
4422946 TTACATAAC
1 TTACATAAC
4422955 TTACATAAC
1 TTACATAAC
*
4422964 TTACAAAAC
1 TTACATAAC
*
4422973 TTAAATAA-
1 TTACATAAC
*
4422981 -TAAATAA-
1 TTACATAAC
* *
4422988 ATATATAAC
1 TTACATAAC
*
4422997 TTACATAGC
1 TTACATAAC
*
4423006 TTACGTAA-
1 TTACATAAC
4423014 -TACATAA-
1 TTACATAAC
* * **
4423021 ATATAT-TT
1 TTACATAAC
*
4423029 TATATCATAAT
1 T-TA-CATAAC
4423040 TTACATAAC
1 TTACATAAC
*
4423049 TTACATACC
1 TTACATAAC
*
4423058 TTACATAAA
1 TTACATAAC
* *
4423067 TT-TATATC
1 TTACATAAC
*
4423075 ATATCATAAC
1 TTA-CATAAC
4423085 TTACATAAC
1 TTACATAAC
*
4423094 TTACAAAAC
1 TTACATAAC
4423103 TTACATAA-
1 TTACATAAC
4423111 -TACATAA-
1 TTACATAAC
* *
4423118 ATATATAAC
1 TTACATAAC
4423127 TTACATAAC
1 TTACATAAC
**
4423136 TTATGTAA-
1 TTACATAAC
4423144 -TACATAA-
1 TTACATAAC
* * **
4423151 ATATATTTC
1 TTACATAAC
* * *
4423160 ATATCTTAAT
1 TTA-CATAAC
4423170 TTACATAAC
1 TTACATAAC
4423179 TTACATAAC
1 TTACATAAC
*
4423188 TTACAAAAC
1 TTACATAAC
*
4423197 TTAAATAA-
1 TTACATAAC
*
4423205 -TAAATAA-
1 TTACATAAC
* *
4423212 ATATATAAC
1 TTACATAAC
*
4423221 TTACATAGC
1 TTACATAAC
*
4423230 TTACGTAA-
1 TTACATAAC
4423238 -TACATAA-
1 TTACATAAC
* * **
4423245 ATATAT-TT
1 TTACATAAC
*
4423253 TATATCATAAT
1 T-TA-CATAAC
4423264 TTACATAAC
1 TTACATAAC
*
4423273 TTACATACC
1 TTACATAAC
*
4423282 TTACATAAA
1 TTACATAAC
* *
4423291 TT-TATATC
1 TTACATAAC
*
4423299 ATATCATAAC
1 TTA-CATAAC
4423309 TTACATAAC
1 TTACATAAC
*
4423318 TTACAAAAC
1 TTACATAAC
*
4423327 TTACTTAAC
1 TTACATAAC
4423336 TTAC
1 TTAC
4423340 GTAATACATA
Statistics
Matches: 287, Mismatches: 75, Indels: 46
0.70 0.18 0.11
Matches are distributed among these distances:
7 38 0.13
8 38 0.13
9 184 0.64
10 23 0.08
11 4 0.01
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:4423105 original size:130 final size:130
Alignment explanation
Indices: 4422949--4423330 Score: 437
Period size: 130 Copynumber: 2.9 Consensus size: 130
4422939 TCTTAATTTA
*
4422949 CATAACTTACATAACTTACAAAACTTAAATAATAAATAAATATATAACTTACATAGCTTACGTAA
1 CATAACTTACATAACTTACAAAACTTAAATAATAAATAAATATATAACTTACATAACTTACGTAA
* *
4423014 TACATAAATATATTTTATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATAT
66 TACATAAATATATTTCATATCATAATTTACATAACTTACATAACTTACATAAATTTATATCATAT
* * *
4423079 CATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACTTACATAACTTATGTAA
1 CATAACTTACATAACTTACAAAACTTAAATAATAAATAAATATATAACTTACATAACTTACGTAA
* * * *
4423144 TACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACA-AAACTTAAATAATA-
66 TACATAAATATATTTCATATCATAATTTACATAACTTACATAACTTACATAAATTTATATCATAT
* * * * * *
4423207 AATAA-ATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATA
1 CATAACTTACATAACTTACAAAACTTA---AATA-ATAAATA-A----ATAT-ATAACTTACATA
* * * * * *
4423271 ACTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTAC
56 ACTTACGTA--ATACATAAATATATTTCATATCATAATTTACATAACTTACATAACTTAC
4423331 TTAACTTACG
Statistics
Matches: 214, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
127 17 0.08
128 4 0.02
129 11 0.05
130 110 0.51
131 6 0.03
132 1 0.00
136 4 0.02
137 18 0.08
139 43 0.20
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (130 bp):
CATAACTTACATAACTTACAAAACTTAAATAATAAATAAATATATAACTTACATAACTTACGTAA
TACATAAATATATTTCATATCATAATTTACATAACTTACATAACTTACATAAATTTATATCATAT
Found at i:4423148 original size:94 final size:89
Alignment explanation
Indices: 4423066--4423321 Score: 313
Period size: 94 Copynumber: 2.8 Consensus size: 89
4423056 CCTTACATAA
4423066 ATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACTTAC
1 ATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACTTAC
*
4423131 ATAACTTATGTAATACATAAATAT
66 ATAACTTACGTAATACATAAATAT
* * *
4423155 ATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATAAATAAATATATAA
1 ATTT-ATATC---ATAT-CATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAA
*
4423220 CTTACATAGCTTACGTAATACATAAATAT
61 CTTACATAACTTACGTAATACATAAATAT
* * * ** *
4423249 A-TT-T-T-ATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATCATAACT
1 ATTTATATCATATCATAACTTACATAACTTACAAAACTTACAT-AATACATA-AATAT-ATAACT
4423310 TACATAACTTAC
63 TACATAACTTAC
4423322 AAAACTTACT
Statistics
Matches: 145, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
85 26 0.18
86 9 0.06
87 4 0.03
88 17 0.12
89 4 0.03
90 6 0.04
91 1 0.01
93 5 0.03
94 73 0.50
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (89 bp):
ATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACTTAC
ATAACTTACGTAATACATAAATAT
Found at i:4423167 original size:29 final size:31
Alignment explanation
Indices: 4423094--4423250 Score: 99
Period size: 33 Copynumber: 5.0 Consensus size: 31
4423084 CTTACATAAC
* **
4423094 TTACAAAACTTACATAATACATAAATATATAA
1 TTACATAACTTATGTAATACATAAATATAT-A
4423126 CTTACATAACTTATGTAATACATAAATATAT-
1 -TTACATAACTTATGTAATACATAAATATATA
* * *
4423157 TT-CATATCTTAAT-T--TACATAACTTACATAA
1 TTACATAACTT-ATGTAATACATAA-ATATAT-A
* ** *
4423187 CTTACAAAACTTAAATAATAAATAAATATATAA
1 -TTACATAACTTATGTAATACATAAATATAT-A
* *
4423220 CTTACATAGCTTACGTAATACATAAATATAT
1 -TTACATAACTTATGTAATACATAAATATAT
4423251 TTTATATCAT
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
27 7 0.07
28 4 0.04
29 8 0.08
30 4 0.04
31 3 0.03
32 7 0.07
33 59 0.60
34 6 0.06
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (31 bp):
TTACATAACTTATGTAATACATAAATATATA
Found at i:4423174 original size:85 final size:85
Alignment explanation
Indices: 4423030--4423321 Score: 305
Period size: 94 Copynumber: 3.3 Consensus size: 85
4423020 AATATATTTT
* * * * * *
4423030 ATATCATAATTTACATAACTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACT
1 ATAT-ATAACTTACATAACTTACGTA--ATACATAAATATATTTCATATCATAATTTACATAACT
*
4423095 TACAAAACTTACATAATACATAA
63 TACAAAACTTACATAATAAATAA
*
4423118 ATATATAACTTACATAACTTATGTAATACATAAATATATTTCATATCTTAATTTACATAACTTAC
1 ATATATAACTTACATAACTTACGTAATACATAAATATATTTCATATC---A--TA-AT---TTAC
*
4423183 ATAACTTACAAAACTTAAATAATAAATAA
57 ATAACTTACAAAACTTACATAATAAATAA
* *
4423212 ATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAACTTACATAACTTACGTAATACATAAATATATTTCATATCATAATTTACATAACTTAC
* * ** *
4423277 ATACCTTACATAAATTTATATC
66 AAAACTTACAT-AATAAATA-A
4423299 ATATCATAACTTACATAACTTAC
1 ATAT-ATAACTTACATAACTTAC
4423322 AAAACTTACT
Statistics
Matches: 173, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
85 40 0.23
86 6 0.03
87 22 0.13
88 24 0.14
89 2 0.01
90 2 0.01
91 2 0.01
94 75 0.43
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (85 bp):
ATATATAACTTACATAACTTACGTAATACATAAATATATTTCATATCATAATTTACATAACTTAC
AAAACTTACATAATAAATAA
Found at i:4423285 original size:224 final size:224
Alignment explanation
Indices: 4422918--4423330 Score: 826
Period size: 224 Copynumber: 1.8 Consensus size: 224
4422908 TAATATGAAA
4422918 AATACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATA
1 AATACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATA
4422983 AATAAATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAA
66 AATAAATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAA
4423048 CTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATA
131 CTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATA
4423113 CATAAATATATAACTTACATAACTTATGT
196 CATAAATATATAACTTACATAACTTATGT
4423142 AATACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATA
1 AATACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATA
4423207 AATAAATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAA
66 AATAAATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAA
4423272 CTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTAC
131 CTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTAC
4423331 TTAACTTACG
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 189 1.00
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (224 bp):
AATACATAAATATATTTCATATCTTAATTTACATAACTTACATAACTTACAAAACTTAAATAATA
AATAAATATATAACTTACATAGCTTACGTAATACATAAATATATTTTATATCATAATTTACATAA
CTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTACAAAACTTACATAATA
CATAAATATATAACTTACATAACTTATGT
Found at i:4428466 original size:13 final size:14
Alignment explanation
Indices: 4428450--4428478 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4428440 TTATAAATAT
4428450 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
4428463 TTATAATGGTTTAA
1 TTATAATGGTTTAA
4428477 TT
1 TT
4428479 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:4428927 original size:21 final size:21
Alignment explanation
Indices: 4428887--4428943 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
4428877 ACTTAGAGCG
* * *
4428887 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGATGAAGGCA
* *
4428908 GCGGTAGCAGCGATGAAGGCA
1 GAGGCAGCAGCGATGAAGGCA
4428929 GAGGCAGCAGCGATG
1 GAGGCAGCAGCGATG
4428944 GCAGTAGAGC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.47, T:0.05
Consensus pattern (21 bp):
GAGGCAGCAGCGATGAAGGCA
Found at i:4429346 original size:43 final size:43
Alignment explanation
Indices: 4429325--4429544 Score: 193
Period size: 43 Copynumber: 5.2 Consensus size: 43
4429315 AAAAAGCGCT
4429325 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCC
* * * *
4429368 GCTAAAAGTCATGGCTTTTAGCAGCGCTTTTCTC-ACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGC-TTTCCCAAAAAATGCC
* * * * * *
4429411 GCTAAAAGTCATTGCCTTTAGCGGCACTTCCCCAACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCC
* * * *
4429454 GCTAAAAG-C----CCTTTAGCGGCGCTTCCCCAACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCC
* * * * * *
4429492 GCTAAAGGTCATGACTTTTAGCGGCGATTTTCTC-ACAAACGCC
1 GCTAAAAGTCATGGCTTTTAGCGGCG-CTTTCCCAAAAAATGCC
4429535 GCTAAAAGTC
1 GCTAAAAGTC
4429545 TTGATCTTTT
Statistics
Matches: 152, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
38 35 0.23
39 1 0.01
42 5 0.03
43 102 0.67
44 9 0.06
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCC
Found at i:4429512 original size:81 final size:82
Alignment explanation
Indices: 4429325--4429544 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 82
4429315 AAAAAGCGCT
* * * *
4429325 GCTAAAAGTCATGGCTTTTAGCGGCGCTTTCCCAAAAAATGCCGCTAAAAGTCATGGCTTTTAGC
1 GCTAAAAGTCAT-GCTTTTAGCGGCACTTTCCCAACAAACGCCGCTAAAAGTC---GCCTTTAGC
* *
4429390 AGCGCTTTTCTCACAAACGCC
62 AGCGCTTTCCCCACAAACGCC
* * *
4429411 GCTAAAAGTCATTGCCTTTAGCGGCACTTCCCCAACAAACGCCGCTAAAAG-C-CCTTTAGCGGC
1 GCTAAAAGTCA-TGCTTTTAGCGGCACTTTCCCAACAAACGCCGCTAAAAGTCGCCTTTAGCAGC
4429474 GC-TTCCCCAACAAACGCC
65 GCTTTCCCC-ACAAACGCC
* * *
4429492 GCTAAAGGTCATGACTTTTAGCGGCGATTTTCTC-ACAAACGCCGCTAAAAGTC
1 GCTAAAAGTCATG-CTTTTAGCGGC-ACTTTCCCAACAAACGCCGCTAAAAGTC
4429545 TTGATCTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
80 6 0.05
81 57 0.50
82 6 0.05
85 1 0.01
86 44 0.38
87 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (82 bp):
GCTAAAAGTCATGCTTTTAGCGGCACTTTCCCAACAAACGCCGCTAAAAGTCGCCTTTAGCAGCG
CTTTCCCCACAAACGCC
Found at i:4435414 original size:20 final size:20
Alignment explanation
Indices: 4435389--4435443 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
4435379 TACAGGGGTC
4435389 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
4435409 ACACGCCCGTGTGGTTTGGG
1 ACACGCCCGTGTGGTTTGGG
4435429 ACACGCCCGTGTGGT
1 ACACGCCCGTGTGGT
4435444 CACACACGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (20 bp):
ACACGCCCGTGTGGTTTGGG
Found at i:4439253 original size:13 final size:13
Alignment explanation
Indices: 4439237--4439262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4439227 ATTTTATGCA
4439237 AACAAATGGTTTT
1 AACAAATGGTTTT
4439250 AACAAATGGTTTT
1 AACAAATGGTTTT
4439263 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:4439645 original size:29 final size:29
Alignment explanation
Indices: 4439571--4439667 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
4439561 GATGTGGGAA
*
4439571 AAAAATAGAAAAAATA--AAAA-TA-AAT
1 AAAAATATAAAAAATATTAAAATTATAAT
* * *
4439596 AAAAGTTATAAAAATTATT-AAATTTTAAT
1 AAAA-ATATAAAAAATATTAAAATTATAAT
4439625 AAAAATATAAAAAATATTTAAAATTATAA-
1 AAAAATATAAAAAATA-TTAAAATTATAAT
*
4439654 AAAAATAAAAAAAA
1 AAAAATATAAAAAA
4439668 ACGTAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
25 4 0.07
26 9 0.16
27 3 0.05
28 11 0.19
29 22 0.39
30 8 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAATATAAAAAATATTAAAATTATAAT
Found at i:4439695 original size:20 final size:20
Alignment explanation
Indices: 4439626--4439706 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
4439616 AATTTTAATA
*
4439626 AAAATATA-AAAAATATT-T
1 AAAATATAGAAAAAAATTAT
*
4439644 AAAAT-TATAAAAAAA-TA-
1 AAAATATAGAAAAAAATTAT
* * *
4439661 AAAAAAAACGTAAAAAATTAT
1 AAAATATA-GAAAAAAATTAT
4439682 AAAATATAGAAAAAAATTAT
1 AAAATATAGAAAAAAATTAT
*
4439702 GAAAT
1 AAAAT
4439707 TTTTTAAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.15
18 12 0.25
19 6 0.12
20 17 0.35
21 6 0.12
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATATAGAAAAAAATTAT
Found at i:4439969 original size:9 final size:9
Alignment explanation
Indices: 4439957--4440103 Score: 73
Period size: 10 Copynumber: 15.4 Consensus size: 9
4439947 TTTTTATGTA
4439957 TTTTATAATT
1 TTTTATAA-T
*
4439967 TTTTATGAT
1 TTTTATAAT
*
4439976 TTTTATAAAA
1 TTTTAT-AAT
*
4439986 TTTTACAATT
1 TTTTATAA-T
* *
4439996 TTTTTTTAT
1 TTTTATAAT
*
4440005 TTTTTTACGAT
1 TTTTATA--AT
*
4440016 TTTTATATT
1 TTTTATAAT
*
4440025 TTATTCTAAT
1 TT-TTATAAT
*
4440035 TTTTATTATT
1 TTTTA-TAAT
4440045 TTTTATTAAAT
1 TTTTA-T-AAT
*
4440056 TTTAATAAT
1 TTTTATAAT
*
4440065 TTTTATAAA
1 TTTTATAAT
*
4440074 TTTTATTGAT
1 TTTTA-TAAT
4440084 TTTTAT--T
1 TTTTATAAT
*
4440091 TTTTACAAT
1 TTTTATAAT
4440100 TTTT
1 TTTT
4440104 TCACATGTCA
Statistics
Matches: 105, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
7 6 0.06
9 42 0.40
10 43 0.41
11 14 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4439969 original size:19 final size:19
Alignment explanation
Indices: 4439945--4440050 Score: 72
Period size: 19 Copynumber: 5.5 Consensus size: 19
4439935 ACTAGAGAGC
4439945 ATTTTTTATG-TATTTTATA
1 ATTTTTTATGAT-TTTTATA
4439964 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
** ** *
4439983 AAATTTTACAATTTTTTTTTA
1 ATTTTTTATGA--TTTTTATA
* *
4440004 TTTTTTTACGATTTTTAT-
1 ATTTTTTATGATTTTTATA
* * *
4440022 ATTTTATTCTAATTTTTATT
1 ATTTT-TTATGATTTTTATA
4440042 ATTTTTTAT
1 ATTTTTTAT
4440051 TAAATTTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
18 4 0.06
19 43 0.64
20 6 0.09
21 14 0.21
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:4439988 original size:29 final size:29
Alignment explanation
Indices: 4439956--4440079 Score: 90
Period size: 29 Copynumber: 4.2 Consensus size: 29
4439946 TTTTTTATGT
*
4439956 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATAATTTTTATAAA
* * * * **
4439985 ATTTTACAATTTTTTTTTATTTTTTTACG
1 ATTTTATAATTTTTTATAATTTTTATAAA
* * *
4440014 ATTTT-TATATTTTATTCTAATTTTTATTAT
1 ATTTTATA-ATTTT-TTATAATTTTTATAAA
* * *
4440044 TTTTTATTAAATTTTAATAATTTTTAT-AA
1 ATTTTA-TAATTTTTTATAATTTTTATAAA
4440073 ATTTTAT
1 ATTTTAT
4440080 TGATTTTTAT
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
28 2 0.03
29 39 0.54
30 25 0.35
31 4 0.06
32 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (29 bp):
ATTTTATAATTTTTTATAATTTTTATAAA
Found at i:4440073 original size:19 final size:19
Alignment explanation
Indices: 4440044--4440089 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4440034 TTTTTATTAT
4440044 TTTTTATTAAATTTTAATAA
1 TTTTTA-TAAATTTTAATAA
* *
4440064 TTTTTATAAATTTTATTGA
1 TTTTTATAAATTTTAATAA
4440083 TTTTTAT
1 TTTTTAT
4440090 TTTTTACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTATAAATTTTAATAA
Found at i:4443930 original size:18 final size:19
Alignment explanation
Indices: 4443920--4443987 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
4443910 TAACAAAAAG
4443920 AATAAAA-ATAAAAATAAA
1 AATAAAAGATAAAAATAAA
4443938 AATAAAAGATAAAAGATAAA
1 AATAAAAGATAAAA-ATAAA
*
4443958 AAT-AAAGATAAACATAAA
1 AATAAAAGATAAAAATAAA
* *
4443976 CATAAAAAATAA
1 AATAAAAGATAA
4443988 TCAGACTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
18 14 0.32
19 22 0.50
20 8 0.18
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAGATAAAAATAAA
Found at i:4443939 original size:7 final size:6
Alignment explanation
Indices: 4443920--4443983 Score: 83
Period size: 6 Copynumber: 10.3 Consensus size: 6
4443910 TAACAAAAAG
*
4443920 AATAAA AATAAA AATAAA AATAAA AGATAAA AGATAAA AATAAA GATAAA
1 AATAAA AATAAA AATAAA AATAAA A-ATAAA A-ATAAA AATAAA AATAAA
* *
4443970 CATAAA CATAAA AA
1 AATAAA AATAAA AA
4443984 ATAATCAGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
6 41 0.76
7 13 0.24
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:4443944 original size:26 final size:26
Alignment explanation
Indices: 4443915--4443969 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
4443905 AGACATAACA
4443915 AAAAGAATAAAA-ATAAAAATAAAAAT
1 AAAAG-ATAAAAGATAAAAATAAAAAT
*
4443941 AAAAGATAAAAGATAAAAATAAAGAT
1 AAAAGATAAAAGATAAAAATAAAAAT
4443967 AAA
1 AAA
4443970 CATAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (26 bp):
AAAAGATAAAAGATAAAAATAAAAAT
Found at i:4445561 original size:23 final size:22
Alignment explanation
Indices: 4445523--4445599 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
4445513 TCAAACCAAT
* *
4445523 AGAATAAAAATAAATAATTAAA
1 AGAATAAAAAAAAATAATGAAA
*
4445545 AGAATAAAAAAATAATAATGACA
1 AGAATAAAAAAA-AATAATGAAA
4445568 AGAATAATAATAAGAACATAAT-AAA
1 AGAATAA-AA-AA-AA-ATAATGAAA
4445593 A-AATAAA
1 AGAATAAA
4445600 GAATAGTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.24
23 16 0.35
24 7 0.15
25 6 0.13
26 6 0.13
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (22 bp):
AGAATAAAAAAAAATAATGAAA
Found at i:4471887 original size:19 final size:19
Alignment explanation
Indices: 4471863--4471929 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 19
4471853 AAATTTGTAA
4471863 ATAATAATATTTTTAAATT
1 ATAATAATATTTTTAAATT
*
4471882 ATAAT-ATGTTTTTAAATT
1 ATAATAATATTTTTAAATT
*
4471900 AATACA-ATATAATTTTAAAATT
1 -ATA-ATA-AT-ATTTTTAAATT
4471922 ATAATAAT
1 ATAATAAT
4471930 TAGATTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
18 12 0.31
19 8 0.21
20 4 0.10
21 6 0.15
22 9 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
ATAATAATATTTTTAAATT
Found at i:4471895 original size:18 final size:16
Alignment explanation
Indices: 4471855--4471900 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4471845 AATTTTTTAA
* *
4471855 ATTTGTAAATAATAAT
1 ATTTTTAAATTATAAT
4471871 ATTTTTAAATTATAAT
1 ATTTTTAAATTATAAT
4471887 ATGTTTTTAAATTA
1 A--TTTTTAAATTA
4471901 ATACAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
18 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
ATTTTTAAATTATAAT
Found at i:4478428 original size:10 final size:10
Alignment explanation
Indices: 4478413--4478459 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
4478403 AGGAAAGCGG
4478413 GAGAGGGAGA
1 GAGAGGGAGA
4478423 GAGAGGGAG-
1 GAGAGGGAGA
4478432 G-GAGGG-G-
1 GAGAGGGAGA
4478439 GAGAGGGAGA
1 GAGAGGGAGA
4478449 GTA-AGGGAGA
1 G-AGAGGGAGA
4478459 G
1 G
4478460 GGTGGAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 2 0.06
8 10 0.30
9 2 0.06
10 18 0.55
11 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.64, T:0.02
Consensus pattern (10 bp):
GAGAGGGAGA
Found at i:4478469 original size:26 final size:25
Alignment explanation
Indices: 4478411--4478471 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
4478401 ATAGGAAAGC
4478411 GGGAGAGGGAGAGAGAGGGAGGGAGG
1 GGGAGAGGGAGAGAGAGGGA-GGAGG
4478437 GGGAGAGGGAGAGTA-AGGGA-GAGG
1 GGGAGAGGGAGAG-AGAGGGAGGAGG
4478461 GTGGAAGAGGG
1 G-GG-AGAGGG
4478472 GGGAAGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.16
25 2 0.06
26 24 0.75
27 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (25 bp):
GGGAGAGGGAGAGAGAGGGAGGAGG
Found at i:4478597 original size:27 final size:27
Alignment explanation
Indices: 4478567--4478658 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
4478557 ATTGTTATTT
4478567 AATTTAAATATAATATTTATTTGTTAA
1 AATTTAAATATAATATTTATTTGTTAA
*** * *
4478594 AATTTTGGTACAATATTTGAATATG-T-A
1 AATTTAAATATAATATTT--ATTTGTTAA
* **
4478621 AATTTAAATATATTATTT-TTCATTAA
1 AATTTAAATATAATATTTATTTGTTAA
*
4478647 AATTTGAATATA
1 AATTTAAATATA
4478659 TAATCAAAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 9
0.67 0.20 0.13
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 12 0.26
27 28 0.60
28 1 0.02
29 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (27 bp):
AATTTAAATATAATATTTATTTGTTAA
Found at i:4478720 original size:35 final size:35
Alignment explanation
Indices: 4478681--4478752 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
4478671 CACCAATATT
* *
4478681 TAAAATTTGGAAAAGGAAAAAATACTTAGAAATTG
1 TAAAATTTGAAAAACGAAAAAATACTTAGAAATTG
* *
4478716 TAAAATTTGAAAAACTAAAAGATACTTAGAAATTG
1 TAAAATTTGAAAAACGAAAAAATACTTAGAAATTG
4478751 TA
1 TA
4478753 TAAGTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (35 bp):
TAAAATTTGAAAAACGAAAAAATACTTAGAAATTG
Found at i:4494356 original size:25 final size:25
Alignment explanation
Indices: 4494328--4494377 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4494318 CACTATCAAT
4494328 TAGTGATCAAGTTATCCATCACAAA
1 TAGTGATCAAGTTATCCATCACAAA
4494353 TAGTGATCAAGTTATCCATCACAAA
1 TAGTGATCAAGTTATCCATCACAAA
4494378 GACGGACGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (25 bp):
TAGTGATCAAGTTATCCATCACAAA
Found at i:4500999 original size:19 final size:19
Alignment explanation
Indices: 4500963--4501034 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 19
4500953 GCACTAGGTG
*
4500963 ACGTTTTGAAAATTAATAA
1 ACGTTTTGAAAATGAATAA
4500982 ACGTTTTGAAAGA-GAAT-A
1 ACGTTTTGAAA-ATGAATAA
*
4501000 AC--TTTGTAATAATGAAT-T
1 ACGTTTTG-AA-AATGAATAA
*
4501018 ACATTTTGAAAATGAAT
1 ACGTTTTGAAAATGAAT
4501035 GACATGTCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
16 4 0.09
17 3 0.07
18 17 0.38
19 16 0.36
20 5 0.11
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (19 bp):
ACGTTTTGAAAATGAATAA
Found at i:4513715 original size:44 final size:44
Alignment explanation
Indices: 4513565--4513717 Score: 139
Period size: 47 Copynumber: 3.3 Consensus size: 44
4513555 GAACTGAGTA
* ** * *
4513565 TCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAATGTAAGACGTG
1 TCTGGGACAT-GCATCGGC-TA-AGCTTCGTGCCAGTGTAAGACATG
* * *
4513612 TCTGGGACATGCATCAGC-CA-CATTACGATAGCCAGTGTAAAACCATG
1 TCTGGGACATGCATCGGCTAAGC-TT-CG-T-GCCAGTGTAAGA-CATG
*
4513659 TCTGGGACATGCATCGGCTAAGCTTCGTGCCAGTATAAGACATG
1 TCTGGGACATGCATCGGCTAAGCTTCGTGCCAGTGTAAGACATG
4513703 TCTGGGACATGCATC
1 TCTGGGACATGCATC
4513718 AGCACTTATA
Statistics
Matches: 87, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.02
44 20 0.23
45 11 0.13
46 18 0.21
47 32 0.37
48 3 0.03
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (44 bp):
TCTGGGACATGCATCGGCTAAGCTTCGTGCCAGTGTAAGACATG
Found at i:4513791 original size:49 final size:47
Alignment explanation
Indices: 4513565--4513817 Score: 180
Period size: 49 Copynumber: 5.3 Consensus size: 47
4513555 GAACTGAGTA
* * * * *
4513565 TCTGGGACATGGCATCGGCGTAGAGATGAGT-GCCAATGTAAGA-CGTG
1 TCTGGGACAT-GCATCGGCCTAGATAAGA-TAGCCAGTGTAAGACCATG
* * * *
4513612 TCTGGGACATGCATCAGCC-ACATTACGATAGCCAGTGTAAAACCATG
1 TCTGGGACATGCATCGGCCTAGA-TAAGATAGCCAGTGTAAGACCATG
* ** *
4513659 TCTGGGACATGCATCGG-CTAAGCTTCG-T-GCCAGTATAAGA-CATG
1 TCTGGGACATGCATCGGCCT-AGATAAGATAGCCAGTGTAAGACCATG
* * * * *
4513703 TCTGGGACATGCATCAGCACT-TATACACGAGAGCTAGTGTAAGACCATA
1 TCTGGGACATGCATCGGC-CTAGATA-A-GATAGCCAGTGTAAGACCATG
*
4513752 TCTGGGACATGGCATCGGCCTCGATGAAGATAGCCAGTGTAAGACCATG
1 TCTGGGACAT-GCATCGGCCTAGAT-AAGATAGCCAGTGTAAGACCATG
*
4513801 TCTGGGACTTGGCATCG
1 TCTGGGACAT-GCATCG
4513818 ACAACTTAAC
Statistics
Matches: 162, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
44 21 0.13
45 13 0.08
46 25 0.15
47 32 0.20
48 11 0.07
49 49 0.30
50 10 0.06
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (47 bp):
TCTGGGACATGCATCGGCCTAGATAAGATAGCCAGTGTAAGACCATG
Found at i:4514609 original size:55 final size:55
Alignment explanation
Indices: 4514494--4514612 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
4514484 CTTAAACTTT
* * * * * *
4514494 TAAGTCAGTATTTTCCATGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGCGCCATAGCAGTGCCTA
* *
4514549 TAAGTCAGTATTGTCTACGAGTAGGCCACACGGGCGTGCGTCAT-GACAGTGCCCTA
1 TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGCGCCATAG-CAGTG-CCTA
4514605 -AAGTCAGT
1 TAAGTCAGT
4514613 GTTGCACACG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 50 0.93
56 3 0.06
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGCGCCATAGCAGTGCCTA
Found at i:4534775 original size:19 final size:20
Alignment explanation
Indices: 4534751--4534788 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4534741 ATAATACCCA
4534751 CCATATC-AAATTTTCAAAG
1 CCATATCAAAATTTTCAAAG
4534770 CCATATCAAAATTTTCAAA
1 CCATATCAAAATTTTCAAA
4534789 CGTAAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (20 bp):
CCATATCAAAATTTTCAAAG
Found at i:4537493 original size:24 final size:24
Alignment explanation
Indices: 4537461--4537506 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4537451 CATTGGAGGT
4537461 TTAGATTTGTACATAAATCTCTCA
1 TTAGATTTGTACATAAATCTCTCA
4537485 TTAGATTTGTACATAAATCTCT
1 TTAGATTTGTACATAAATCTCT
4537507 TGGTAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (24 bp):
TTAGATTTGTACATAAATCTCTCA
Found at i:4539456 original size:41 final size:40
Alignment explanation
Indices: 4539285--4539440 Score: 154
Period size: 41 Copynumber: 3.9 Consensus size: 40
4539275 GGGTCTAAAT
4539285 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG-TAATAA
* ** * * ** *
4539326 CCAAAATTAGTTTCGAAGGGCTTTAAAGCCAGTGTCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTAATAA
* * * *
4539366 CCG-GACTTAGT-TCCGAAGGGCCTTTGAGCCAGTGGACTAA
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGTGTAATAA
4539406 TCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG
1 -CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG
4539441 CTAAGAATCG
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.36
41 55 0.60
42 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTAATAA
Found at i:4548136 original size:21 final size:21
Alignment explanation
Indices: 4548110--4548149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4548100 GACAAGCGAC
* *
4548110 ACTCTACAGCAGGTGGAGTGT
1 ACTCTAAAACAGGTGGAGTGT
4548131 ACTCTAAAACAGGTGGAGT
1 ACTCTAAAACAGGTGGAGT
4548150 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (21 bp):
ACTCTAAAACAGGTGGAGTGT
Found at i:4552864 original size:26 final size:26
Alignment explanation
Indices: 4552826--4552875 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4552816 TATTTTTTGA
4552826 AAATTTTATAATTTTT-TAGAAAATAT
1 AAATTTTATAATTTTTATA-AAAATAT
4552852 AAATTTTGA-AATTTTTATAAAAAT
1 AAATTTT-ATAATTTTTATAAAAAT
4552876 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATTTTATAATTTTTATAAAAATAT
Found at i:4573337 original size:121 final size:120
Alignment explanation
Indices: 4573112--4573339 Score: 316
Period size: 121 Copynumber: 1.9 Consensus size: 120
4573102 TTCATTTTTC
* * *
4573112 TATCATTTAATTTGCATTCTTAGGTTAGTTATCATACATTTTGTGATAAATCAAGTTATTAGGAA
1 TATCATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCTGTGATAAATCAAG-TATTAGGAA
* *
4573177 CACCTCATACCCTGACATTACTATGTTTATTCTCATGTTATTACCATACCAATGTA
65 AACCTCATACCCTGACATTACTATGTTCATTCTCATGTTATTACCATACCAATGTA
* **
4573233 TATCATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCTGTGTTAAATTGAG-ATTAGGAAA
1 TATCATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCTGTGATAAATCAAGTATTAGGAAA
* *
4573297 ACCTCATACCCATTACATTTCTAT-TCTCATTCTCATTGTTATT
66 ACCTCATACCC-TGACATTACTATGT-TCATTCTCA-TGTTATT
4573340 GTGGTTGAGT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
119 20 0.21
120 18 0.19
121 56 0.60
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (120 bp):
TATCATTTAATTTGCATTCCTAAGTTAGTTATCATACATTCTGTGATAAATCAAGTATTAGGAAA
ACCTCATACCCTGACATTACTATGTTCATTCTCATGTTATTACCATACCAATGTA
Found at i:4578423 original size:28 final size:29
Alignment explanation
Indices: 4578385--4578447 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
4578375 TATTTCTTTA
*
4578385 AATTTACAAAAAAAAAGACTTATAAGGCT
1 AATTTACAAAAAAAAAGACATATAAGGCT
* * *
4578414 AATTTA-AAAAATAAAGGCATATATGGCT
1 AATTTACAAAAAAAAAGACATATAAGGCT
4578442 AATTTA
1 AATTTA
4578448 GCCCAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (29 bp):
AATTTACAAAAAAAAAGACATATAAGGCT
Found at i:4582200 original size:44 final size:44
Alignment explanation
Indices: 4582137--4582226 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
4582127 TCTAATAAGC
4582137 CTATACCAATTATATTGTTTGTCACCCTTAGCTAAGAATATTCT
1 CTATACCAATTATATTGTTTGTCACCCTTAGCTAAGAATATTCT
4582181 CTATACCAATTATATTGTTTGTCACCCTTAGCTAAGAATATTCT
1 CTATACCAATTATATTGTTTGTCACCCTTAGCTAAGAATATTCT
4582225 CT
1 CT
4582227 CGGTCTCATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (44 bp):
CTATACCAATTATATTGTTTGTCACCCTTAGCTAAGAATATTCT
Found at i:4592363 original size:20 final size:18
Alignment explanation
Indices: 4592338--4592402 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
4592328 AATTACAAAA
4592338 AAAATAGTTTTCAAAAATTT
1 AAAATA-TTTT-AAAAATTT
* *
4592358 AAAATATTTTTTTAAAATTA
1 AAAATA--TTTTAAAAATTT
4592378 AAAATATTTATAAAAATTTT
1 AAAATATTT-TAAAAA-TTT
4592398 AAAAT
1 AAAAT
4592403 TTATTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 5 0.14
20 25 0.68
21 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATATTTTAAAAATTT
Found at i:4592956 original size:2 final size:2
Alignment explanation
Indices: 4592949--4592978 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4592939 TTCTTTTCTT
4592949 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4592979 TACTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4595274 original size:14 final size:13
Alignment explanation
Indices: 4595237--4595276 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
4595227 AAACTGTATA
4595237 GTATTTTTGTAAT
1 GTATTTTTGTAAT
*
4595250 GAAATTTTTGTAAT
1 G-TATTTTTGTAAT
4595264 GTATTTATTGTAA
1 GTATTT-TTGTAA
4595277 AATTTATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
GTATTTTTGTAAT
Found at i:4598840 original size:25 final size:25
Alignment explanation
Indices: 4598794--4598842 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4598784 TTGTTTTTAA
*
4598794 TAGTATATCTTGAAACTGCTATAGG
1 TAGTATATCTTGAAACTACTATAGG
* * *
4598819 TAGTATATGTTGAGATTACTATAG
1 TAGTATATCTTGAAACTACTATAG
4598843 ATAGACTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
TAGTATATCTTGAAACTACTATAGG
Found at i:4601762 original size:21 final size:21
Alignment explanation
Indices: 4601736--4601785 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
4601726 TCAGCTTAAG
4601736 ACACATGAGACAAATTATCCA
1 ACACATGAGACAAATTATCCA
*
4601757 ACACATGAGGCAAATTATCCA
1 ACACATGAGACAAATTATCCA
*
4601778 ACGCATGA
1 ACACATGA
4601786 CTTGGAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.14, T:0.18
Consensus pattern (21 bp):
ACACATGAGACAAATTATCCA
Found at i:4607043 original size:48 final size:48
Alignment explanation
Indices: 4606991--4607084 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
4606981 ATTGAAATTT
* ** * *
4606991 ATTGCAACACTAGAACTTGGAATAAACTTTATAATTTAAATTAGATGA
1 ATTGCAACACTAAAACGAGGAAGAAACTTTATAATATAAATTAGATGA
* *
4607039 ATTGCAACATTAAAACGAGGAAGAAACTTTGTAATATAAATTAGAT
1 ATTGCAACACTAAAACGAGGAAGAAACTTTATAATATAAATTAGAT
4607085 ACATTAGAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (48 bp):
ATTGCAACACTAAAACGAGGAAGAAACTTTATAATATAAATTAGATGA
Found at i:4612663 original size:6 final size:6
Alignment explanation
Indices: 4612652--4612690 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
4612642 TGGGTTTATA
4612652 TATATC TATATC TATATC TATATC TATATC TATATC TAT
1 TATATC TATATC TATATC TATATC TATATC TATATC TAT
4612691 CTGTGTGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
TATATC
Found at i:4613807 original size:18 final size:18
Alignment explanation
Indices: 4613764--4613807 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4613754 GCAAGGGTTG
*
4613764 CAAGTGCAGTTATCTCCA
1 CAAGTGCAGTTATCTCAA
**
4613782 CATTTGCAGTTATCTCAA
1 CAAGTGCAGTTATCTCAA
4613800 CAAGTGCA
1 CAAGTGCA
4613808 ATTAACAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (18 bp):
CAAGTGCAGTTATCTCAA
Found at i:4622462 original size:46 final size:46
Alignment explanation
Indices: 4622412--4622632 Score: 300
Period size: 46 Copynumber: 4.8 Consensus size: 46
4622402 CTATGATAGA
* *
4622412 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
4622458 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* **
4622504 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC-ATG
** * *
4622551 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
4622596 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4622633 TCATGTCGAA
Statistics
Matches: 158, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 117 0.74
47 40 0.25
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:4622594 original size:93 final size:92
Alignment explanation
Indices: 4622404--4622632 Score: 307
Period size: 93 Copynumber: 2.5 Consensus size: 92
4622394 AGTGTGCTCT
* * * * **
4622404 ATGATAGAAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
4622469 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * *
4622496 CTGACATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATA
1 ATGACA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAATGAATA
*
4622560 AGACCATGGTTGAATGATACCATGGCAAC
64 AGACCATGGTTGAAAGATACCATGGCAAC
* * * *
4622589 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4622633 TCATGTCGAA
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
92 45 0.38
93 74 0.62
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (92 bp):
ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:4624954 original size:16 final size:16
Alignment explanation
Indices: 4624914--4624946 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4624904 GGTGCTTATT
4624914 CCCAAAACAAGTAATG
1 CCCAAAACAAGTAATG
4624930 CCCAAAACAAGTAATG
1 CCCAAAACAAGTAATG
4624946 C
1 C
4624947 TGATAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.12
Consensus pattern (16 bp):
CCCAAAACAAGTAATG
Found at i:4628296 original size:2 final size:2
Alignment explanation
Indices: 4628291--4628316 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4628281 TTCTCTCTCT
4628291 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
4628317 TATATATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4634979 original size:14 final size:13
Alignment explanation
Indices: 4634947--4634980 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
4634937 ATTAATATGA
4634947 TATTTTTAGAAAT
1 TATTTTTAGAAAT
4634960 TATTTTTAGAAAT
1 TATTTTTAGAAAT
4634973 TATTTTTA
1 TATTTTTA
4634981 AAGTCACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (13 bp):
TATTTTTAGAAAT
Found at i:4635391 original size:19 final size:19
Alignment explanation
Indices: 4635367--4635421 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 19
4635357 ATTTCAAAAA
4635367 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATAGTT
4635386 TAATATTAATTTT-A-AG-T
1 TAATATT-ATTTTAATAGTT
*
4635403 TAATATTTATCTTAATAGT
1 TAATA-TTATTTTAATAGT
4635422 ATTTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 10 0.33
18 5 0.17
19 10 0.33
20 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
TAATATTATTTTAATAGTT
Found at i:4635442 original size:11 final size:11
Alignment explanation
Indices: 4635367--4635442 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
4635357 ATTTCAAAAA
*
4635367 TAATATTATTT
1 TAATATTAATT
4635378 TAATAGTTTAATAT
1 TAATA--TTAAT-T
* *
4635392 TAATTTTAAGT
1 TAATATTAATT
*
4635403 TAATATTTATCT
1 TAATATTAAT-T
*
4635415 TAATAGT-ATT
1 TAATATTAATT
4635425 T--TATTAATT
1 TAATATTAATT
4635434 TAATATTAA
1 TAATATTAA
4635443 AGTAATTATC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.42
12 11 0.22
13 4 0.08
14 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:4638272 original size:46 final size:47
Alignment explanation
Indices: 4638208--4638468 Score: 235
Period size: 46 Copynumber: 5.6 Consensus size: 47
4638198 CTATTGTGAA
*
4638208 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATA-AGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGAGACAGAG
* * *
4638254 C-AGTGTAACACCATGTCTGGGACATGGCATCAG--CATTGAGACGAGTG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTGAGAC-AGAG
*
4638301 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATA-AGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGAGACAGAG
* * *
4638347 C-AGTGTAACACCATGTCTGGGACATGGCATCAG--CATTGAGACGAGTG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATTGAGAC-AGAG
*
4638394 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CC-TCGAGAC-GTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGAGACAG--AG
*
4638440 -TCAGTGTAAGACATGTCTGAGACATGCAT
1 CT-AGTGTAAGACATGTCTGGGACATGCAT
4638469 TGGCTACGAG
Statistics
Matches: 179, Mismatches: 17, Indels: 38
0.76 0.07 0.16
Matches are distributed among these distances:
44 9 0.05
45 21 0.12
46 78 0.44
47 49 0.27
48 18 0.10
49 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGAGACAGAG
Found at i:4638465 original size:93 final size:93
Alignment explanation
Indices: 4638208--4638427 Score: 440
Period size: 93 Copynumber: 2.4 Consensus size: 93
4638198 CTATTGTGAA
4638208 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCAGTGTAACACCATGTCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCAGTGTAACACCATGTCTG
4638273 GGACATGGCATCAGCATTGAGACGAGTG
66 GGACATGGCATCAGCATTGAGACGAGTG
4638301 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCAGTGTAACACCATGTCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCAGTGTAACACCATGTCTG
4638366 GGACATGGCATCAGCATTGAGACGAGTG
66 GGACATGGCATCAGCATTGAGACGAGTG
4638394 CTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCC
4638428 TCGAGACGTA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCAGTGTAACACCATGTCTG
GGACATGGCATCAGCATTGAGACGAGTG
Found at i:4638479 original size:46 final size:43
Alignment explanation
Indices: 4638210--4638518 Score: 163
Period size: 46 Copynumber: 6.7 Consensus size: 43
4638200 ATTGTGAACT
* * * * * *
4638210 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAG-C
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTC--GAGACGTGTC
* ** * *
4638255 AGTGTAACACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TCGAGACGTGT-C
* * * * * *
4638302 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAG-C
1 -AGTGTAAGACATGTCTGGGACATGCATTGG-CTC--GAGACGTGTC
* ** * *
4638348 AGTGTAACACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGC-TCGAGACGTGT-C
*
4638395 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATTGG-CTCGAGACGT--GTC
* * *
4638442 AGTGTAAGACATGTCTGAGACATGCATTGGCTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCT-CGAGACGTGTC
*
4638486 AGTGCAAGACCATGTCTGGGACATGGCATTGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGC
4638519 ACCTTACCCC
Statistics
Matches: 212, Mismatches: 31, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
44 10 0.05
45 41 0.19
46 93 0.44
47 45 0.21
48 23 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTCGAGACGTGTC
Found at i:4642106 original size:57 final size:57
Alignment explanation
Indices: 4642018--4642135 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 57
4642008 AATGAAATTC
* * *
4642018 AAAATTTAGAATCCATAAAATTACAACGGCTTTACTACAACCTACATAAAAACATTA
1 AAAATTTAGAATCCAGAAAATTACAACGGCTTTACAACAACCCACATAAAAACATTA
*
4642075 AAAATTT-GAAATCCAGAAAATTACAACGGCTTTACAACAACCCACATAAAAACATTT
1 AAAATTTAG-AATCCAGAAAATTACAACGGCTTTACAACAACCCACATAAAAACATTA
4642132 AAAA
1 AAAA
4642136 GCAATAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 55 0.98
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.24
Consensus pattern (57 bp):
AAAATTTAGAATCCAGAAAATTACAACGGCTTTACAACAACCCACATAAAAACATTA
Found at i:4642437 original size:6 final size:6
Alignment explanation
Indices: 4642419--4642506 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
4642409 AAAAAACATT
* * *
4642419 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
4642468 ATCAGA ATCAGT ATAAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
4642507 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:4642469 original size:31 final size:31
Alignment explanation
Indices: 4642428--4642506 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
4642418 TATCAGAACT
* *
4642428 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATAAGGTAAC
* *
4642459 AGAATTAGAATCAGAATCAGTATAAGGTAAC
1 AGAATCAGAATCAGAATCAGAATAAGGTAAC
*
4642490 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
4642507 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATAAGGTAAC
Found at i:4642982 original size:27 final size:27
Alignment explanation
Indices: 4642952--4643176 Score: 206
Period size: 27 Copynumber: 8.3 Consensus size: 27
4642942 GGGGTAAAAT
* *
4642952 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
4642979 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * * *
4643006 AGTAATTCTACCCTATAGGGGTATTTA
1 GGTAATTTTACCCTACAAGGGTATTTC
*
4643033 GGT-ATTTCTACTCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
4643060 GGTAATTCTACCCTACAAGGGTGTTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
4643087 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
4643114 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
4643141 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
4643168 GATAATTTT
1 GGTAATTTT
4643177 GTAAATTGAG
Statistics
Matches: 163, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
26 9 0.06
27 145 0.89
28 9 0.06
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:4643012 original size:54 final size:54
Alignment explanation
Indices: 4642952--4643176 Score: 247
Period size: 54 Copynumber: 4.2 Consensus size: 54
4642942 GGGGTAAAAT
* * * *
4642952 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGG-GTATTTC
* * * * * * *
4643006 AGTAATTCTACCCTATAGGGGTATTTAGGTATTTCTACTCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
4643060 GGTAATTCTACCCTACAAGGGTGTTTTAGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
* *
4643114 GGT-ATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
*
4643168 GATAATTTT
1 GGTAATTTT
4643177 GTAAATTGAG
Statistics
Matches: 140, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
53 3 0.02
54 130 0.93
55 7 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
Found at i:4643174 original size:81 final size:81
Alignment explanation
Indices: 4642951--4643167 Score: 303
Period size: 81 Copynumber: 2.7 Consensus size: 81
4642941 AGGGGTAAAA
* * *
4642951 TGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTCAGTAATTC
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCAGTAATTC
*
4643014 TACCCTATAGGGGTATTT
64 TACCCTACAGGGGTATTT
* * * *
4643032 AGGTATTTCTACTCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTGTTTTAGTAATTCTA
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
4643097 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * *
4643113 TGGTATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCTACAAGGGTATTTC
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
4643168 GATAATTTTG
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 112 0.94
82 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
CCCTACAGGGGTATTT
Found at i:4643188 original size:27 final size:27
Alignment explanation
Indices: 4643158--4643397 Score: 76
Period size: 27 Copynumber: 8.9 Consensus size: 27
4643148 CTACCCTACA
* *
4643158 AGGGTATTTCGATAATTTTGTAAATTG
1 AGGGTATTTCGATAATTTTATAAATCG
*** * * * *
4643185 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGATAATTTTATAAATCG
* * * * *
4643212 ATGGTACTTT-GGTAATTTTACAAGTTG
1 AGGGTA-TTTCGATAATTTTATAAATCG
* **
4643239 AGGGTATTTCAATAATTTTATAGGTCG
1 AGGGTATTTCGATAATTTTATAAATCG
* *
4643266 AGGGTATTTC-AGTAATTTCACAAATC-
1 AGGGTATTTCGA-TAATTTTATAAATCG
* * * *
4643292 ATGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGATAATTTTATAAATCG
* * * * *
4643319 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCGATAATTTTATAAATCG
* * * * *
4643347 ATGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGATAATTTTATAAATCG
* * *
4643373 AGGGGTATTTTGGTGATTTTATAAA
1 A-GGGTATTTCGATAATTTTATAAA
4643398 CCAATGGTAT
Statistics
Matches: 164, Mismatches: 41, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
26 8 0.05
27 154 0.94
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTATAAATCG
Found at i:4643336 original size:81 final size:81
Alignment explanation
Indices: 4643206--4643445 Score: 214
Period size: 81 Copynumber: 3.0 Consensus size: 81
4643196 GTAATTCTGT
* * * * * *** *
4643206 AAATCAAT-GGTACTTTGGTAATTTTAC-AAGTTGAGGGTATTTCAATAATTTTATAGGTCGAGG
1 AAATC-ATGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAGTAATTTTATAAACCAAGG
4643269 GTATTTCAGTAATTTCAC
64 GTATTTCAGTAATTTCAC
* * *
4643287 AAATCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAATGGT
1 AAATCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTATAAACCAAGGGT
** *
4643352 ATTTTGGTAATTTTAC
66 ATTTCAGTAATTTCAC
* * * * * ** * *
4643368 AAACCAGGGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACCAAAGGT
1 AAATCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTATAAACCAAGGGT
**
4643433 ATTTTGGTAATTT
66 ATTTCAGTAATTT
4643446 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
80 2 0.02
81 125 0.95
82 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAATCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTATAAACCAAGGGT
ATTTCAGTAATTTCAC
Found at i:4643398 original size:27 final size:27
Alignment explanation
Indices: 4643266--4643445 Score: 216
Period size: 27 Copynumber: 6.7 Consensus size: 27
4643256 TTATAGGTCG
** * *
4643266 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
4643293 TGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* **
4643320 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
4643347 ATGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
4643374 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
4643401 ATGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
4643428 AAGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
4643446 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:4643452 original size:54 final size:54
Alignment explanation
Indices: 4643295--4643452 Score: 253
Period size: 54 Copynumber: 2.9 Consensus size: 54
4643285 ACAAATCATG
*
4643295 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAT
* *
4643349 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAT
* ** *
4643403 GGTATTTTAGTAATTTTACAAACCAAAGGTATTTTGGTAATTTGGTAAAC
1 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
4643453 TAAAGTATTC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAT
Found at i:4644044 original size:17 final size:17
Alignment explanation
Indices: 4644022--4644062 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4644012 TTGCCACTAA
*
4644022 GCCACAAAGCTTTTTGT
1 GCCACAAAGCCTTTTGT
*
4644039 GCCACAAGGCCTTTTGT
1 GCCACAAAGCCTTTTGT
*
4644056 GTCACAA
1 GCCACAA
4644063 TTTCTCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (17 bp):
GCCACAAAGCCTTTTGT
Found at i:4649033 original size:34 final size:34
Alignment explanation
Indices: 4648994--4649060 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
4648984 GTAGTATTTA
*
4648994 TATACAAAAGCCAATTGTGATGATGATTATCCAC
1 TATACAAAAGCCAATTGTGAGGATGATTATCCAC
4649028 TATACAAAAGCCAATTGTGAGGATGATTATCCA
1 TATACAAAAGCCAATTGTGAGGATGATTATCCA
4649061 TTTACTTACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (34 bp):
TATACAAAAGCCAATTGTGAGGATGATTATCCAC
Found at i:4650917 original size:29 final size:29
Alignment explanation
Indices: 4650875--4650931 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
4650865 TGCGGGAAAG
4650875 ACAACTTACTTCAGTAGATAAAATAAATA
1 ACAACTTACTTCAGTAGATAAAATAAATA
4650904 ACAACTTACTTCAGTAGATAAAATAAAT
1 ACAACTTACTTCAGTAGATAAAATAAAT
4650932 GAGCCCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (29 bp):
ACAACTTACTTCAGTAGATAAAATAAATA
Found at i:4655821 original size:44 final size:43
Alignment explanation
Indices: 4655675--4655833 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
4655665 AGCTTGTACA
* * *
4655675 ATGCCAACATCCCAGATGTGGTCTTACATGT-AATCAAATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAA-GTCG
**
4655718 ATGCC-ACTGTCCCAGACAAGGTCTTACACG-AAATC-AAGTACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCAAAGT-CG
* * *
4655760 ATGCCAATGTCCTAGACGTGGTCTTACACGTAAATCATAAGTTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AAGTCG
4655804 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
4655834 ATAACACATA
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.31
43 32 0.33
44 29 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAAGTCG
Found at i:4659356 original size:21 final size:21
Alignment explanation
Indices: 4659330--4659370 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4659320 CTACATGCTC
4659330 ATGTGAAGACCACACACGCCG
1 ATGTGAAGACCACACACGCCG
* * *
4659351 ATGTGATGGCCATACACGCC
1 ATGTGAAGACCACACACGCC
4659371 CAAGTGAGCA
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:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (21 bp):
ATGTGAAGACCACACACGCCG
Found at i:4661391 original size:33 final size:33
Alignment explanation
Indices: 4661345--4661408 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
4661335 ACATGTGAAA
* *
4661345 GAAAGAAACTATAGTGAGGATCAAAAACATTTT
1 GAAACAAAATATAGTGAGGATCAAAAACATTTT
4661378 GAAACAAAATATAGTGAGGATCAAAAACATT
1 GAAACAAAATATAGTGAGGATCAAAAACATT
4661409 GTGAGAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (33 bp):
GAAACAAAATATAGTGAGGATCAAAAACATTTT
Found at i:4661412 original size:18 final size:18
Alignment explanation
Indices: 4661358--4661413 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
4661348 AGAAACTATA
4661358 GTGAGGATCAAAAACATT
1 GTGAGGATCAAAAACATT
* * * *
4661376 TTGA--AAC-AAAATATA
1 GTGAGGATCAAAAACATT
4661391 GTGAGGATCAAAAACATT
1 GTGAGGATCAAAAACATT
4661409 GTGAG
1 GTGAG
4661414 AGAAAAAAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 9 0.33
16 2 0.07
17 2 0.07
18 14 0.52
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.23
Consensus pattern (18 bp):
GTGAGGATCAAAAACATT
Found at i:4671329 original size:17 final size:18
Alignment explanation
Indices: 4671297--4671333 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4671287 TACTTATTAT
*
4671297 TATTAAGTTTATATAAAA
1 TATTAAGTTCATATAAAA
4671315 TATTAA-TTCATATAAAA
1 TATTAAGTTCATATAAAA
4671332 TA
1 TA
4671334 AATTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TATTAAGTTCATATAAAA
Found at i:4679517 original size:129 final size:129
Alignment explanation
Indices: 4679331--4679601 Score: 366
Period size: 136 Copynumber: 2.1 Consensus size: 129
4679321 TTCTTATTGA
* * *
4679331 TTGATTTAGTTGTTCTTAGTTCTTTAAACTACGGTCTTCACTTTTGTGTTCTTTCAGTTC-AATT
1 TTGATTTTGTTGTTCTTAGCTCTTTAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAATT
*
4679395 AAAATGGGTTTGTTTGTTTTTA-CTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
66 AAAATGGGTTTGTCTGTTTTTATCTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
* **
4679458 TTGATTTTGTTGTTCTTAGCTCTTTGTAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGTTCAAA
1 TTGATTTTGTTGTTCTTAGCTC-TT-TAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAA
* * * *
4679523 TTTAAATGGGTTTGTCTGTTTTTACTTCTTCTTTTTTTGTACTGTTTGATTCTTATTGATTGCTC
64 TTAAAATGGGTTTGTCTGTTTTTA-----TCTTTTTCTGTACTATTTGATTCTTATTGATTGCCC
4679588 CTTTTG
124 CTTTTG
4679594 TTGATTTT
1 TTGATTTT
4679602 ACTATTTTTA
Statistics
Matches: 124, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
127 20 0.16
128 2 0.02
129 32 0.26
130 24 0.19
136 46 0.37
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (129 bp):
TTGATTTTGTTGTTCTTAGCTCTTTAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAATT
AAAATGGGTTTGTCTGTTTTTATCTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
Found at i:4679613 original size:136 final size:129
Alignment explanation
Indices: 4679371--4679665 Score: 349
Period size: 136 Copynumber: 2.2 Consensus size: 129
4679361 ACGGTCTTCA
*
4679371 CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTTTGTTTTTACTTTTTCTGTACTATTTGA
1 CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGA
** *
4679436 TTCTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTAGCTCTTTGTAAATTACAGTCTTTG
66 TTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAATTACAGTCTTTG
* *
4679500 CTTTTGTGTTCTTTCAGTTCAAATTTAAATGGGTTTGTCTGTTTTTACTTCTTCTTTTTTTGTAC
1 CTTTTGTGTTCTTTCAGTTC-AATTAAAATGGGTTTGTCTGTTTTTA------CTTTTTCTGTAC
* * * * * * *
4679565 TGTTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTATTTTTAGCTATTGGCAAACTGCAC
59 TATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAA-T-TAC
*
4679630 A-ACATTTG
122 AGTC-TTTG
*
4679638 CTTTTTGTGTTCTTTCAGCTCAATTAAA
1 C-TTTTGTGTTCTTTCAGTTCAATTAAA
4679666 GACTAAATTT
Statistics
Matches: 139, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
129 20 0.14
130 24 0.17
136 61 0.44
137 2 0.01
138 14 0.10
139 18 0.13
ACGTcount: A:0.17, C:0.14, G:0.15, T:0.54
Consensus pattern (129 bp):
CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGA
TTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAATTACAGTCTTTG
Found at i:4679955 original size:30 final size:30
Alignment explanation
Indices: 4679919--4680015 Score: 158
Period size: 30 Copynumber: 3.2 Consensus size: 30
4679909 GGTTTGAAGT
4679919 TTTATATGAGCATGCTGGGAAGGGTATAGG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
*
4679949 TTTATATGAGCATGCTGGGAAGGGTATAAG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
*
4679979 TTTATATAAGCATATGCTGGGAAGGGTATAGG
1 TTTATATGAGC--ATGCTGGGAAGGGTATAGG
4680011 TTTAT
1 TTTAT
4680016 GTATTTAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 39 0.63
32 23 0.37
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.33
Consensus pattern (30 bp):
TTTATATGAGCATGCTGGGAAGGGTATAGG
Found at i:4681406 original size:27 final size:27
Alignment explanation
Indices: 4681363--4681452 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
4681353 TTTTTCATGT
* *
4681363 TTTTTTAATAATC-TAAAGAACTATGAG
1 TTTTTGAATAA-CATAAAAAACTATGAG
* *
4681390 TTTTTGAATAACATAAAATCAAGTATTACGG
1 TTTTTGAATAACATAAAA--AACTATGA--G
* *
4681421 TTTTTGAATAACATGAAAAATTATGAG
1 TTTTTGAATAACATAAAAAACTATGAG
4681448 TTTTT
1 TTTTT
4681453 ATTTTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 1 0.02
27 20 0.39
29 12 0.24
31 18 0.35
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (27 bp):
TTTTTGAATAACATAAAAAACTATGAG
Found at i:4682279 original size:32 final size:29
Alignment explanation
Indices: 4682243--4682314 Score: 72
Period size: 32 Copynumber: 2.3 Consensus size: 29
4682233 CACCTATTAT
* *
4682243 TTAAAATAATTGTTGTTTAGAATAACTATTGG
1 TTAAAATAATT-ATGTTCAGAATAACT-TT-G
*
4682275 TTAAAGATAGTTATGTTCAGAATAACTTTG
1 TTAAA-ATAATTATGTTCAGAATAACTTTG
4682305 TTCAAAATAA
1 TT-AAAATAA
4682315 GGCTATAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 6 0.18
31 5 0.15
32 18 0.53
33 5 0.15
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (29 bp):
TTAAAATAATTATGTTCAGAATAACTTTG
Found at i:4714180 original size:21 final size:21
Alignment explanation
Indices: 4714156--4714207 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
4714146 CATTGTTTCT
*
4714156 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
4714177 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
4714198 AATCTCACCG
1 AATCTCACCG
4714208 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.38, G:0.10, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:4716096 original size:11 final size:11
Alignment explanation
Indices: 4716080--4716107 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4716070 AGAATACTTC
4716080 AATAAAAAATA
1 AATAAAAAATA
4716091 AATAAAAAATA
1 AATAAAAAATA
4716102 AATAAA
1 AATAAA
4716108 CTCTTGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:4718524 original size:18 final size:18
Alignment explanation
Indices: 4718501--4718537 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4718491 AACGATCCTC
*
4718501 TATCAAATAATTAATTAT
1 TATCAAACAATTAATTAT
4718519 TATCAAACAATTAATTAT
1 TATCAAACAATTAATTAT
4718537 T
1 T
4718538 CCCTCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCAAACAATTAATTAT
Found at i:4721041 original size:49 final size:48
Alignment explanation
Indices: 4720890--4721065 Score: 187
Period size: 49 Copynumber: 3.6 Consensus size: 48
4720880 GGATAAGATG
*
4720890 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAG-CA-C-ATCAAA
1 TCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-GTCATCTATCGAA
* * * * * * *
4720937 TCGATGCCATGTCCTAGACAGGTCTTACATTGACTTTCATATATTGAGG
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTGTCATCTATCGA-A
* *
4720986 TTGATGCCGTGTCCCAGACAGGTCTTACACTGGCTGTCATCTATCGGAA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTGTCATCTATC-GAA
* *
4721035 TCGATGCCATGTCCCAGATAAGTCTTACACT
1 TCGATGCCATGTCCCAGACAGGTCTTACACT
4721066 AACACACAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 15 0.15
47 19 0.18
48 3 0.03
49 64 0.62
50 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTGTCATCTATCGAA
Found at i:4721230 original size:48 final size:47
Alignment explanation
Indices: 4721086--4721300 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 47
4721076 AAGCTGACGC
* * * **
4721086 CATGTACTAGACAAGTCTTACACTAGCTTGTATATCTCGAGGTTGATG
1 CATGTCCTAGACATGTCTTACACTGGC-TGTATATCTCGAGGCCGATG
* * * * * ** *
4721134 CGTCTCCCAGACATGTCTTACACTAGCTCT-CGTCTCGAAGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTGTATATCTCGAGGCCGATG
4721180 CATGTCCTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCT-GTATATCTCGAGGCCGATG
* * * * * *
4721228 CATGTTCC-AGACATGTCTTACACTAGCTCTCGTA-AT-GTGGCTGATG
1 CATG-TCCTAGACATGTCTTACACTGGCTGT-ATATCTCGAGGCCGATG
*
4721274 CATCTCCTAGACATGTCTTACACTGGC
1 CATGTCCTAGACATGTCTTACACTGGC
4721301 ACACGTATCA
Statistics
Matches: 135, Mismatches: 27, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
45 3 0.02
46 64 0.47
47 5 0.04
48 60 0.44
49 3 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (47 bp):
CATGTCCTAGACATGTCTTACACTGGCTGTATATCTCGAGGCCGATG
Found at i:4721298 original size:94 final size:94
Alignment explanation
Indices: 4721092--4721300 Score: 285
Period size: 94 Copynumber: 2.2 Consensus size: 94
4721082 ACGCCATGTA
* * * ** *
4721092 CTAGACAAGTCTTACACTAGCTTGTATATCTCGAGGTTGATGCGTCTCCCAGACATGTCTTACAC
1 CTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATCTCCCAGACATGTCTTACAC
* *
4721157 TAGCTCTCGTCTCGAAGCCGATGCATGTC
66 TAGCTCTCGTATCGAAGCCGATGCATCTC
* *
4721186 CTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTTCCAGACATGTCTTACAC
1 CTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATCTCCCAGACATGTCTTACAC
** *
4721251 TAGCTCTCGTAAT-GTGGCTGATGCATCTC
66 TAGCTCTCGT-ATCGAAGCCGATGCATCTC
4721280 CTAGACATGTCTTACACTGGC
1 CTAGACATGTCTTACACTGGC
4721301 ACACGTATCA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 100 0.99
95 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (94 bp):
CTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATCTCCCAGACATGTCTTACAC
TAGCTCTCGTATCGAAGCCGATGCATCTC
Found at i:4724127 original size:18 final size:18
Alignment explanation
Indices: 4724104--4724139 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4724094 TTCTTGGATG
4724104 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
4724122 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
4724140 TAACCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:4726470 original size:46 final size:46
Alignment explanation
Indices: 4726337--4726513 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 46
4726327 TGATATGTGT
* * ** *
4726337 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTTCGA-GATGAGA
* * * ** * *
4726383 GCCAGTGTAAGACATGTTTGGGACATTTATCGGCTTTGAGATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTTCGAGATGAGA
* * *
4726429 GCTAGTGTAAGACATGTCTAGGACATGCATCAACTTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTTCGAGAT-GA-GA
* * *
4726477 ACTAGTGTAAGACCTGTCTAGGACATGGCGTCAGCTT
1 GCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCTT
4726514 GTTGTGTGTT
Statistics
Matches: 105, Mismatches: 22, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
46 70 0.67
47 2 0.02
48 25 0.24
49 8 0.08
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTTCGAGATGAGA
Found at i:4726650 original size:49 final size:50
Alignment explanation
Indices: 4726524--4726650 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 50
4726514 GTTGTGTGTT
* * *
4726524 GTGTAAAACCTATCTGGGACATGGCAT-TGACACCGATAAATGAGAGCCA
1 GTGTAAGACCTATCTGGGACATGGCATCGGACACCGATAAATGAAAGCCA
* * * * *
4726573 GTGTAAGACCTGTCTGGGACACGGCATCGGA-ATCGATATATGAAAGTCA
1 GTGTAAGACCTATCTGGGACATGGCATCGGACACCGATAAATGAAAGCCA
* *
4726622 GTGTAAGACCTCTCTGGGACATGACATCG
1 GTGTAAGACCTATCTGGGACATGGCATCG
4726651 ACTTTGATGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 64 0.97
50 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (50 bp):
GTGTAAGACCTATCTGGGACATGGCATCGGACACCGATAAATGAAAGCCA
Found at i:4736781 original size:49 final size:48
Alignment explanation
Indices: 4736673--4736854 Score: 179
Period size: 49 Copynumber: 3.8 Consensus size: 48
4736663 GGGATAAGAT
* * ** * *
4736673 GCCGACGCCATGTCCCAAACATGGTCTTACACTGAC-TAGCACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTAATATATCAAG
* *
4736721 GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTTTAATATATCAAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTAATATATCAAG
* * * * *
4736770 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTATC-GG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TAATATATCAAG
* *
4736818 TGTCGATGCCATGTCCCAGACAGGTCTTACATTGACT
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT
4736855 CACAACAAGC
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 14 0.13
48 19 0.17
49 78 0.70
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTAATATATCAAG
Found at i:4736843 original size:98 final size:97
Alignment explanation
Indices: 4736673--4736854 Score: 249
Period size: 98 Copynumber: 1.9 Consensus size: 97
4736663 GGGATAAGAT
4736673 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACTAGCACATCAAAGTCGATGCCATGTCCCA
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACTAGCACATCAAAGTCGATGCCATGTCCCA
*
4736738 GATAGGTCTTACACTGACTTTAATATATCAAG
66 GACAGGTCTTACACTGACTTTAATATATCAAG
* * * ** ***
4736770 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCC
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACTAGCA-C-ATCAAAGTCGATGCCATGTCC
*
4736834 CAGACAGGTCTTACATTGACT
64 CAGACAGGTCTTACACTGACT
4736855 CACAACAAGC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 15 0.21
97 21 0.29
98 37 0.51
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (97 bp):
GCCGACGCCATGTCCCAAACATGGTCTTACACTGACTAGCACATCAAAGTCGATGCCATGTCCCA
GACAGGTCTTACACTGACTTTAATATATCAAG
Found at i:4736944 original size:48 final size:48
Alignment explanation
Indices: 4736879--4737270 Score: 299
Period size: 46 Copynumber: 8.3 Consensus size: 48
4736869 GCCATGTCTT
* * * * *
4736879 AGACAGGTCTTAAACTAGCTTGTATATCTCGAGACTGATGCATGTTCC
1 AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
* * ** * *
4736927 AGACATGTCATACACTAGC-TCT-CGTCTCAAAGCCGATGCATGTCCC
1 AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
* * **
4736973 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCC
1 AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
* * * *
4737021 AAACATGTCTTACACTAGCTCTCGTA-A--T-GTGGCCTATGCATGTCAC
1 AGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATGCATGTCCC
* * **
4737067 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCC
1 AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
* * * *
4737115 AAACATGTCTTACACTAGCTCTCGTA-A--T-GTGGCCTATGCATGTCAC
1 AGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATGCATGTCCC
* * * **
4737161 AGACATGTCTTACACTGGCTGGGATATCTCGAGGCCGATGCAACTCCC
1 AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
* * * *
4737209 AAACATGTCTTACACTAGCTCTCGTA-A--T-GTGGCCTATGCATGTCAC
1 AGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATGCATGTCCC
*
4737255 AGACATGTTTTACACT
1 AGACATGTCTTACACT
4737271 GGCACACGTA
Statistics
Matches: 263, Mismatches: 65, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
44 5 0.02
45 2 0.01
46 123 0.47
47 8 0.03
48 114 0.43
49 3 0.01
50 8 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
AGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCC
Found at i:4736998 original size:94 final size:94
Alignment explanation
Indices: 4736879--4737273 Score: 603
Period size: 94 Copynumber: 4.2 Consensus size: 94
4736869 GCCATGTCTT
* * * * * * ** * * *
4736879 AGACAGGTCTTAAACTAGCTTGTATATCTCGAGACTGATGCATGTTCCAGACATGTCATACACTA
1 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
* *** * *
4736944 GCTCTCGT-CTCAAAGCCGATGCATGTCCC
66 GCTCTCGTAAT-GTGGCCTATGCATGTCAC
4736973 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
1 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
4737038 GCTCTCGTAATGTGGCCTATGCATGTCAC
66 GCTCTCGTAATGTGGCCTATGCATGTCAC
4737067 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
1 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
4737132 GCTCTCGTAATGTGGCCTATGCATGTCAC
66 GCTCTCGTAATGTGGCCTATGCATGTCAC
*
4737161 AGACATGTCTTACACTGGCTGGGATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
1 AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
4737226 GCTCTCGTAATGTGGCCTATGCATGTCAC
66 GCTCTCGTAATGTGGCCTATGCATGTCAC
*
4737255 AGACATGTTTTACACTGGC
1 AGACATGTCTTACACTGGC
4737274 ACACGTATCA
Statistics
Matches: 281, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 280 1.00
95 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (94 bp):
AGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCAACTCCCAAACATGTCTTACACTA
GCTCTCGTAATGTGGCCTATGCATGTCAC
Found at i:4742785 original size:15 final size:15
Alignment explanation
Indices: 4742749--4742828 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
4742739 GTATCTTGGG
* *
4742749 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
4742764 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
4742779 TTCCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
4742794 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
4742809 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
4742823 TTTCTT
1 TTTCTT
4742829 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 10 0.19
15 40 0.77
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:4745262 original size:46 final size:46
Alignment explanation
Indices: 4745209--4745384 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
4745199 TATTTAGGCA
4745209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
4745255 TCCGAACTCGTTGAGTTGAGTTCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * * *
4745300 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
4745348 CCCGAGCTCATTGAGTTGAGTCCGAGTTGACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4745385 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 1 0.01
46 61 0.58
47 27 0.26
48 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4745362 original size:93 final size:93
Alignment explanation
Indices: 4745203--4745375 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
4745193 CTAGCATATT
* * * *
4745203 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
*
4745268 AGTTGAGTTCGAGTTCAAGAGATGTAAC
66 AGTTGAGTCCGAGTTCAAGAGATGTAAC
* * * *
4745296 TAGGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACGCCCGAGCTCATTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
4745361 AGTTGAGTCCGAGTT
66 AGTTGAGTCCGAGTT
4745376 GACTTATGGG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
AGTTGAGTCCGAGTTCAAGAGATGTAAC
Found at i:4748254 original size:22 final size:22
Alignment explanation
Indices: 4748226--4748347 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
4748216 TTCCACATCC
4748226 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
4748248 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
4748272 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
4748295 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
4748319 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
4748342 ATCACA
1 ATCACA
4748348 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:4748261 original size:47 final size:47
Alignment explanation
Indices: 4748219--4749259 Score: 1856
Period size: 47 Copynumber: 22.1 Consensus size: 47
4748209 TATACACTTC
* * *
4748219 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * **
4748266 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748313 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748360 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748407 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748454 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748501 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748548 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748595 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748642 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748689 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748736 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748783 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748830 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748877 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748924 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4748971 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4749018 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
4749065 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
4749112 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * * *
4749159 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
* * *
4749208 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
4749255 CACAT
1 CACAT
4749260 ATATTCAAAT
Statistics
Matches: 978, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 930 0.95
48 1 0.00
49 46 0.05
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:4750641 original size:13 final size:13
Alignment explanation
Indices: 4750625--4750650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4750615 AGCTTTTCTC
4750625 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
4750638 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
4750651 GGTCATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:4750787 original size:56 final size:57
Alignment explanation
Indices: 4750720--4750840 Score: 226
Period size: 57 Copynumber: 2.1 Consensus size: 57
4750710 TATTAGTTTA
4750720 TTGCCCATGCTTCTTATTTTA-TTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
*
4750776 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
4750833 TTGCCCAT
1 TTGCCCAT
4750841 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 21 0.33
57 42 0.67
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:4766009 original size:40 final size:40
Alignment explanation
Indices: 4765925--4766108 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
4765915 TTGAATGCTG
* * * *
4765925 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
4765964 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
4766005 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
4766045 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
4766085 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
4766109 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:4766062 original size:80 final size:81
Alignment explanation
Indices: 4765925--4766105 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
4765915 TTGAATGCTG
* *
4765925 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
4765989 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
4766005 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
*
4766066 ATTCGTGTGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
4766085 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
4766106 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:4783409 original size:41 final size:41
Alignment explanation
Indices: 4783364--4783444 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
4783354 GTTTGTGGTA
* * *
4783364 CTTGTTGAGCGAGCCTGCAAAGCTGAAGAGCTAGGGAAAGG
1 CTTGTTGAACAAGCATGCAAAGCTGAAGAGCTAGGGAAAGG
* * *
4783405 CTTGTTGAACAAGCATGTAAAGCTGAAGTGCTCGGGAAAG
1 CTTGTTGAACAAGCATGCAAAGCTGAAGAGCTAGGGAAAG
4783445 AGAAAAGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (41 bp):
CTTGTTGAACAAGCATGCAAAGCTGAAGAGCTAGGGAAAGG
Found at i:4800178 original size:55 final size:55
Alignment explanation
Indices: 4800117--4800226 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
4800107 CGTTCTTTAT
* *
4800117 TGCTTTCATATTTTCTTTGTTCTATATTCTATCCATCTCTCTCTATTTTATAACA
1 TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
* * * *
4800172 TGCTTTCATATTTTCTTTATTCTTTACTCTCTCCGTCTCTCTTTATTTTATAACA
1 TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
4800227 CGTTATCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.18, C:0.23, G:0.04, T:0.55
Consensus pattern (55 bp):
TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
Found at i:4815113 original size:17 final size:17
Alignment explanation
Indices: 4815091--4815126 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4815081 TTGGGATGTA
*
4815091 AACTCATCAGCATTATC
1 AACTCATAAGCATTATC
4815108 AACTCATAAGCATTATC
1 AACTCATAAGCATTATC
4815125 AA
1 AA
4815127 GACGAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (17 bp):
AACTCATAAGCATTATC
Found at i:4818706 original size:19 final size:19
Alignment explanation
Indices: 4818682--4818718 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4818672 AGACAGGGGG
*
4818682 CACGCCCGTGTACTCTAGA
1 CACGCCCATGTACTCTAGA
*
4818701 CACGCCCATGTCCTCTAG
1 CACGCCCATGTACTCTAG
4818719 CCGTGTAACT
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:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (19 bp):
CACGCCCATGTACTCTAGA
Found at i:4820343 original size:44 final size:44
Alignment explanation
Indices: 4820276--4820384 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
4820266 TCGCATCCAT
* * *
4820276 TCGGACCAACTCAACGAGCTCAGATGCTCGCATCCATA-ATGAGC
1 TCGGACCAACTCAACGAGTTCAGATGC-CGCATACATACATGAAC
*
4820320 TCGGACCAACTCAACGAGTTCAGATGCCTCATACATATCATGAAC
1 TCGGACCAACTCAACGAGTTCAGATGCCGCATACATA-CATGAAC
*
4820365 CCGGACCAACTCAACGAGTT
1 TCGGACCAACTCAACGAGTT
4820385 TGGATTTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
43 8 0.14
44 26 0.45
45 24 0.41
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (44 bp):
TCGGACCAACTCAACGAGTTCAGATGCCGCATACATACATGAAC
Found at i:4822521 original size:27 final size:27
Alignment explanation
Indices: 4822491--4822566 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
4822481 AAATAACTAA
*
4822491 AATACCCCCATAGGGTAAAATGACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
** * * *
4822518 AATATGCCTATAAGGTATAATGACTGT
1 AATACCCCTATAGGGTAAAATGACCGT
* * *
4822545 AATTCCCTTGTAGGGTAAAATG
1 AATACCCCTATAGGGTAAAATG
4822567 GTTGTTAGTA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGT
Found at i:4826018 original size:26 final size:27
Alignment explanation
Indices: 4825962--4826024 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
4825952 CCCTTAATCG
*
4825962 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCATAA
*
4825989 GGTAAAATGATCGAAATA-TCCCATAA
1 GGTAAAATGATCGAAATACCCCCATAA
*
4826015 GGTATAATGA
1 GGTAAAATGA
4826025 CTGTAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCCCATAA
Found at i:4829679 original size:40 final size:40
Alignment explanation
Indices: 4829624--4829703 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
4829614 CATAACCTAG
4829624 TCCACTCAAGGACGCTCACTGTATATCACAAACTCTTTCC
1 TCCACTCAAGGACGCTCACTGTATATCACAAACTCTTTCC
*
4829664 TCCACTCAAGGACGCTCACTGTATATTACAAACTCTTTCC
1 TCCACTCAAGGACGCTCACTGTATATCACAAACTCTTTCC
4829704 CTGATTCCAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.34, G:0.10, T:0.29
Consensus pattern (40 bp):
TCCACTCAAGGACGCTCACTGTATATCACAAACTCTTTCC
Found at i:4837956 original size:27 final size:26
Alignment explanation
Indices: 4837921--4838015 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
4837911 AGCATGGCTG
* *
4837921 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4837947 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
4837975 TCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
4838002 CCAGATCAGATAAT
1 CCAGAACAGATAAT
4838016 TTTGCACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 16 0.26
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4838050 original size:27 final size:27
Alignment explanation
Indices: 4838012--4838072 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
4838002 CCAGATCAGA
4838012 TAATTTTGCACCTAGGGGGTATAACAG
1 TAATTTTGCACCTAGGGGGTATAACAG
*
4838039 TAATTTTTCACCTAGGGGGTATAACAG
1 TAATTTTGCACCTAGGGGGTATAACAG
4838066 TAATTTT
1 TAATTTT
4838073 CCATACATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
TAATTTTGCACCTAGGGGGTATAACAG
Done.