Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 151 of 171
Found at i:45468073 original size:59 final size:58
Alignment explanation
Indices: 45467923--45468073 Score: 155
Period size: 59 Copynumber: 2.6 Consensus size: 58
45467913 AAAAATGGGA
* * *
45467923 TTTTGGAAAGTTCAAGGGT-AAAATGTAATTTTTGAAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGGAAAG-TCGAGGGTAAAAATGTAA-TTTTGAAAAGCTCGAGGGTAAAAACGTAAT
* ** *
45467982 TTTTAGTGAAA-TTG-GGGTTAAAAATGGGATTTTGAAAAGCTCTAGGGTAAAAACGTAAT
1 TTTT-G-GAAAGTCGAGGG-TAAAAATGTAATTTTGAAAAGCTCGAGGGTAAAAACGTAAT
*
45468041 TTTTGAAAAGCTCGAGGGTAAAAATGTAATTTT
1 TTTTGGAAAG-TCGAGGGTAAAAATGTAATTTT
45468074 TAGAAATTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
57 3 0.04
58 4 0.05
59 52 0.70
60 11 0.15
61 4 0.05
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.34
Consensus pattern (58 bp):
TTTTGGAAAGTCGAGGGTAAAAATGTAATTTTGAAAAGCTCGAGGGTAAAAACGTAAT
Found at i:45468104 original size:89 final size:87
Alignment explanation
Indices: 45467922--45468102 Score: 231
Period size: 89 Copynumber: 2.1 Consensus size: 87
45467912 CAAAAATGGG
* * * *
45467922 ATTTTGGAAAGTTCAAGGGTAAAATGTAATTTTTGAAAAGTTCGAGGGTAAAAATGTAATTTTTA
1 ATTTTGAAAAGCTCAAGGGTAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATGTAATTTTTA
* ***
45467987 GTGAAATTGGGGTTAAAAATGGG
66 G-GAAATTGAGGTTAAAAATACA
*
45468010 ATTTTGAAAAGCTCTAGGGTAAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATGTAATTTTT
1 ATTTTGAAAAGCTCAAGGGT-AAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATGTAATTTTT
45468075 A-GAAATTTTGAGGTT-AAAATACA
65 AGGAAA--TTGAGGTTAAAAATACA
45468098 ATTTT
1 ATTTT
45468103 TGGGAAGTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
87 4 0.05
88 27 0.33
89 50 0.62
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (87 bp):
ATTTTGAAAAGCTCAAGGGTAAAACGTAATTTTTGAAAAGCTCGAGGGTAAAAATGTAATTTTTA
GGAAATTGAGGTTAAAAATACA
Found at i:45469655 original size:26 final size:26
Alignment explanation
Indices: 45469619--45469699 Score: 96
Period size: 26 Copynumber: 3.1 Consensus size: 26
45469609 TACGAAAGGA
*
45469619 TTCGTATTTGGATTTCAAGAACTAGG
1 TTCGTATTTGGATTTCAAGAACTGGG
45469645 TTCTGTA-TTGGATTTTCAA-AGA-TGGG
1 TTC-GTATTTGGA-TTTCAAGA-ACTGGG
*
45469671 TTCGTATTTAGATTTCAAGAACTGGG
1 TTCGTATTTGGATTTCAAGAACTGGG
45469697 TTC
1 TTC
45469700 ATAACCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
25 10 0.21
26 27 0.57
27 10 0.21
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (26 bp):
TTCGTATTTGGATTTCAAGAACTGGG
Found at i:45470075 original size:17 final size:18
Alignment explanation
Indices: 45470053--45470097 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
45470043 TTGGACATTT
*
45470053 AATTTATATTTAT-TTAA
1 AATTTAAATTTATATTAA
45470070 AATTTAAATTTATATT-A
1 AATTTAAATTTATATTAA
*
45470087 AGTTTAAATTT
1 AATTTAAATTT
45470098 TAGAAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTAAATTTATATTAA
Found at i:45470079 original size:23 final size:24
Alignment explanation
Indices: 45470049--45470099 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
45470039 GTATTTGGAC
*
45470049 ATTT-AATTTATATTTA-TTTAAA
1 ATTTAAATTTATATTAAGTTTAAA
45470071 ATTTAAATTTATATTAAGTTTAAA
1 ATTTAAATTTATATTAAGTTTAAA
*
45470095 TTTTA
1 ATTTA
45470100 GAAAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 11 0.44
24 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTAAATTTATATTAAGTTTAAA
Found at i:45471088 original size:200 final size:200
Alignment explanation
Indices: 45470480--45471709 Score: 1841
Period size: 200 Copynumber: 6.2 Consensus size: 200
45470470 TGACTTGGCC
* * * * * * * * * *
45470480 TTCTTCTCCGTGTCTCATCAAGAAGACGATCGCATCACTTGTTTTAGTTCACTTCTCTGGATTTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* *
45470545 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCGTTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* *
45470610 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTCGGTTCGAAGA--T--T--TGTTGAGCGTTTGAG
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTGTTGAGCG-TTGAG
45470669 TTGGTA
195 TTGGTA
* * * *
45470675 TTCTTCTCTGTATATCATCAGGAAGATGACCACCTCGCTTGTTTCAATTCGCTTCTCTAGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* ** *
45470740 CTCAGGAAGACGAATTTGGTCCAC-T-TCTGTGTCTCATCAGGAAGGC-AACTGTTTTATTTCTT
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAA-GCTAACCATTTTATTGCTT
* * * *
45470802 CGACTTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTC-AAAGTTTTGCTCGTATTGAGCGTTGA
130 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAA-ATTTGCTCGTGTTGAGCGTTGA
45470866 GTTGGTA
194 GTTGGTA
45470873 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* * *
45470938 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATTAGAAAGCTAACCGTTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * * *
45471003 GACCTGCTTCTTAGTCTCTCATCAGGAAGCTGGGTTTGAAAATTGGCTCATGTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTGTTGAGCGTTGAGT
45471068 TGGTA
196 TGGTA
45471073 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* * *
45471138 CTCAGGAAGACGAATTTGGTCCACTTATCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * *
45471203 GACCTGTTTCTCAGTGTCTCATCAGGAAGCTGGATTCGAAAATTGGCTTGTGTTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTGTTGAGCGTTGAGT
45471268 TGGTA
196 TGGTA
* *
45471273 TTCTTCTCTATATCTCATTAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
45471338 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * *
45471403 GACCTGCTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTAAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTGTTGAGCGTTGAGT
45471468 TGGTA
196 TGGTA
* *
45471473 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGGTTGTTTTAATTCACTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
*
45471538 CTCAGGAAGACGAATTTGGTCCACTTCTTTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * * *
45471603 GACCTTCTTCTCAGTGTCTCACCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGTGTTGAG
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTG-TTGAGCGTTGAG
45471668 TTGGTA
195 TTGGTA
* *
45471674 TTCTTCTCTGTATCTCATCAGGAAGATTATCGCCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
45471710 ACCGTTTTGT
Statistics
Matches: 944, Mismatches: 78, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
192 2 0.00
193 67 0.07
194 3 0.00
195 76 0.08
197 1 0.00
198 96 0.10
199 11 0.01
200 635 0.67
201 53 0.06
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (200 bp):
TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGTGTTGAGCGTTGAGT
TGGTA
Found at i:45483947 original size:30 final size:28
Alignment explanation
Indices: 45483902--45484277 Score: 178
Period size: 30 Copynumber: 12.8 Consensus size: 28
45483892 ATTTTTAACT
*
45483902 TTCGAGGGCAAAAATGTAATTTTGGAAAA
1 TTCG-GGGTAAAAATGTAATTTTGGAAAA
* ** **
45483931 TTTTGGGGTTAAAAATGGGATTTTGGAAGG
1 -TTCGGGG-TAAAAATGTAATTTTGGAAAA
*
45483961 TTCGGGGT-AAAATGGTATTTTTTGGTAAAA
1 TTCGGGGTAAAAAT-GTA-ATTTTGG-AAAA
* * *
45483991 -TCGGGGTTAAAATGAAATTTTGGAAAGT
1 TTCGGGGTAAAAATGTAATTTTGGAAA-A
* * *
45484019 TTAGGGGT-AAAATGGTATTTTTTGGTGAAA
1 TTCGGGGTAAAAAT-GTA-ATTTTGG-AAAA
* * *
45484049 -TCGGGGTCAAAAATGGAAATTTGGAAAG
1 TTCGGGGT-AAAAATGTAATTTTGGAAAA
*
45484077 TTCGAGGGT-AAAATGGTAATTTTTGGTGAAA
1 TTCG-GGGTAAAAAT-GTAA-TTTTGG-AAAA
** * *
45484108 -TCGGGGTTAAAAATGGGATTTTAGAAAG
1 TTCGGGG-TAAAAATGTAATTTTGGAAAA
45484136 TTCAGGGGTAAAAATGTAACTTTT-GAAAA
1 TTC-GGGGTAAAAATGTAA-TTTTGGAAAA
* * *
45484165 GTTTGGGGGCAAAAATGTAATTTTTGGTGAAA
1 --TTCGGGGTAAAAATGTAA-TTTTGG-AAAA
45484197 -TCGGGGTTAAAAATG-AGATTTT-GAAAA
1 TTCGGGG-TAAAAATGTA-ATTTTGGAAAA
* **
45484224 GCTCGAGGGTAAAAATGTAATTTTTAAAAA
1 -TTCG-GGGTAAAAATGTAATTTTGGAAAA
*
45484254 GCTCAGGGGTAAAAATGTAATTTT
1 -TTC-GGGGTAAAAATGTAATTTT
45484278 TAGAATTTTT
Statistics
Matches: 266, Mismatches: 46, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
27 11 0.04
28 23 0.09
29 98 0.37
30 113 0.42
31 18 0.07
32 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (28 bp):
TTCGGGGTAAAAATGTAATTTTGGAAAA
Found at i:45484000 original size:58 final size:58
Alignment explanation
Indices: 45483935--45484148 Score: 304
Period size: 59 Copynumber: 3.7 Consensus size: 58
45483925 GGAAAATTTT
* * *
45483935 GGGGTTAAAAATGGGATTTTGGAAGGTTCGGGGTAAAATGGTATTTTTTGGTAAAATC
1 GGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTAAAATGGTATTTTTTGGTGAAATC
* *
45483993 GGGGTT-AAAATGAAATTTTGGAAAGTTTAGGGGTAAAATGGTATTTTTTGGTGAAATC
1 GGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTAAAATGGTATTTTTTGGTGAAATC
* * *
45484051 GGGGTCAAAAATGGAAATTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
1 GGGGTTAAAAATGGAATTTTGGAAAGTTCG-GGGTAAAATGGTATTTTTTGGTGAAATC
* *
45484110 GGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGTAAAA
1 GGGGTTAAAAATGGAATTTTGGAAAGTTC-GGGGTAAAA
45484149 ATGTAACTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
57 16 0.12
58 44 0.32
59 77 0.56
60 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (58 bp):
GGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTAAAATGGTATTTTTTGGTGAAATC
Found at i:45484040 original size:29 final size:30
Alignment explanation
Indices: 45483912--45484188 Score: 119
Period size: 29 Copynumber: 9.5 Consensus size: 30
45483902 TTCGAGGGCA
* *
45483912 AAAAT-GTAATTTTGGAAAATTTTGGGGTT
1 AAAATGGTAATTTTGGAAAGTTTCGGGGTT
* *
45483941 AAAAATGG-GATTTTGG-AAGGTTCGGGG-T
1 -AAAATGGTAATTTTGGAAAGTTTCGGGGTT
* *
45483969 AAAATGGTATTTTTTGGTAAA--ATCGGGGTT
1 AAAATGGTA-ATTTTGG-AAAGTTTCGGGGTT
* *
45483999 AAAAT-GAAATTTTGGAAAGTTTAGGGG-T
1 AAAATGGTAATTTTGGAAAGTTTCGGGGTT
* *
45484027 AAAATGGTATTTTTTGGTGAAA---TCGGGGTCA
1 AAAATGGTA-ATTTT-G-GAAAGTTTCGGGGT-T
*
45484058 AAAATGG-AAATTTGGAAAG-TTCGAGGG-T
1 AAAATGGTAATTTTGGAAAGTTTCG-GGGTT
45484086 AAAATGGTAATTTTTGGTGAAA---TCGGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTTCGGGGTT
* * *
45484116 AAAAATGG-GATTTTAGAAAG-TTCAGGGGTA
1 -AAAATGGTAATTTTGGAAAGTTTC-GGGGTT
* * **
45484146 AAAAT-GTAACTTTTGAAAAGTTTGGGGGCA
1 AAAATGGTAA-TTTTGGAAAGTTTCGGGGTT
45484176 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
45484189 TGGTGAAATC
Statistics
Matches: 191, Mismatches: 27, Indels: 59
0.69 0.10 0.21
Matches are distributed among these distances:
27 18 0.09
28 22 0.12
29 61 0.32
30 61 0.32
31 21 0.11
32 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAAAGTTTCGGGGTT
Found at i:45484144 original size:89 final size:88
Alignment explanation
Indices: 45484051--45484278 Score: 248
Period size: 89 Copynumber: 2.6 Consensus size: 88
45484041 TGGTGAAATC
* *
45484051 GGGGTCAAAAATGGAA-ATTTGGAAAGTTCGAGGG-TAAAATGGTAATTTTTGGTGAAATCGGGG
1 GGGGT-AAAAATGGAACATTTGAAAAGTTCGAGGGCAAAAAT-GTAATTTTTGGTGAAATCGGGG
*
45484114 TTAAAAATGGGATTTTAGAAAGTTCA
64 TTAAAAATGAGATTTT-GAAAGTTCA
* * * *
45484140 GGGGTAAAAATGTAACTTTTGAAAAGTTTGGGGGCAAAAATGTAATTTTTGGTGAAATCGGGGTT
1 GGGGTAAAAATGGAACATTTGAAAAGTTCGAGGGCAAAAATGTAATTTTTGGTGAAATCGGGGTT
*
45484205 AAAAATGAGATTTTGAAAAGCTC-
66 AAAAATGAGATTTTG-AAAGTTCA
* ** * * *
45484228 GAGGGTAAAAATGTAATTTTTAAAAAGCTC-AGGGGTAAAAATGTAATTTTT
1 G-GGGTAAAAATGGAACATTTGAAAAGTTCGA-GGGCAAAAATGTAATTTTT
45484279 AGAATTTTTG
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
88 11 0.09
89 104 0.87
90 5 0.04
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (88 bp):
GGGGTAAAAATGGAACATTTGAAAAGTTCGAGGGCAAAAATGTAATTTTTGGTGAAATCGGGGTT
AAAAATGAGATTTTGAAAGTTCA
Found at i:45484188 original size:59 final size:58
Alignment explanation
Indices: 45484126--45484277 Score: 166
Period size: 59 Copynumber: 2.6 Consensus size: 58
45484116 AAAAATGGGA
* * *
45484126 TTTTAGAAAGTTCAGGGGTAAAAATGTAACTTTTGAAAAGTTTGGGGGCAAAAATGTAAT
1 TTTTAGAAAG-TCAGGGGTAAAAATGTAA-TTTTGAAAAGCTCGAGGGCAAAAATGTAAT
* *
45484186 TTTTGGTGAAA-TC-GGGGTTAAAAATG-AGATTTTGAAAAGCTCGAGGGTAAAAATGTAAT
1 TTTT--AGAAAGTCAGGGG-TAAAAATGTA-ATTTTGAAAAGCTCGAGGGCAAAAATGTAAT
*
45484245 TTTTAAAAAGCTCAGGGGTAAAAATGTAATTTT
1 TTTTAGAAAG-TCAGGGGTAAAAATGTAATTTT
45484278 TAGAATTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
57 3 0.04
59 50 0.65
60 20 0.26
62 4 0.05
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.32
Consensus pattern (58 bp):
TTTTAGAAAGTCAGGGGTAAAAATGTAATTTTGAAAAGCTCGAGGGCAAAAATGTAAT
Found at i:45484298 original size:29 final size:30
Alignment explanation
Indices: 45484265--45484321 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
45484255 CTCAGGGGTA
* * *
45484265 AAAATGTAATTTTT-AGAATTTTTGGGATT
1 AAAATATAATTTTTGAGAAGTTTAGGGATT
45484294 AAAATATAATTTTTGAGAAGTTTAGGGA
1 AAAATATAATTTTTGAGAAGTTTAGGGA
45484322 CTAGAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (30 bp):
AAAATATAATTTTTGAGAAGTTTAGGGATT
Found at i:45486208 original size:23 final size:23
Alignment explanation
Indices: 45486182--45486227 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45486172 ATTTTCCTTG
*
45486182 TATTTGGACATTT-AATTTATATT
1 TATTT-GAAATTTAAATTTATATT
*
45486205 TATTTTAAATTTAAATTTATATT
1 TATTTGAAATTTAAATTTATATT
45486228 AAGTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTTGAAATTTAAATTTATATT
Found at i:45486217 original size:17 final size:17
Alignment explanation
Indices: 45486195--45486239 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45486185 TTGGACATTT
* *
45486195 AATTTATATTTATTTTA
1 AATTTAAATTTATATTA
45486212 AATTTAAATTTATATTA
1 AATTTAAATTTATATTA
*
45486229 AGTTTAAATTT
1 AATTTAAATTT
45486240 TAGAAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATTTAAATTTATATTA
Found at i:45486234 original size:23 final size:22
Alignment explanation
Indices: 45486191--45486239 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
45486181 GTATTTGGAC
* *
45486191 ATTTAATTTATATTTATTTTAA
1 ATTTAATTTATATTAAGTTTAA
45486213 ATTTAAATTTATATTAAGTTTAA
1 ATTT-AATTTATATTAAGTTTAA
45486236 ATTT
1 ATTT
45486240 TAGAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAATTTATATTAAGTTTAA
Found at i:45490945 original size:13 final size:15
Alignment explanation
Indices: 45490914--45490947 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
45490904 TATTCGAATT
45490914 ATTCGAATAATTCAA
1 ATTCGAATAATTCAA
45490929 ATTCGAA-AATT-AA
1 ATTCGAATAATTCAA
45490942 ATTCGA
1 ATTCGA
45490948 TTTGAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 4 0.21
15 7 0.37
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (15 bp):
ATTCGAATAATTCAA
Found at i:45495919 original size:14 final size:14
Alignment explanation
Indices: 45495894--45495928 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
45495884 TATTACATTT
45495894 TTTGTCTTTTTTCTA
1 TTTGT-TTTTTTCTA
*
45495909 TTTGTTTTTTTCTC
1 TTTGTTTTTTTCTA
45495923 TTTGTT
1 TTTGTT
45495929 ATCTTCTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.03, C:0.11, G:0.09, T:0.77
Consensus pattern (14 bp):
TTTGTTTTTTTCTA
Found at i:45499797 original size:16 final size:17
Alignment explanation
Indices: 45499778--45499811 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45499768 AAAGTAACAT
45499778 TAATTAAAATAA-TAAC
1 TAATTAAAATAATTAAC
*
45499794 TAATTAATATAATTAAC
1 TAATTAAAATAATTAAC
45499811 T
1 T
45499812 CTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATTAAAATAATTAAC
Found at i:45500077 original size:18 final size:18
Alignment explanation
Indices: 45500017--45500077 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
45500007 AATAACTCTA
** *
45500017 TTTTAAAATTAGCATAAT
1 TTTTAAAATTATAATTAT
* *
45500035 TTTTTAAATAATAATTAT
1 TTTTAAAATTATAATTAT
***
45500053 GAATAAAATTATAATTAT
1 TTTTAAAATTATAATTAT
45500071 TTTTAAA
1 TTTTAAA
45500078 TGCATAATTA
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (18 bp):
TTTTAAAATTATAATTAT
Found at i:45502688 original size:16 final size:18
Alignment explanation
Indices: 45502649--45502690 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
45502639 TAAGTTAATA
45502649 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
45502666 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
45502683 A-ATTTATA
1 ATATTTATA
45502691 ACACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:45511808 original size:72 final size:72
Alignment explanation
Indices: 45511722--45511973 Score: 418
Period size: 72 Copynumber: 3.5 Consensus size: 72
45511712 AATGCTAAAC
45511722 TAGTTTTATCAATAGTTGTTTATGTTTGGTT-TTCGGATATTGAATTTATGTTCTACTTATTTAT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTT-GGATATTGAATTTATGTTCTACTTATTTAT
45511786 GTGTAATT
65 GTGTAATT
*
45511794 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTAATTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
*
45511859 TGTAATC
66 TGTAATT
* *
45511866 TAATTTTATCAATAGTTATTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
*
45511931 TGTATTT
66 TGTAATT
* *
45511938 TAGTTTTATCAATAGTTGTTTATATTTGATT-TTGGA
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGA
45511974 AATAAAATTT
Statistics
Matches: 168, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
71 5 0.03
72 161 0.96
73 2 0.01
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (72 bp):
TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTATG
TGTAATT
Found at i:45513696 original size:14 final size:15
Alignment explanation
Indices: 45513679--45513708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45513669 TAACTGTGCT
45513679 AATATTT-AAATATA
1 AATATTTAAAATATA
45513693 AATATTTAAAATATA
1 AATATTTAAAATATA
45513708 A
1 A
45513709 TTTATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATTTAAAATATA
Found at i:45528458 original size:77 final size:78
Alignment explanation
Indices: 45528269--45528485 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 78
45528259 ACACAAAATC
* * * *
45528269 GTTGGTTAATCCAACTAGAGTTGGGCTCACTTTTGCAGTTTATCCGCTAGGCACTGGGTGTCAAG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTAGGTGCCAAG
45528334 ATTTGACGATCATT
66 ATTTGACGA-CATT
** * * *
45528348 GTTGGTTAATTTAACTAGAGCTGGGCTTACTTTTGCGGTTTATCCGCTAGGTAGTAGGTGCCAAG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTAGGTGCCAAG
*
45528413 ATTTGACG-GATT
66 ATTTGACGACATT
*
45528425 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTG-GTGTTTATTCGCTAGGCACTAGGTGC
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCG-GTTTATCCGCTAGGCACTAGGTGC
45528486 TAGGATTGTC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 1 0.01
77 56 0.46
79 64 0.53
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (78 bp):
GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTAGGTGCCAAG
ATTTGACGACATT
Found at i:45528702 original size:78 final size:81
Alignment explanation
Indices: 45528526--45528736 Score: 207
Period size: 78 Copynumber: 2.6 Consensus size: 81
45528516 GGCGCAAAAC
* * * * * *
45528526 CGTTGGTTAATCCAACTAAAGCTGAGCTTACTTATTGCAGTTTATCCGTTAGGCACTAGGGACCA
1 CGTTGGTTAATCCAACTAGAGCTGGGCTTA-TTTTTGCGGTTTATCCGCTAGACACTAGGGACCA
* *
45528591 GGAATTGATGGAATTAT
65 AGAATTGACGGAATTAT
* **
45528608 CGTTGGTTAATTCAACTAGAGCTGGGCTTATTTTTGCGGTTTATCCGCTAGACACT-GGGTGCAA
1 CGTTGGTTAATCCAACTAGAGCTGGGCTTATTTTTGCGGTTTATCCGCTAGACACTAGGGACCAA
*
45528672 GATTTGACGGACA-T-T
66 GAATTGACGGA-ATTAT
* * * * *
45528687 -GTTGGCTAATCCAACTAGAG-TTGGATTCACTTTTGTGGTTTATCCGCTAG
1 CGTTGGTTAATCCAACTAGAGCTGGGCTT-ATTTTTGCGGTTTATCCGCTAG
45528737 GCATTAGGTG
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 5 0.05
78 38 0.35
79 1 0.01
80 15 0.14
81 23 0.21
82 27 0.25
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (81 bp):
CGTTGGTTAATCCAACTAGAGCTGGGCTTATTTTTGCGGTTTATCCGCTAGACACTAGGGACCAA
GAATTGACGGAATTAT
Found at i:45528785 original size:262 final size:258
Alignment explanation
Indices: 45528229--45528833 Score: 763
Period size: 262 Copynumber: 2.3 Consensus size: 258
45528219 GAATTATTAA
* * * * *
45528229 AGGATCGTCGGTTTATCCGACTAGCGCTGGACACAAAATCGTTGGTTAATCCAACTAGAGTTGGG
1 AGGATCGTCGGTTTATCTGACTAGCGCTGGGCGCAAAACCGTTGGTTAATCCAACTAGAGCT-GG
** * *
45528294 CTCACTT-TTGCAGTTTATCCGCTAGGCACTGGGTGTCAAGATTTGACGATCATTGTTGGTTAAT
65 CTCACTTATTGCAGTTTATCCGCTAGGCACTGGGTACCAAGAATTGACGATCATCGTTGGTTAAT
* ** *
45528358 TTAACTAGAGCTGGGCTTACTTTTGCGGTTTATCCGCTAGGTAGTAGGTGCCAAGATTTGACGGA
130 TCAACTAGAGCTGGGCTTACTTTTGCGGTTTATCCGCTAGACACTAGGTGCCAAGATTTGACGGA
* * *
45528423 TTGTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGGTGTTTATTCGCTAGGCACTAGGTGCT
195 TTGTTGGCTAATCCAACTAGAGCTGGACTCACTTTTGGTGTTTATCCGCTAGGCACTAGGTGCT
* * * * *
45528487 AGGATTGTCGATTTAT-TCGACTAGTGCTAGGCGCAAAACCGTTGGTTAATCCAACTAAAGCTGA
1 AGGATCGTCGGTTTATCT-GACTAGCGCTGGGCGCAAAACCGTTGGTTAATCCAACTAGAGCTG-
* * * * *
45528551 GCTTACTTATTGCAGTTTATCCGTTAGGCACTAGGG-ACCAGGAATTGATGGAATTATCGTTGGT
64 GCTCACTTATTGCAGTTTATCCGCTAGGCACT-GGGTACCAAGAATTGA-CG-ATCATCGTTGGT
* *
45528615 TAATTCAACTAGAGCTGGGCTTATTTTTGCGGTTTATCCGCTAGACACTGGGTG-CAAGATTTGA
126 TAATTCAACTAGAGCTGGGCTTACTTTTGCGGTTTATCCGCTAGACACTAGGTGCCAAGATTTGA
* * *
45528679 CGGACATTGTTGGCTAATCCAACTAGAGTTGGATTCACTTTT-GTGGTTTATCCGCTAGGCATTA
191 CGG--ATTGTTGGCTAATCCAACTAGAGCTGGACTCACTTTTGGT-GTTTATCCGCTAGGCACTA
45528743 GGTG-T
253 GGTGCT
* * *
45528748 CAGGATCATCGGTTTATCTGACTAGCGTTGGGCGCAAAACCGTTGATTAATCCAACTAGAGCTGG
1 -AGGATCGTCGGTTTATCTGACTAGCGCTGGGCGCAAAACCGTTGGTTAATCCAACTAGAGCTGG
45528813 ACTCACTTATTGCAGTTTATC
65 -CTCACTTATTGCAGTTTATC
45528834 TACTAAGCAT
Statistics
Matches: 295, Mismatches: 40, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
257 1 0.00
258 58 0.20
259 30 0.10
260 17 0.06
261 62 0.21
262 126 0.43
263 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (258 bp):
AGGATCGTCGGTTTATCTGACTAGCGCTGGGCGCAAAACCGTTGGTTAATCCAACTAGAGCTGGC
TCACTTATTGCAGTTTATCCGCTAGGCACTGGGTACCAAGAATTGACGATCATCGTTGGTTAATT
CAACTAGAGCTGGGCTTACTTTTGCGGTTTATCCGCTAGACACTAGGTGCCAAGATTTGACGGAT
TGTTGGCTAATCCAACTAGAGCTGGACTCACTTTTGGTGTTTATCCGCTAGGCACTAGGTGCT
Found at i:45547308 original size:76 final size:76
Alignment explanation
Indices: 45547080--45547822 Score: 1150
Period size: 76 Copynumber: 9.8 Consensus size: 76
45547070 ATCAGACCGC
* * *
45547080 AGCAAGATCATTTCCTATCCACTTGAAATTGAAGTAGAGTGGGATAAC--GTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547143 ATTGAAGTAAG
66 ATTGAAGTAAG
* * ** *
45547154 AGCAAGATCATTTCCTATCCACTTGAAATTGAAGTAGAG-TGGATAACGCGTCTTTATCTATGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547218 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
45547229 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547294 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
45547305 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547370 ATTGAAGTAAG
66 ATTGAAGTAAG
*
45547381 AGCAAGATCATTTCACATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547446 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
45547457 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547522 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
45547533 AGCAAGATCATTTCACATCCTTTTGAAACTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
45547598 ATTGAGGTAAG
66 ATTGAAGTAAG
*
45547609 AGCAAGATCATTTCACATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547674 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
45547685 AGTAAGATCGTTTCCCATCATCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
45547750 ATTGAAGTAAG
66 ATTGAAGTAAG
** * * * *
45547761 AGCAAGATTGTCTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCCTTATCTCT
1 AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
45547823 CTGAAGAGCA
Statistics
Matches: 619, Mismatches: 47, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
73 7 0.01
74 39 0.06
75 62 0.10
76 511 0.83
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (76 bp):
AGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:45548159 original size:37 final size:37
Alignment explanation
Indices: 45548116--45548189 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
45548106 GATTTTAAGT
45548116 TTATTTAAATTTAAATTT-ATCTTAAATTTAAATTTAA
1 TTATTTAAATTTAAATTTAAT-TTAAATTTAAATTTAA
**
45548153 TTATTTAAATTTACCTTTAATTTAAATTTAAATTTAA
1 TTATTTAAATTTAAATTTAATTTAAATTTAAATTTAA
45548190 ATTAAAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (37 bp):
TTATTTAAATTTAAATTTAATTTAAATTTAAATTTAA
Found at i:45548162 original size:31 final size:29
Alignment explanation
Indices: 45548118--45548192 Score: 114
Period size: 31 Copynumber: 2.5 Consensus size: 29
45548108 TTTTAAGTTT
*
45548118 ATTTAAATTTAAATTTATCTTAAATTTAA
1 ATTTAAATTTAAATTTACCTTAAATTTAA
*
45548147 ATTTAATTATTTAAATTTACCTTTAATTTAA
1 ATTTAA--ATTTAAATTTACCTTAAATTTAA
45548178 ATTTAAATTTAAATT
1 ATTTAAATTTAAATT
45548193 AAAATACTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.36
31 27 0.64
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTAAATTTAAATTTACCTTAAATTTAA
Found at i:45548188 original size:17 final size:17
Alignment explanation
Indices: 45548109--45548195 Score: 88
Period size: 17 Copynumber: 5.0 Consensus size: 17
45548099 TTAAATTGAT
*
45548109 TTTAAGTTT-ATTTAAA
1 TTTAAATTTAATTTAAA
45548125 TTTAAATTT-ATCTTAAA
1 TTTAAATTTAAT-TTAAA
45548142 TTTAAATTTAATTATTTAAA
1 TTTAAATTT-A--ATTTAAA
**
45548162 TTTACCTTTAATTTAAA
1 TTTAAATTTAATTTAAA
*
45548179 TTTAAATTTAAATTAAA
1 TTTAAATTTAATTTAAA
45548196 ATACTAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.17
17 35 0.58
19 1 0.02
20 12 0.20
21 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:45548194 original size:5 final size:6
Alignment explanation
Indices: 45548118--45548223 Score: 92
Period size: 6 Copynumber: 17.2 Consensus size: 6
45548108 TTTTAAGTTT
*
45548118 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTTAC
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* * * *
45548167 CTTT-A ATTTAA ATTTAA ATTTAA ATTAAA ATACTAA ATTTAA ACATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA A-TTTAA
45548216 ATATTAA A
1 AT-TTAA A
45548224 AGTCCAAGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
4 2 0.02
5 5 0.06
6 52 0.64
7 16 0.20
8 6 0.07
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:45548216 original size:13 final size:12
Alignment explanation
Indices: 45548118--45548224 Score: 58
Period size: 11 Copynumber: 8.7 Consensus size: 12
45548108 TTTTAAGTTT
*
45548118 ATTTAAATTTAA
1 ATTTAAAATTAA
**
45548130 ATTT-ATCTTAA
1 ATTTAAAATTAA
*
45548141 ATTTAAATTTAA
1 ATTTAAAATTAA
* *
45548153 TTATTTAAATTTAC
1 --ATTTAAAATTAA
* *
45548167 CTTT-AATTTAA
1 ATTTAAAATTAA
*
45548178 ATTTAAATTTAA
1 ATTTAAAATTAA
45548190 A-TTAAAATACTAA
1 ATTTAAAAT--TAA
45548203 ATTTAAACATTAA
1 ATTTAAA-ATTAA
45548216 ATATTAAAA
1 AT-TTAAAA
45548225 GTCCAAGAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
11 24 0.31
12 20 0.26
13 10 0.13
14 21 0.27
15 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTAAAATTAA
Found at i:45548959 original size:6 final size:6
Alignment explanation
Indices: 45548943--45549037 Score: 78
Period size: 6 Copynumber: 17.0 Consensus size: 6
45548933 TTTTGTTTAT
* * * * *
45548943 TTTAAA ATTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
45548989 TTTAAA TTT--G TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
45549032 TTTAAA
1 TTTAAA
45549038 AATGATATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
4 5 0.07
5 16 0.23
6 48 0.70
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:45548970 original size:17 final size:18
Alignment explanation
Indices: 45548950--45549026 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 18
45548940 TATTTTAAAA
*
45548950 TTAATTTTAAATTTTA-T
1 TTAAATTTAAATTTTATT
45548967 TTAAATTTAAA-TTTATT
1 TTAAATTTAAATTTTATT
* *
45548984 TTAAGTTTAAA-TTT-GT
1 TTAAATTTAAATTTTATT
*
45549000 TTAAATTT--ATTTTAAAT
1 TTAAATTTAAATTTT-ATT
45549017 TTAAATTTAA
1 TTAAATTTAA
45549027 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 1 0.02
15 3 0.06
16 12 0.24
17 33 0.67
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTAAATTTAAATTTTATT
Found at i:45549002 original size:27 final size:27
Alignment explanation
Indices: 45548938--45549035 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
45548928 TTGGATTTTG
* *
45548938 TTTATTTTAAAATTAATTTTAAATTT-TA
1 TTTA-TTT-AAATTTATTTTAAATTTAAA
*
45548966 TTTAAATTTAAATTTATTTTAAGTTTAAA
1 TTT--ATTTAAATTTATTTTAAATTTAAA
*
45548995 TTTGTTTAAATTTATTTTAAATTTAAA
1 TTTATTTAAATTTATTTTAAATTTAAA
*
45549022 TTTAATTAAATTTA
1 TTTATTTAAATTTA
45549036 AAAATGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 34 0.57
28 18 0.30
29 7 0.12
30 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATTTAAATTTATTTTAAATTTAAA
Found at i:45549028 original size:11 final size:11
Alignment explanation
Indices: 45548938--45549037 Score: 80
Period size: 11 Copynumber: 9.0 Consensus size: 11
45548928 TTGGATTTTG
*
45548938 TTTATTTTAAA
1 TTTAATTTAAA
*
45548949 ATTAATTTTAAA
1 TTTAA-TTTAAA
*
45548961 TTTTATTTAAA
1 TTTAATTTAAA
*
45548972 TTTAAATTT-AT
1 TTT-AATTTAAA
45548983 TTTAAGTTTAAA
1 TTTAA-TTTAAA
*
45548995 TTT-GTTTAAA
1 TTTAATTTAAA
*
45549005 TTTATTTTAAA
1 TTTAATTTAAA
45549016 TTTAAATTT-AA
1 TTT-AATTTAAA
*
45549027 TTAAATTTAAA
1 TTTAATTTAAA
45549038 AATGATATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
10 16 0.23
11 34 0.48
12 21 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:45549804 original size:24 final size:24
Alignment explanation
Indices: 45549774--45549829 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
45549764 TAATGGTGGT
*
45549774 TAATAATAGT-ATCATTAATAACAA
1 TAATAATAGTGAT-AATAATAACAA
*
45549798 TAATAATAGTGATAATAATAACAG
1 TAATAATAGTGATAATAATAACAA
*
45549822 CAATAATA
1 TAATAATA
45549830 ATAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (24 bp):
TAATAATAGTGATAATAATAACAA
Found at i:45550945 original size:89 final size:89
Alignment explanation
Indices: 45550839--45551366 Score: 676
Period size: 89 Copynumber: 6.0 Consensus size: 89
45550829 CTAAATTGTC
* * *
45550839 CAAAAATTACATTTTGACCCCAAAA-ATTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAA
1 CAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAA
* *
45550903 ATTATATTTTGACCCCAAAACTTTT
66 ATTACATTTTGACCCCAAAA-ATTT
*
45550928 CCAAAATTACATTTTGACCCT-AAACTTTTCCAAAATTACATTTTGACCCCCAAAA--TTTCCAA
1 CAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGA-CCCCAAAACTTTTCCAA
45550990 AATTACATTTTGACCCCAAAAATTT
65 AATTACATTTTGACCCCAAAAATTT
* *
45551015 CTAAAAATTATATTTTGACCCTAAAACTTTTCCAAAATTATATTTTGA-CCCAAAACTTTTCCAA
1 C-AAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAA
*
45551079 AACTACATTTTGACCCCAAAAATTT
65 AATTACATTTTGACCCCAAAAATTT
* * * * * * *
45551104 CTAAAATTACATTTTGACCCTAAAA-ATTTCTAAAAAATATATTTTAACCCCAAAACTTTTCAAA
1 CAAAAATTACATTTTGACCCTAAAACTTTTC-CAAAATTACATTTTGACCCCAAAACTTTTCCAA
* * *
45551168 AATTATATTTTGATCCCAAAACTTTT
65 AATTACATTTTGACCCCAAAA-ATTT
* * **
45551194 CCAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTT-AACCTTAAACTTTTCCAAA
1 CAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAA
45551258 ATTACATTTTGACCCCAAAAATTT
66 ATTACATTTTGACCCCAAAAATTT
* * * * *
45551282 CTAAAAAATATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA-CCTAAAACTTTTTCAA
1 C-AAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAA
* *
45551346 AATTACCTTTTTACCCCAAAA
65 AATTACATTTTGACCCCAAAA
45551367 CTTCCCCAAA
Statistics
Matches: 386, Mismatches: 41, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
87 15 0.04
88 87 0.23
89 233 0.60
90 47 0.12
91 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.36
Consensus pattern (89 bp):
CAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAA
ATTACATTTTGACCCCAAAAATTT
Found at i:45550965 original size:118 final size:120
Alignment explanation
Indices: 45550841--45551369 Score: 698
Period size: 118 Copynumber: 4.5 Consensus size: 120
45550831 AAATTGTCCA
* *
45550841 AAAATTACATTTTGACCCCAAAAATTTCCAAAATTATATTTTGACCCCAAAACTTTTC-CAAAAT
1 AAAATTACATTTTGACCCCAAAAATTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAAT
* * *
45550905 TATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA-CCCTAAACTTTTCC
66 TATATTTTGACCCCAAAACTTTTCAAAAATTATATTTTGACCCCAAAACTTTTCC
* *
45550959 AAAATTACATTTTGACCCCCAAAATTTCCAAAATTACATTTTGACCCCAAAA-ATTTCTAAAAAT
1 AAAATTACATTTTGACCCCAAAAATTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAAT
* *
45551023 TATATTTTGACCCTAAAACTTTTCCAAAATTATATTTTGA-CCCAAAACTTTTCC
66 TATATTTTGACCCCAAAACTTTTCAAAAATTATATTTTGACCCCAAAACTTTTCC
* * * * *
45551077 AAAACTACATTTTGACCCCAAAAATTTCTAAAATTACATTTTGACCCTAAAA-ATTTCTAAAAAA
1 AAAATTACATTTTGACCCCAAAAATTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAAT
* *
45551141 TATATTTTAACCCCAAAACTTTTCAAAAATTATATTTTGATCCCAAAACTTTTCC
66 TATATTTTGACCCCAAAACTTTTCAAAAATTATATTTTGACCCCAAAACTTTTCC
* * * ** *
45551196 AAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTT-AACCTTAAACTTTTC-CAAAA
1 AAAATTACATTTTGACCCCAAAA-ATTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAA
* * *
45551259 TTACATTTTGACCCCAAAA-ATTTCTAAAAAATATATTTTGACCCCAAAACTTTTCC
65 TTATATTTTGACCCCAAAACTTTTC-AAAAATTATATTTTGACCCCAAAACTTTTCC
* * * * *
45551315 AAAATTACATTTTGA-CCTAAAACTTTTTCAAAATTACCTTTTTACCCCAAAACTT
1 AAAATTACATTTTGACCCCAAAA-ATTTCCAAAATTACATTTTGACCCCAAAACTT
45551370 CCCCAAATCC
Statistics
Matches: 371, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
117 4 0.01
118 231 0.62
119 115 0.31
120 21 0.06
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (120 bp):
AAAATTACATTTTGACCCCAAAAATTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAAT
TATATTTTGACCCCAAAACTTTTCAAAAATTATATTTTGACCCCAAAACTTTTCC
Found at i:45551367 original size:30 final size:30
Alignment explanation
Indices: 45550841--45551369 Score: 648
Period size: 30 Copynumber: 17.9 Consensus size: 30
45550831 AAATTGTCCA
*
45550841 AAAATTACATTTTGACCCCAAAA-ATTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
45550870 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
45550900 AAAATTATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
45550930 AAAATTACATTTTGA-CCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
45550959 AAAATTACATTTTGACCCCCAAAA--TTTCC
1 AAAATTACATTTTGA-CCCCAAAACTTTTCC
* *
45550988 AAAATTACATTTTGACCCCAAAA-ATTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTC-C
* *
45551018 AAAATTATATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
45551048 AAAATTATATTTTGA-CCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
45551077 AAAACTACATTTTGACCCCAAAA-ATTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
45551106 AAAATTACATTTTGACCCTAAAA-ATTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTC-C
* * * *
45551136 AAAAATATATTTTAACCCCAAAACTTTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
45551166 AAAATTATATTTTGATCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
45551196 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* **
45551226 AAAATTACATTTT-AACCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
45551255 AAAATTACATTTTGACCCCAAAA-ATTTCTA
1 AAAATTACATTTTGACCCCAAAACTTTTC-C
* *
45551285 AAAAATATATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
45551315 AAAATTACATTTTGA-CCTAAAACTTTTTC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
45551344 AAAATTACCTTTTTACCCCAAAACTT
1 AAAATTACATTTTGACCCCAAAACTT
45551370 CCCCAAATCC
Statistics
Matches: 439, Mismatches: 48, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
28 8 0.02
29 186 0.42
30 227 0.52
31 18 0.04
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:45553578 original size:28 final size:29
Alignment explanation
Indices: 45553509--45553578 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
45553499 AAACAGTCCA
* * *
45553509 AAAATTGCATTTTGACCCTAAAATTTCAG
1 AAAATTACATTTTGACCCTAAAACTTCAC
*
45553538 AAAATTATATTTTGACCCTAAAACTTC-C
1 AAAATTACATTTTGACCCTAAAACTTCAC
*
45553566 AAAATTCCATTTT
1 AAAATTACATTTT
45553579 TAACCCCGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAAACTTCAC
Found at i:45553628 original size:59 final size:59
Alignment explanation
Indices: 45553558--45553812 Score: 347
Period size: 59 Copynumber: 4.4 Consensus size: 59
45553548 TTTGACCCTA
* *
45553558 AAAC-TTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAATTACCATTTTACCCCC
1 AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATCTTACCCCC
*
45553616 AAACTTTCCAAAATTCCATTTTTAA---CGATTTCACCAAAAATTACCATCTTACCCCT
1 AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATCTTACCCCC
* *
45553672 AAACTTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTACCATCTTACCCCC
1 AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATCTTACCCCC
* * * * * *
45553731 AAACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAAATTACCATTTTACCCTC
1 AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATCTTACCCCC
* * *
45553790 GAACTCTCAAAAATTACCATTTT
1 AAACTTTCCAAAATT-CCATTTT
45553813 ACCCTCACAC
Statistics
Matches: 175, Mismatches: 17, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
56 53 0.30
58 4 0.02
59 112 0.64
60 6 0.03
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (59 bp):
AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATCTTACCCCC
Found at i:45553708 original size:115 final size:117
Alignment explanation
Indices: 45553553--45553787 Score: 350
Period size: 115 Copynumber: 2.0 Consensus size: 117
45553543 TATATTTTGA
* *
45553553 CCCTAAAACTTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAATTACCATTTTACCCCCAA
1 CCCTAAAACTTCCAAAATTCCATTTTTAACCCCAACTTCACCAAAAATTACCATCTTACCCCCAA
* *
45553618 ACTTTCCAAAATTCCAT-TTTTA-ACGATTTCACCAAAAATTACCATCTTAC
66 ACTTTCCAAAATTCCATCTTTGACACGATTCCACCAAAAATTACCATCTTAC
* *
45553668 CCCT-AAACTTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTACCATCTTACCCCCA
1 CCCTAAAAC-TTCCAAAATTCCATTTTTAACCCCAACTTCACCAAAAATTACCATCTTACCCCCA
* * *
45553732 AACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAAATTACCATTTTAC
65 AACTTTCCAAAATTCCATCTTTGA-CACGATTCCACCAAAAATTACCATCTTAC
45553786 CC
1 CC
45553788 TCGAACTCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
114 4 0.04
115 72 0.67
116 4 0.04
118 27 0.25
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.31
Consensus pattern (117 bp):
CCCTAAAACTTCCAAAATTCCATTTTTAACCCCAACTTCACCAAAAATTACCATCTTACCCCCAA
ACTTTCCAAAATTCCATCTTTGACACGATTCCACCAAAAATTACCATCTTAC
Found at i:45553752 original size:28 final size:29
Alignment explanation
Indices: 45553650--45553816 Score: 99
Period size: 29 Copynumber: 5.7 Consensus size: 29
45553640 ACGATTTCAC
*
45553650 CAAAAATTACCATCTTACCCCTAAACTTT
1 CAAAAATTACCATCTTACCCCCAAACTTT
* * * *
45553679 CCAAAATT-CCATTTTTAACCTC-AA-TTT
1 CAAAAATTACCA-TCTTACCCCCAAACTTT
45553706 CACCAAAAATTACCATCTTACCCCCAAACTTT
1 ---CAAAAATTACCATCTTACCCCCAAACTTT
* * ** ***
45553738 CTAAAATT-CCATCTTTGACCCCGATTCCAC
1 CAAAAATTACCATC-TT-ACCCCCAAACTTT
* * * *
45553768 CAAAAATTACCATTTTACCCTCGAACTCT
1 CAAAAATTACCATCTTACCCCCAAACTTT
*
45553797 CAAAAATTACCATTTTACCC
1 CAAAAATTACCATCTTACCC
45553817 TCACACCTTT
Statistics
Matches: 102, Mismatches: 26, Indels: 20
0.69 0.18 0.14
Matches are distributed among these distances:
27 3 0.03
28 10 0.10
29 47 0.46
30 30 0.29
31 9 0.09
32 3 0.03
ACGTcount: A:0.35, C:0.32, G:0.02, T:0.31
Consensus pattern (29 bp):
CAAAAATTACCATCTTACCCCCAAACTTT
Found at i:45553801 original size:88 final size:88
Alignment explanation
Indices: 45553709--45553872 Score: 249
Period size: 88 Copynumber: 1.9 Consensus size: 88
45553699 TCAATTTCAC
*
45553709 CAAAAATTACCATCTTACCCCCA-AACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAA
1 CAAAAATTACCATCTTACCCCCACAACTTT-TAAAATTCCATCTTTAACCCCGATTCCACCAAAA
*
45553773 ATTACCATTTTACCCTCGAACTCT
65 AATACCATTTTACCCTCGAACTCT
* * * * *
45553797 CAAAAATTACCATTTTACCCTCACACCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATCTTACCCCCACAACTTTTAAAATTCCATCTTTAACCCCGATTCCACCAAAAA
45553862 ATACCATTTTA
66 ATACCATTTTA
45553873 TCCCCAAACC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 63 0.93
89 5 0.07
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (88 bp):
CAAAAATTACCATCTTACCCCCACAACTTTTAAAATTCCATCTTTAACCCCGATTCCACCAAAAA
ATACCATTTTACCCTCGAACTCT
Found at i:45553860 original size:59 final size:58
Alignment explanation
Indices: 45553797--45554054 Score: 356
Period size: 59 Copynumber: 4.4 Consensus size: 58
45553787 CTCGAACTCT
* *
45553797 CAAAAATTACCATTTTACCCTCACACCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCA-AACTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
45553856 CAAAAAATACCATTTTATCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAA-CTTTTAAAATTCCATTTTTAACCCCGATTTCAC
* *
45553915 CTAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTT-TAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
45553974 CAAAAATTACCATTTTACCCCCAAACTCCTAAAAATTCCATTTTTAACCTCAATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACT-TTTAAAATTCCATTTTTAACCCCGATTTCAC
*
45554033 C-AAAATTACCATTTTGCCCCCA
1 CAAAAATTACCATTTTACCCCCA
45554055 GGTATCCAAA
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
58 24 0.13
59 153 0.86
60 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTTAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:45553891 original size:88 final size:88
Alignment explanation
Indices: 45553709--45553899 Score: 246
Period size: 88 Copynumber: 2.2 Consensus size: 88
45553699 TCAATTTCAC
* *
45553709 CAAAAATTACCATCTTACCCCCAAACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAAA
1 CAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAAA
* *
45553774 TTACCATTTTACCCTCGAACTCT
66 ATACCATTTTACCCTCAAACTCT
* * * *
45553797 CAAAAATTACCATTTTACCCTCACACCTTT-TAAAATTCCATTTTTAACCCCGATTTCACCAAAA
1 CAAAAATTACCATTTTACCCCCA-AACTTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAA
45553861 AATACCATTTTATCCC-CAAAC-CTT
65 AATACCATTTTA-CCCTCAAACTC-T
*
45553885 CTAAAATT-CCATTTT
1 CAAAAATTACCATTTT
45553900 TAACCTCGAT
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
87 8 0.09
88 75 0.82
89 8 0.09
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.32
Consensus pattern (88 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAAA
ATACCATTTTACCCTCAAACTCT
Found at i:45553896 original size:28 final size:28
Alignment explanation
Indices: 45553711--45553965 Score: 84
Period size: 29 Copynumber: 8.7 Consensus size: 28
45553701 AATTTCACCA
* * *
45553711 AAAATTACCATCTTACCCCCAAACTTTCT
1 AAAATT-CCATTTTAACCCCAAACCTTCT
* ** ** *
45553740 AAAATTCCATCTTTGACCCCGATTCCACCA
1 AAAATTCCAT-TTTAACCCC-AAACCTTCT
* *
45553770 AAAATTACCATTTT-ACCCTCGAA-CTCTCA
1 AAAATT-CCATTTTAACCC-CAAACCT-TCT
* *
45553799 AAAATTACCATTTT-ACCCTCACACCTTTT
1 AAAATT-CCATTTTAACCC-CAAACCTTCT
*** ** *
45553828 AAAATTCCATTTTTAACCCCGATTTCACCAA
1 AAAATTCCA-TTTTAACCCC-AAACCTTC-T
* *
45553859 AAAATACCATTTTATCCCCAAACCTTCT
1 AAAATTCCATTTTAACCCCAAACCTTCT
* *** **
45553887 AAAATTCCATTTTTAACCTCGATTTCACCT
1 AAAATTCCA-TTTTAACC-CCAAACCTTCT
* * *
45553917 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATT-CCATTTTAACCCCAAACCTTCT
45553946 AAAATTCCATTTTTAACCCC
1 AAAATTCCA-TTTTAACCCC
45553966 GATTTCACCA
Statistics
Matches: 161, Mismatches: 51, Indels: 28
0.67 0.21 0.12
Matches are distributed among these distances:
28 19 0.12
29 79 0.49
30 48 0.30
31 15 0.09
ACGTcount: A:0.33, C:0.32, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCCAAACCTTCT
Found at i:45553921 original size:118 final size:117
Alignment explanation
Indices: 45553799--45554054 Score: 399
Period size: 118 Copynumber: 2.2 Consensus size: 117
45553789 CGAACTCTCA
* * *
45553799 AAAATTACCATTTTACCCTCACACCTTT-TAAAATTCCATTTTTAACCCCGATTTCACCAAAAAA
1 AAAATTACCATTTTACCCCCA-AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAA
* * *
45553863 TACCATTTTATCCCCAAACCTTCT-AAAATTCCATTTTTAACCTCGATTTCACC
65 TACCATTTTACCCCCAAA-CTCCTAAAAATTCCATTTTTAACCTCAATTTCACC
*
45553916 TAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
1 -AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAA
45553981 TACCATTTTACCCCCAAACTCCTAAAAATTCCATTTTTAACCTCAATTTCACC
65 TACCATTTTACCCCCAAACTCCTAAAAATTCCATTTTTAACCTCAATTTCACC
*
45554034 AAAATTACCATTTTGCCCCCA
1 AAAATTACCATTTTACCCCCA
45554055 GGTATCCAAA
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
117 29 0.23
118 99 0.77
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.34
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAAT
ACCATTTTACCCCCAAACTCCTAAAAATTCCATTTTTAACCTCAATTTCACC
Found at i:45553923 original size:206 final size:202
Alignment explanation
Indices: 45553593--45554017 Score: 622
Period size: 206 Copynumber: 2.1 Consensus size: 202
45553583 CCCGACTTCA
*
45553593 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACGATTTCACCAAAAATT
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACGATTTCACCAAAAAAT
*
45553658 ACCATCTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTACCATC
66 ACCATCTTACCCCTAAACCTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTACCATC
* *
45553723 TTACCCCCAAACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAAATTACCATTTTACCC
131 TTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTACCATTTTACCC
* *
45553788 TCGAACT
196 CCAAACT
* * *
45553795 CTCAAAAATTACCATTTTACCCTCACACCTTT-TAAAATTCCATTTTTAACCCCGATTTCACCAA
1 C-CAAAAATTACCATTTTACCCCCA-AACTTTCCAAAATTCCATTTTTAA---CGATTTCACCAA
* * * *
45553859 AAAATACCATTTTATCCCC-AAACCTTCTAAAATTCCATTTTTAACCTCGATTTCACCTAAAATT
61 AAAATACCATCTTA-CCCCTAAACCTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATT
* * *
45553923 ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
125 ACCATCTTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTACCATT
45553988 TTACCCCCAAACT
190 TTACCCCCAAACT
45554001 CCTAAAAATT-CCATTTT
1 CC-AAAAATTACCATTTT
45554018 TAACCTCAAT
Statistics
Matches: 200, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
202 1 0.00
203 38 0.19
204 5 0.03
205 8 0.04
206 144 0.72
207 4 0.02
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (202 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACGATTTCACCAAAAAAT
ACCATCTTACCCCTAAACCTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAAAATTACCATC
TTACCCCCAAACTTTCCAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTACCATTTTACCC
CCAAACT
Found at i:45553935 original size:88 final size:84
Alignment explanation
Indices: 45553566--45553936 Score: 200
Period size: 88 Copynumber: 4.2 Consensus size: 84
45553556 TAAAACTTCC
* * * *
45553566 AAAATTCCATTTTTAACCCCGACTT-CACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAAT
1 AAAATTCCA-TTTTAACCCCGA-TTCCACCAAAAAATACCATTTTACCCTCAAACTCTCAAAAAT
* ** *
45553630 T-CCATTTTTAACGATTTCACCA
64 TACCA-TTTTAAC-CTCACACCT
* * ** ** * * ** *
45553652 AAAATTACCATCTT-ACCCCTAAACTTTCC--AAAATTCCATTTTTAACCTCAATTTCACCAAAA
1 AAAATT-CCATTTTAACCCCGATTC-CACCAAAAAATACCA-TTTTACCCTCAAACTC-TCAAAA
* * * *
45553714 ATTACCATCTTACCCCCAAACTTTCT
62 ATTACCATTTTAACCTCACAC---CT
* * *
45553740 AAAATTCCATCTTTGACCCCGATTCCACCAAAAATTACCATTTTACCCTCGAACTCTCAAAAATT
1 AAAATTCCAT-TTTAACCCCGATTCCACCAAAAAATACCATTTTACCCTCAAACTCTCAAAAATT
*
45553805 ACCATTTTACCCTCACACCTTTT
65 ACCATTTTAACCTCACACC---T
* *
45553828 AAAATTCCATTTTTAACCCCGATTTCACCAAAAAATACCATTTTATCCC-CAAAC-CTTCTAAAA
1 AAAATTCCA-TTTTAACCCCGATTCCACCAAAAAATACCATTTTA-CCCTCAAACTC-TCAAAAA
45553891 TT-CCATTTTTAACCTCGATTTCACCT
63 TTACCA-TTTTAACCTC-A---CACCT
*
45553917 AAAATTACCATTTTACCCCC
1 AAAATT-CCATTTTAACCCC
45553937 AAACTTTCCA
Statistics
Matches: 214, Mismatches: 46, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
84 7 0.03
85 20 0.09
86 23 0.11
87 14 0.07
88 96 0.45
89 40 0.19
90 10 0.05
92 4 0.02
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (84 bp):
AAAATTCCATTTTAACCCCGATTCCACCAAAAAATACCATTTTACCCTCAAACTCTCAAAAATTA
CCATTTTAACCTCACACCT
Found at i:45553960 original size:147 final size:147
Alignment explanation
Indices: 45553650--45553958 Score: 417
Period size: 147 Copynumber: 2.1 Consensus size: 147
45553640 ACGATTTCAC
* * * *
45553650 CAAAAATTACCATCTTACCC-CTA-AACTTTCCAAAATTCCATTTTTAACCTCAATTTCACCAAA
1 CAAAAATTACCATTTTACCCTC-ACACCTTT-TAAAATTCCATTTTTAACCCCAATTTCACCAAA
* * *
45553713 AATTACCATCTTACCCCCAAACTTTCTAAAATTCCATCTTTGACCCCGATTCCACCAAAAATTAC
64 AAATACCATCTTACCCCCAAACCTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTAC
* *
45553778 CATTTTACCCTCGAACTCT
129 CATTTTACCCCCAAACTCT
*
45553797 CAAAAATTACCATTTTACCCTCACACCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCTCACACCTTTTAAAATTCCATTTTTAACCCCAATTTCACCAAAAA
* * * * * *
45553862 ATACCATTTTATCCCCAAACCTTCTAAAATTCCATTTTTAACCTCGATTTCACCTAAAATTACCA
66 ATACCATCTTACCCCCAAACCTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTACCA
*
45553927 TTTTACCCCCAAACTTT
131 TTTTACCCCCAAACTCT
*
45553944 CCAAAATT-CCATTTT
1 CAAAAATTACCATTTT
45553959 TAACCCCGAT
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
146 7 0.05
147 129 0.91
148 6 0.04
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (147 bp):
CAAAAATTACCATTTTACCCTCACACCTTTTAAAATTCCATTTTTAACCCCAATTTCACCAAAAA
ATACCATCTTACCCCCAAACCTTCTAAAATTCCATCTTTAACCCCGATTCCACCAAAAATTACCA
TTTTACCCCCAAACTCT
Found at i:45554088 original size:58 final size:57
Alignment explanation
Indices: 45553835--45554089 Score: 230
Period size: 59 Copynumber: 4.4 Consensus size: 57
45553825 TTTAAAATTC
* * * * *
45553835 CATTTTTAACCCCGATTTCACCAAAAAATACCATTTTATCCCCAAACCTTCTAAAAT-T
1 CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCATA--TCCAAAAATCT
* * * *
45553893 CCATTTTTAACCTCGATTTCACCTAAAATTACCATTTTACCCCCAAACTTTCCAAAATTC-
1 -CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC--A-TATCCAAAAATCT
*
45553953 CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCCTAAAAAT-T
1 CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCATA-TCC-AAAAATCT
* * * *
45554011 CCATTTTTAACCTCAATTTCACC-AAAATTACCATTTTGCCCCCAGGTATCCAAAAGTCT
1 -CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCA--TATCCAAAAATCT
* * *
45554070 CGTTTTCACCCCCGATTTCA
1 CATTTTTAACCCCGATTTCA
45554090 TCGTTCCTTC
Statistics
Matches: 161, Mismatches: 24, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
57 4 0.02
58 45 0.28
59 104 0.65
60 7 0.04
61 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (57 bp):
CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCATATCCAAAAATCT
Found at i:45555260 original size:12 final size:11
Alignment explanation
Indices: 45555242--45555286 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
45555232 TGGTTTCGAC
45555242 AAAAATTATAA
1 AAAAATTATAA
45555253 ACAAAATTTATAA
1 A-AAAA-TTATAA
45555266 AAAAA-TAT--
1 AAAAATTATAA
45555274 AAAAATTATAA
1 AAAAATTATAA
45555285 AA
1 AA
45555287 TTTAAAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 3 0.10
11 3 0.10
12 8 0.28
13 7 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:45556017 original size:20 final size:21
Alignment explanation
Indices: 45555994--45556121 Score: 95
Period size: 21 Copynumber: 5.9 Consensus size: 21
45555984 AAAACGCATA
*
45555994 AAAAATAACATCC-AAACAAC
1 AAAAATAACAACCAAAACAAC
45556014 AAAAATAACAACCAAAACAACAGC
1 AAAAATAACAACCAAAAC-A-A-C
*
45556038 AAAAATAACAA--TAAACAAC
1 AAAAATAACAACCAAAACAAC
*
45556057 ATTAAAAAAACAA--AAATAGCAAC
1 A--AAAATAACAACCAAA-A-CAAC
* *
45556080 AAAAATAACAGCAAAAACAAC
1 AAAAATAACAACCAAAACAAC
45556101 ACGAAAATAACAACCAAAACA
1 A--AAAATAACAACCAAAACA
45556122 GTAAAAAAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.02
20 13 0.15
21 29 0.33
22 7 0.08
23 25 0.28
24 12 0.14
ACGTcount: A:0.69, C:0.20, G:0.03, T:0.08
Consensus pattern (21 bp):
AAAAATAACAACCAAAACAAC
Found at i:45556025 original size:12 final size:12
Alignment explanation
Indices: 45556008--45556119 Score: 73
Period size: 12 Copynumber: 8.8 Consensus size: 12
45555998 ATAACATCCA
45556008 AACAACAAAAAT
1 AACAACAAAAAT
* *
45556020 AACAACCAAAAC
1 AACAACAAAAAT
*
45556032 AACAGCAAAAAT
1 AACAACAAAAAT
*
45556044 AACAATAAACAACATT
1 AACAA-CAA-AA-A-T
*
45556060 AAAAAAACAAAAAT
1 --AACAACAAAAAT
*
45556074 AGCAACAAAAAT
1 AACAACAAAAAT
* *
45556086 AACAGCAAAAAC
1 AACAACAAAAAT
*
45556098 AAC-ACGAAAAT
1 AACAACAAAAAT
45556109 AACAACCAAAA
1 AACAA-CAAAA
45556120 CAGTAAAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
11 8 0.11
12 46 0.62
13 6 0.08
14 3 0.04
15 2 0.03
16 3 0.04
17 2 0.03
18 4 0.05
ACGTcount: A:0.70, C:0.20, G:0.04, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:45556040 original size:24 final size:23
Alignment explanation
Indices: 45556008--45556121 Score: 94
Period size: 24 Copynumber: 5.0 Consensus size: 23
45555998 ATAACATCCA
45556008 AACAACAAAAATAACAACCAAAAC
1 AACAACAAAAATAACAA-CAAAAC
* *
45556032 AACAGCAAAAATAACAA-TAAAC
1 AACAACAAAAATAACAACAAAAC
** *
45556054 AACATTAAAAA-AAC-A-AAAAT
1 AACAACAAAAATAACAACAAAAC
* *
45556074 AGCAACAAAAATAACAGCAAAAAC
1 AACAACAAAAATAACAAC-AAAAC
*
45556098 AAC-ACGAAAATAACAACCAAAAC
1 AACAACAAAAATAACAA-CAAAAC
45556121 A
1 A
45556122 GTAAAAAAAG
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
20 12 0.17
21 6 0.08
22 13 0.18
23 17 0.24
24 23 0.32
ACGTcount: A:0.69, C:0.20, G:0.04, T:0.07
Consensus pattern (23 bp):
AACAACAAAAATAACAACAAAAC
Found at i:45556127 original size:20 final size:18
Alignment explanation
Indices: 45556116--45556185 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
45556106 AATAACAACC
45556116 AAAACAGTAAAAAAAGCACA
1 AAAACAGT-AAAAAA-CACA
*
45556136 AAAACAATAAAAAACACA
1 AAAACAGTAAAAAACACA
* *
45556154 AAAACAGCAAAAAAAATC-
1 AAAACAGTAAAAAACA-CA
*
45556172 AAAATAGTAAAAAA
1 AAAACAGTAAAAAA
45556186 TAGCACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
18 29 0.67
19 7 0.16
20 7 0.16
ACGTcount: A:0.74, C:0.13, G:0.06, T:0.07
Consensus pattern (18 bp):
AAAACAGTAAAAAACACA
Found at i:45556130 original size:66 final size:67
Alignment explanation
Indices: 45556010--45556139 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 67
45556000 AACATCCAAA
* * *
45556010 CAACAAAAATAACAACCAAAACAACAGCAAAAATAACAATAAACAACATTAAAAA-AACAAAAAT
1 CAACAAAAATAACAACAAAAACAACAGCAAAAATAACAACAAACAACATAAAAAAGAACAAAAAT
45556074 AG
66 AG
* * * *
45556076 CAACAAAAATAACAGCAAAAACAACA-CGAAAATAACAACCAA-AACAGTAAAAAAAGCACAAAA
1 CAACAAAAATAACAACAAAAACAACAGCAAAAATAACAACAAACAACA-T-AAAAAAGAACAAAA
45556139 A
64 A
45556140 CAATAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
64 4 0.07
65 14 0.26
66 29 0.54
67 7 0.13
ACGTcount: A:0.69, C:0.19, G:0.05, T:0.07
Consensus pattern (67 bp):
CAACAAAAATAACAACAAAAACAACAGCAAAAATAACAACAAACAACATAAAAAAGAACAAAAAT
AG
Found at i:45558132 original size:18 final size:18
Alignment explanation
Indices: 45558111--45558152 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
45558101 TAAATTATTT
*
45558111 AATATTTCAAAATTTA-AA
1 AATATTT-AAAATTAATAA
45558129 AATATTTAAAATTAATAA
1 AATATTTAAAATTAATAA
45558147 AATATT
1 AATATT
45558153 AATATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATTTAAAATTAATAA
Found at i:45568684 original size:24 final size:25
Alignment explanation
Indices: 45568656--45568709 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
45568646 GATTCGAATC
* *
45568656 TTAAATTTATTCAAA-TTTATATAA
1 TTAAATATATTAAAATTTTATATAA
45568680 TTAAATATATTAAAATTTTATATAA
1 TTAAATATATTAAAATTTTATATAA
*
45568705 CTAAA
1 TTAAA
45568710 ATTACTAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATATATTAAAATTTTATATAA
Found at i:45568709 original size:25 final size:24
Alignment explanation
Indices: 45568657--45568709 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
45568647 ATTCGAATCT
* * *
45568657 TAAATTTATTCAAATTTATATAAT
1 TAAATATATTAAAATTTATATAAC
45568681 TAAATATATTAAAATTTTATATAAC
1 TAAATATATTAAAA-TTTATATAAC
45568706 TAAA
1 TAAA
45568710 ATTACTAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAATATATTAAAATTTATATAAC
Found at i:45570917 original size:28 final size:27
Alignment explanation
Indices: 45570877--45570932 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
45570867 CCCAAATCTT
*
45570877 TATTTTAAATTTATTCTAAGTTTAGAAA
1 TATTTTAAATTTATTCTAAATTTA-AAA
*
45570905 TATTTTAAATTTATTTTAAATTTAAAA
1 TATTTTAAATTTATTCTAAATTTAAAA
45570932 T
1 T
45570933 TTGAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (27 bp):
TATTTTAAATTTATTCTAAATTTAAAA
Found at i:45571679 original size:3 final size:3
Alignment explanation
Indices: 45571671--45571713 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
45571661 TTAGTAACGT
* * *
45571671 TAA TAA TAA TAA TAAA TAA TAT TAA TAA CAG TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45571714 AAAGGGGATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45572807 original size:30 final size:30
Alignment explanation
Indices: 45572771--45572891 Score: 126
Period size: 30 Copynumber: 4.1 Consensus size: 30
45572761 CCTTGAAGGT
45572771 CCCTAAACTATCCAAAAA-T-CATATTTTGAC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTGAC
45572801 CCCTAAACTTCCAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTCCATTTTTGAC
* * *
45572831 CTCT-AACTTTCTAAAAATTACATTTTT-A-
1 CCCTAAAC-TTCCAAAAATTCCATTTTTGAC
* *
45572859 CCCTCAAACTTCAAAAAATTCCATTTTTAAC
1 CCCT-AAACTTCCAAAAATTCCATTTTTGAC
45572890 CC
1 CC
45572892 TAATTTTTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
28 3 0.04
29 29 0.37
30 41 0.53
31 5 0.06
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTCCAAAAATTCCATTTTTGAC
Found at i:45572876 original size:59 final size:58
Alignment explanation
Indices: 45572801--45572981 Score: 190
Period size: 59 Copynumber: 3.1 Consensus size: 58
45572791 ATATTTTGAC
* *
45572801 CCCT-AAACTTCCAAAAATTCCATTTTTGACCTCTAAC-TTTCTAAAAATTA-CATTTTTA
1 CCCTCAAACTTCAAAAAATTCCATTTTTGACC-CTAACTTTTC-CAAAATTACCA-TTTTA
* *
45572859 CCCTCAAACTTCAAAAAATTCCATTTTTAACCCTAATTTTTTCCAAAATTACCATTTTA
1 CCCTCAAACTTCAAAAAATTCCATTTTTGACCCTAA-CTTTTCCAAAATTACCATTTTA
** * * * *
45572918 CCCTTGAA-TGTCTAAAAATTCTATTTTTGACCCCGAACTTTTCCAAAATTATCATTTTA
1 CCCTCAAACT-TCAAAAAATTCCATTTTTGA-CCCTAACTTTTCCAAAATTACCATTTTA
45572977 CCCTC
1 CCCTC
45572982 GAGTATCCAA
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
58 9 0.09
59 84 0.81
60 11 0.11
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (58 bp):
CCCTCAAACTTCAAAAAATTCCATTTTTGACCCTAACTTTTCCAAAATTACCATTTTA
Found at i:45572994 original size:59 final size:57
Alignment explanation
Indices: 45572809--45573013 Score: 182
Period size: 59 Copynumber: 3.5 Consensus size: 57
45572799 ACCCCTAAAC
* * * *
45572809 TTCCAAAAATTCCATTTTTGACCTCTAAC-TTTCTAAAAATTACATTTTTACCCTCAAA
1 TTCCAAAAATTCCATTTTTGACCCCGAACTTTTC-CAAAATTACA-TTTTACCCTCGAA
* * * * *
45572867 CTTCAAAAAATTCCATTTTT-AACCCTAATTTTTTCCAAAATTACCATTTTACCCTTGAA
1 -TTCCAAAAATTCCATTTTTGACCCCGAA-CTTTTCCAAAATTA-CATTTTACCCTCGAA
* * *
45572926 TGTCTAAAAATTCTATTTTTGACCCCGAACTTTTCCAAAATTATCATTTTACCCTCGAG
1 T-TCCAAAAATTCCATTTTTGACCCCGAACTTTTCCAAAATTA-CATTTTACCCTCGAA
* *
45572985 TATCCAAAAA-TCTCATTTTTAACTCCGAA
1 T-TCCAAAAATTC-CATTTTTGACCCCGAA
45573014 TGTTTTATTT
Statistics
Matches: 120, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
58 9 0.08
59 99 0.82
60 12 0.10
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (57 bp):
TTCCAAAAATTCCATTTTTGACCCCGAACTTTTCCAAAATTACATTTTACCCTCGAA
Found at i:45583185 original size:30 final size:30
Alignment explanation
Indices: 45583151--45583243 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
45583141 ATCCGGAGGC
45583151 AAAATGGTAATTTTGATGAAATCGGGGTTA
1 AAAATGGTAATTTTGATGAAATCGGGGTTA
* **
45583181 AAAATAG-AATTTTTGA-GAGTTCGAGGG-T-
1 AAAATGGTAA-TTTTGATGAAATCG-GGGTTA
* * *
45583209 AAAATGGTAGTTTTTGGTGAAATCGAGGTTA
1 AAAATGGTA-ATTTTGATGAAATCGGGGTTA
45583240 AAAA
1 AAAA
45583244 GTTTAGGGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
28 6 0.13
29 16 0.34
30 21 0.45
31 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTGATGAAATCGGGGTTA
Found at i:45583974 original size:15 final size:15
Alignment explanation
Indices: 45583954--45583987 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45583944 TAAGTCTGTC
* *
45583954 TATATTATTTTTTAT
1 TATATTATCTATTAT
45583969 TATATTATCTATTAT
1 TATATTATCTATTAT
45583984 TATA
1 TATA
45583988 GATTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATTATCTATTAT
Found at i:45584398 original size:12 final size:12
Alignment explanation
Indices: 45584380--45584426 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
45584370 TTCACGAACA
45584380 AGCTCGTTTATT
1 AGCTCGTTTATT
*
45584392 GGCTCGTTTATT
1 AGCTCGTTTATT
*
45584404 AACTCGTTTA-T
1 AGCTCGTTTATT
*
45584415 AGCTCTTTTATT
1 AGCTCGTTTATT
45584427 TATTAATGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (12 bp):
AGCTCGTTTATT
Found at i:45584424 original size:23 final size:24
Alignment explanation
Indices: 45584382--45584426 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45584372 CACGAACAAG
*
45584382 CTCGTTTATTGGCTCGTTTATTAA
1 CTCGTTTATTAGCTCGTTTATTAA
*
45584406 CTCGTTTA-TAGCTCTTTTATT
1 CTCGTTTATTAGCTCGTTTATT
45584427 TATTAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (24 bp):
CTCGTTTATTAGCTCGTTTATTAA
Found at i:45586095 original size:6 final size:7
Alignment explanation
Indices: 45586080--45586117 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
45586070 TGACCACTAA
45586080 TTTTGTT
1 TTTTGTT
45586087 TTTTGTT
1 TTTTGTT
45586094 TTTTGTT
1 TTTTGTT
*
45586101 TTTTCTT
1 TTTTGTT
*
45586108 TTTTCTT
1 TTTTGTT
45586115 TTT
1 TTT
45586118 GAGACAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:45587056 original size:17 final size:17
Alignment explanation
Indices: 45587036--45587070 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45587026 TAACATTGGT
*
45587036 TTTTTTTATCATTTTAA
1 TTTTTTTATCAATTTAA
45587053 TTTTTTTATCAATTTAA
1 TTTTTTTATCAATTTAA
45587070 T
1 T
45587071 AATTCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTATCAATTTAA
Found at i:45587113 original size:31 final size:30
Alignment explanation
Indices: 45587061--45587119 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
45587051 AATTTTTTTA
*
45587061 TCAATTTAATAATTCTAATTAAAATATTTGT
1 TCAAATTAATAATTCTAATTAAAA-ATTTGT
*
45587092 TCAAATTAATTATTGCT-ATTAAAAATTT
1 TCAAATTAATAATT-CTAATTAAAAATTT
45587120 CGTTAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 19 0.76
32 2 0.08
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (30 bp):
TCAAATTAATAATTCTAATTAAAAATTTGT
Found at i:45588793 original size:20 final size:18
Alignment explanation
Indices: 45588749--45588796 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
45588739 CTTTTTCTTT
45588749 TATAAATTGAAAATTGAA
1 TATAAATTGAAAATTGAA
*
45588767 -AGGAAATTGACAAAGTTGAA
1 TA-TAAATTGA-AAA-TTGAA
45588787 TATAAATTGA
1 TATAAATTGA
45588797 GAGAGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 3 0.12
20 12 0.50
21 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (18 bp):
TATAAATTGAAAATTGAA
Found at i:45589449 original size:17 final size:20
Alignment explanation
Indices: 45589409--45589449 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
45589399 ATTATTGTTA
*
45589409 ATTTAATAAATATATTTTTC
1 ATTTAATAAATATATTTATC
45589429 ATTTAATAAA-AT-TTTAT-
1 ATTTAATAAATATATTTATC
45589446 ATTT
1 ATTT
45589450 GTTTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 2 0.10
20 10 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAATAAATATATTTATC
Found at i:45591067 original size:2 final size:2
Alignment explanation
Indices: 45591060--45591093 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45591050 TTTTGTCGTT
45591060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45591094 ATAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45596232 original size:15 final size:15
Alignment explanation
Indices: 45596212--45596244 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
45596202 TTTATATATG
45596212 TTTTTT-TAATAATTA
1 TTTTTTGTAA-AATTA
45596227 TTTTTTGTAAAATTA
1 TTTTTTGTAAAATTA
45596242 TTT
1 TTT
45596245 CAATTGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTTGTAAAATTA
Found at i:45596739 original size:38 final size:40
Alignment explanation
Indices: 45596687--45596773 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 40
45596677 TACTTTCACA
* *
45596687 AAAAAATTATAAAATTTTATAAAA-TCGTAAG-AAAATTAT
1 AAAAAATTATAAAA-TATATAAAATTCCTAAGAAAAATTAT
*
45596726 AAAAAA-TCTAAAATATATAAAATTCCTAAGAAAAATTAT
1 AAAAAATTATAAAATATATAAAATTCCTAAGAAAAATTAT
45596765 -AAAAATTAT
1 AAAAAATTAT
45596774 CGTACCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 8 0.20
38 17 0.41
39 16 0.39
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (40 bp):
AAAAAATTATAAAATATATAAAATTCCTAAGAAAAATTAT
Found at i:45600739 original size:7 final size:7
Alignment explanation
Indices: 45600727--45600751 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45600717 CCCAAACTTT
45600727 GTTTTGA
1 GTTTTGA
45600734 GTTTTGA
1 GTTTTGA
45600741 GTTTTGA
1 GTTTTGA
45600748 GTTT
1 GTTT
45600752 GATGATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
GTTTTGA
Found at i:45605653 original size:16 final size:16
Alignment explanation
Indices: 45605634--45605665 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45605624 AAATGTTTTA
*
45605634 AACTTTAAATAATTTG
1 AACTTGAAATAATTTG
45605650 AACTTGAAATAATTTG
1 AACTTGAAATAATTTG
45605666 GACTCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
AACTTGAAATAATTTG
Found at i:45608022 original size:4 final size:4
Alignment explanation
Indices: 45608015--45608039 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45608005 ATATAATATA
45608015 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
45608040 TTGAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:45611579 original size:31 final size:30
Alignment explanation
Indices: 45611510--45611579 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 30
45611500 GATCGAACTT
* *
45611510 AAAAATAAAAGAGAATTAAAGGACCGAATTGA
1 AAAAAT-AAAGAAAATTAAA-GACCAAATTGA
*
45611542 AGAAATAAAGAAAATTAAA-ACCTAAATTGCA
1 AAAAATAAAGAAAATTAAAGACC-AAATTG-A
45611573 AAAAATA
1 AAAAATA
45611580 GAAAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.09
30 5 0.16
31 19 0.59
32 5 0.16
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (30 bp):
AAAAATAAAGAAAATTAAAGACCAAATTGA
Found at i:45612774 original size:21 final size:21
Alignment explanation
Indices: 45612750--45612791 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45612740 GAGAAGTGAT
45612750 GTTGACGTGACAGGAGCAACG
1 GTTGACGTGACAGGAGCAACG
**
45612771 GTTGACGTGGTAGGAGCAACG
1 GTTGACGTGACAGGAGCAACG
45612792 ATGTTGGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.40, T:0.17
Consensus pattern (21 bp):
GTTGACGTGACAGGAGCAACG
Found at i:45615450 original size:15 final size:16
Alignment explanation
Indices: 45615418--45615450 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45615408 TATCTTTTTT
*
45615418 ATTTATTATAATATAA
1 ATTTATTATAATAAAA
45615434 ATTTATT-TAATAAAA
1 ATTTATTATAATAAAA
45615449 AT
1 AT
45615451 AATGATAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTATTATAATAAAA
Found at i:45618139 original size:37 final size:38
Alignment explanation
Indices: 45618069--45618152 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
45618059 ATAGTCTCTA
**
45618069 AAAATTTATCAAAATTTCAATATAGTTTATCCACTT-T
1 AAAATTTATCAAAATTTCAATATAGTCCATCCACTTAT
** * *
45618106 AAAATTTATCAAAATTTTGATATGGTCCCTCCACTTAT
1 AAAATTTATCAAAATTTCAATATAGTCCATCCACTTAT
*
45618144 AAATTTTAT
1 AAAATTTAT
45618153 TTTAAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 30 0.77
38 9 0.23
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (38 bp):
AAAATTTATCAAAATTTCAATATAGTCCATCCACTTAT
Found at i:45619518 original size:31 final size:32
Alignment explanation
Indices: 45619483--45619547 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
45619473 TTTTTAGCTA
*
45619483 AATTTGACCCTCAACCTTTT-AAAAAGAGTCG
1 AATTTGACCATCAACCTTTTGAAAAAGAGTCG
* *
45619514 AATTTGACCATCAATCTTTTGAAAAAGATTCG
1 AATTTGACCATCAACCTTTTGAAAAAGAGTCG
45619546 AA
1 AA
45619548 ATGATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (32 bp):
AATTTGACCATCAACCTTTTGAAAAAGAGTCG
Found at i:45621789 original size:105 final size:105
Alignment explanation
Indices: 45621625--45621813 Score: 333
Period size: 105 Copynumber: 1.8 Consensus size: 105
45621615 TCCGGAGCTA
* * *
45621625 GCACAGTCTCCCGAGCATCGTGGCCATATTGCAGAATCACCTAAAGCCTCATCTCTGGTGCCTGC
1 GCACACTCTCCCGAGCATCATAGCCATATTGCAGAATCACCTAAAGCCTCATCTCTGGTGCCTGC
*
45621690 GCACTCTCCCAAGAATCATGAAGCATCATATCCAGAGCCT
66 ACACTCTCCCAAGAATCATGAAGCATCATATCCAGAGCCT
*
45621730 GCACACTCTCCCGAGCATCATAGCCATGTTGCAGAATCACCTAAAGCCTCATCTCTGGTGCCTGC
1 GCACACTCTCCCGAGCATCATAGCCATATTGCAGAATCACCTAAAGCCTCATCTCTGGTGCCTGC
45621795 ACACTCTCCCAAGAATCAT
66 ACACTCTCCCAAGAATCAT
45621814 CACCCTGTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 79 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.22
Consensus pattern (105 bp):
GCACACTCTCCCGAGCATCATAGCCATATTGCAGAATCACCTAAAGCCTCATCTCTGGTGCCTGC
ACACTCTCCCAAGAATCATGAAGCATCATATCCAGAGCCT
Found at i:45621845 original size:63 final size:63
Alignment explanation
Indices: 45621726--45621847 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
45621716 CATATCCAGA
* * * *
45621726 GCCTGCACACTCTCCCGAGCATCATAGCCATGTTGCAGAATCACCTAAAGCCTCATCTCTGGT
1 GCCTGCACACTCTCCCAAGAATCATAGCCATGTTGCAGAAACACCTAAAGCATCATCTCTGGT
* * * * *
45621789 GCCTGCACACTCTCCCAAGAATCATCA-CCCTGTTGGAGAAACTCCTGAAGTATCATCTC
1 GCCTGCACACTCTCCCAAGAATCAT-AGCCATGTTGCAGAAACACCTAAAGCATCATCTC
45621848 AAGGACCAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 48 0.98
64 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.24
Consensus pattern (63 bp):
GCCTGCACACTCTCCCAAGAATCATAGCCATGTTGCAGAAACACCTAAAGCATCATCTCTGGT
Found at i:45622269 original size:63 final size:63
Alignment explanation
Indices: 45622190--45622461 Score: 205
Period size: 63 Copynumber: 4.3 Consensus size: 63
45622180 CCCAAGCCCT
* **
45622190 ATGGACCTGTTCTAGAACCTCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCGGAGCATC
1 ATGGCCCTGTTCTAGAACCTCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCTAAGCATC
* * * * ** * *
45622253 ATGGCCCTGTTGTAGAACCAGC-CAAAGCCTCATCTCCGGGGCCAGCACACTCACCCAAGCATC
1 ATGGCCCTGTTCTAGAACC-TCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCTAAGCATC
* * * * * ** * * *
45622316 ATGGCTCTGTTCTAGAACCACCAGAAA-TATCAAT-TC-TGGAGACAAAAAATTCTCTTAAGCA-
1 ATGGCCCTGTTCTAGAACC-TCTGAAAGCATC-ATCTCTTGG-GCCAGCACACTCTCCTAAGCAT
45622377 C
63 C
** * * *
45622378 AATGAACCTCTTCTAGAACCTCTGAAAGCATCATCTCTAGGGCCAGCACACTCTCCTGAGCATC
1 -ATGGCCCTGTTCTAGAACCTCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCTAAGCATC
*
45622442 ATGACCCTGTT-TCAGAACCT
1 ATGGCCCTGTTCT-AGAACCT
45622462 GCCGAAGCCC
Statistics
Matches: 157, Mismatches: 42, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
62 11 0.07
63 137 0.87
64 9 0.06
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (63 bp):
ATGGCCCTGTTCTAGAACCTCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCTAAGCATC
Found at i:45622283 original size:189 final size:189
Alignment explanation
Indices: 45622064--45622493 Score: 576
Period size: 189 Copynumber: 2.3 Consensus size: 189
45622054 TCCACGCACT
* *
45622064 ATGGCCCTGTTGCAGAACCAGCCAAAGCCTCATCTCCATCGCCAGCACACTCACCCAAGTATCAT
1 ATGGCCCTGTTGTAGAACCAGCCAAAGCCTCATCTCCATCGCCAGCACACTCACCCAAGCATCAT
* * * * * * * *
45622129 GGCTCCATTGTAGAGCCCCCAGAAACATCAATTGTAGAGACGAAAAATTCTCCCAAGCCCTATGG
66 GGCTCCATTCTAGAACCACCAGAAACATCAATTCTAGAGACAAAAAATTCTCCCAAGCACAATGA
* *
45622194 ACCTGTTCTAGAACCTCTGAAAGCATCATCTCTTGGGCCAGCACACTCTCCGGAGCATC
131 ACCTCTTCTAGAACCTCTGAAAGCATCATCTCTAGGGCCAGCACACTCTCCGGAGCATC
***
45622253 ATGGCCCTGTTGTAGAACCAGCCAAAGCCTCATCTCCGGGGCCAGCACACTCACCCAAGCATCAT
1 ATGGCCCTGTTGTAGAACCAGCCAAAGCCTCATCTCCATCGCCAGCACACTCACCCAAGCATCAT
** * * **
45622318 GGCTCTGTTCTAGAACCACCAGAAATATCAATTCTGGAGACAAAAAATTCTCTTAAGCACAATGA
66 GGCTCCATTCTAGAACCACCAGAAACATCAATTCTAGAGACAAAAAATTCTCCCAAGCACAATGA
*
45622383 ACCTCTTCTAGAACCTCTGAAAGCATCATCTCTAGGGCCAGCACACTCTCCTGAGCATC
131 ACCTCTTCTAGAACCTCTGAAAGCATCATCTCTAGGGCCAGCACACTCTCCGGAGCATC
* * * * * *
45622442 ATGACCCTGTT-TCAGAACCTGCCGAAGCCCCATC-CCCTGTGCCAGCACACTC
1 ATGGCCCTGTTGT-AGAACCAGCCAAAGCCTCATCTCCAT-CGCCAGCACACTC
45622494 TTCCAAGCTC
Statistics
Matches: 210, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
188 3 0.01
189 207 0.99
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (189 bp):
ATGGCCCTGTTGTAGAACCAGCCAAAGCCTCATCTCCATCGCCAGCACACTCACCCAAGCATCAT
GGCTCCATTCTAGAACCACCAGAAACATCAATTCTAGAGACAAAAAATTCTCCCAAGCACAATGA
ACCTCTTCTAGAACCTCTGAAAGCATCATCTCTAGGGCCAGCACACTCTCCGGAGCATC
Found at i:45630408 original size:14 final size:15
Alignment explanation
Indices: 45630369--45630430 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 15
45630359 GTATATTAAA
45630369 AAAATTATTAAAAATT
1 AAAATTA-TAAAAATT
45630385 ATAAATTTATAAAAA-T
1 A-AAA-TTATAAAAATT
*
45630401 AAAATTATAATAATT
1 AAAATTATAAAAATT
*
45630416 AGAAAATATTAAAAA
1 A-AAATTA-TAAAAA
45630431 AAGCAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.21
15 5 0.13
16 8 0.21
17 14 0.37
18 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AAAATTATAAAAATT
Found at i:45630423 original size:22 final size:22
Alignment explanation
Indices: 45630379--45630421 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45630369 AAAATTATTA
*
45630379 AAAATTATAAATTTATAAAAAT
1 AAAATTATAAAATTATAAAAAT
*
45630401 AAAATTATAATAATTAGAAAA
1 AAAATTATAA-AATTATAAAA
45630422 TATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTATAAAATTATAAAAAT
Found at i:45630431 original size:32 final size:32
Alignment explanation
Indices: 45630369--45630432 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
45630359 GTATATTAAA
*
45630369 AAAATTATTAAAAATTATAAATTTATAAAAAT
1 AAAATTATTAAAAATTAAAAATTTATAAAAAT
* *
45630401 AAAATTA-TAATAATTAGAAAATATTAAAAAAA
1 AAAATTATTAAAAATTA-AAAAT-TTATAAAAA
45630433 GCAATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.30
32 11 0.41
33 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (32 bp):
AAAATTATTAAAAATTAAAAATTTATAAAAAT
Found at i:45631469 original size:39 final size:39
Alignment explanation
Indices: 45631395--45631481 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
45631385 CATGTACCAA
* * *
45631395 GCCGTGTATGCCCTGCAGCAAACACGCCCCAATCCCATG
1 GCCGTGTATACCCTGCAACAAACACGCCCCAATCCCACG
* * *
45631434 GCCGTGTGTACCCTGCAACAAGCACGCCTGC-ATCCCACG
1 GCCGTGTATACCCTGCAACAAACACGCC-CCAATCCCACG
*
45631473 CCCGTGTAT
1 GCCGTGTAT
45631482 GACTATAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.21, C:0.40, G:0.22, T:0.17
Consensus pattern (39 bp):
GCCGTGTATACCCTGCAACAAACACGCCCCAATCCCACG
Found at i:45632259 original size:28 final size:28
Alignment explanation
Indices: 45632124--45632262 Score: 154
Period size: 28 Copynumber: 5.0 Consensus size: 28
45632114 ATAAACTTTA
* * *
45632124 GTTTACACTCGTCAGCTTATACACACGC
1 GTTTACGCTCGTCAGCTTATACATATGC
* *
45632152 GTTTACGCTCGTCAGCTTATATACATGC
1 GTTTACGCTCGTCAGCTTATACATATGC
*
45632180 GTTTACGCTCGTC-GACTTATACATATGT
1 GTTTACGCTCGTCAG-CTTATACATATGC
* * * **
45632208 GTTTACACTCGCCAGTTTGCACATATGC
1 GTTTACGCTCGTCAGCTTATACATATGC
*
45632236 TTTTACGCTCGTCAGCTTATACATATG
1 GTTTACGCTCGTCAGCTTATACATATG
45632263 AGCTATATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
27 1 0.01
28 89 0.98
29 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (28 bp):
GTTTACGCTCGTCAGCTTATACATATGC
Found at i:45632333 original size:79 final size:79
Alignment explanation
Indices: 45632235--45632391 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
45632225 TGCACATATG
45632235 CTTTTACGCTCGTCAGCTTATACATATGAGCTATATATATACAAAACAAAGCAATTTACTTATTA
1 CTTTTACGCTCGTCAGCTTATACATATGAGCTATATATATACAAAACAAAGCAATTTACTTATTA
*
45632300 AAGGACAATTAATT
66 AAAGACAATTAATT
45632314 CTTTTACGCTCGTCAGCTTATACATATGAGCTATATATATACAAAACAAAGCAATTTACTTATTA
1 CTTTTACGCTCGTCAGCTTATACATATGAGCTATATATATACAAAACAAAGCAATTTACTTATTA
45632379 AAAGACAATTAAT
66 AAAGACAATTAAT
45632392 CATATTAAAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (79 bp):
CTTTTACGCTCGTCAGCTTATACATATGAGCTATATATATACAAAACAAAGCAATTTACTTATTA
AAAGACAATTAATT
Found at i:45633349 original size:19 final size:18
Alignment explanation
Indices: 45633292--45633349 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
45633282 ATTAAAAAAA
45633292 TTTATAATTCTTA-AATT
1 TTTATAATTCTTACAATT
45633309 TTTATAATT-TTACCAA-T
1 TTTATAATTCTTA-CAATT
*
45633326 TTTATAATATCATACAATT
1 TTTATAAT-TCTTACAATT
45633345 TTTAT
1 TTTAT
45633350 TTGTTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 6 0.17
19 8 0.23
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATAATTCTTACAATT
Found at i:45633421 original size:7 final size:8
Alignment explanation
Indices: 45633400--45633434 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
45633390 CCAAATATGT
45633400 ATTTTTTA
1 ATTTTTTA
45633408 GATTTTTTA
1 -ATTTTTTA
45633417 ATTTTTTA
1 ATTTTTTA
45633425 ATTTTTTA
1 ATTTTTTA
45633433 AT
1 AT
45633435 ATATATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
ATTTTTTA
Found at i:45640129 original size:23 final size:22
Alignment explanation
Indices: 45640081--45640129 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
45640071 ATAAGCAATA
* *
45640081 TTTTATTATTTTAAATTATTTC
1 TTTTAATATTATAAATTATTTC
45640103 TTTTAATATTATACAATTACTTT-
1 TTTTAATATTATA-AATTA-TTTC
45640126 TTTT
1 TTTT
45640130 GGTGAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 9 0.39
24 3 0.13
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTAATATTATAAATTATTTC
Found at i:45656078 original size:18 final size:18
Alignment explanation
Indices: 45656055--45656090 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45656045 TATTAGCCTT
45656055 ATTCTTTCAAGTTTTCTG
1 ATTCTTTCAAGTTTTCTG
45656073 ATTCTTTCAAGTTTTCTG
1 ATTCTTTCAAGTTTTCTG
45656091 TCGCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (18 bp):
ATTCTTTCAAGTTTTCTG
Found at i:45661174 original size:59 final size:58
Alignment explanation
Indices: 45661071--45661429 Score: 395
Period size: 59 Copynumber: 6.1 Consensus size: 58
45661061 GGCAAAAATA
** * * *
45661071 TAATTTTGG-AAAATTTAGGGTT-AAAAGGGGATTTTGGAAGGTTCGAGGGGTAAAATGG
1 TAATTTTGGTAAAA-TCGGGGTTAAAAATGGAATTTTGGAAAGTT-GAGGGGTAAAATGG
* * * * * *
45661129 TAATTTTAGTAAAATCGAGGTTTAAAATGGGACTTCGGAAAGTTCGA-GGGTAAAATGG
1 TAATTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT-GAGGGGTAAAATGG
** *
45661187 TAATTTTTGG-AAGTTTCGGGGTT-AAAATGGAATTTTGGAAAGTTTGGGGGGTAAAATGG
1 TAA-TTTTGGTAA-AATCGGGGTTAAAAATGGAATTTTGGAAAG-TTGAGGGGTAAAATGG
* *
45661246 TAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGG
1 TAA-TTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAATGG
* * *
45661305 TAGTTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGA
1 TA-ATTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAATGG
* * * *
45661364 TAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTAGGAAAGTTTAAGGGTAAAATGG
1 TAATTTT-GGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAATGG
45661423 TAATTTT
1 TAATTTT
45661430 TAGAAATTTA
Statistics
Matches: 262, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
58 50 0.19
59 192 0.73
60 20 0.08
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (58 bp):
TAATTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGAGGGGTAAAATGG
Found at i:45661200 original size:29 final size:30
Alignment explanation
Indices: 45661032--45661465 Score: 167
Period size: 30 Copynumber: 14.8 Consensus size: 30
45661022 GGATATCCGG
**
45661032 GGGTAAAATGGTAATTTTT--AACTTTCGA
1 GGGTAAAATGGTAATTTTTGGAAAGTTCGA
* * * *
45661060 GGGCAAAAAT-ATAA-TTTTGGAAAATT-TA
1 GGG-TAAAATGGTAATTTTTGGAAAGTTCGA
** *
45661088 GGGTTAAAA-GGGGA-TTTTGGAAGGTTCGA
1 GGG-TAAAATGGTAATTTTTGGAAAGTTCGA
* * *
45661117 GGGGTAAAATGGTAATTTTAGTAAA-ATCGA
1 -GGGTAAAATGGTAATTTTTGGAAAGTTCGA
* * * *
45661147 GGTTTAAAATGG-GA-CTTCGGAAAGTTCGA
1 GG-GTAAAATGGTAATTTTTGGAAAGTTCGA
45661176 GGGTAAAATGGTAATTTTTGG-AAGTTTCG-
1 GGGTAAAATGGTAATTTTTGGAAAG-TTCGA
* *
45661205 GGGTTAAAATGG-AA-TTTTGGAAAGTTTGGG
1 GGG-TAAAATGGTAATTTTTGGAAAG-TTCGA
45661235 GGGTAAAATGGTAATTTTTGGTGAAA--TCG-
1 GGGTAAAATGGTAATTTTT-G-GAAAGTTCGA
*
45661264 GGGTTAAAAATGG-AA-TTTTGGAAAGTT-TA
1 GGG-T-AAAATGGTAATTTTTGGAAAGTTCGA
* *
45661293 GGGGTAAAATGGTAGTTTTTGGTAAA-ATCG-
1 -GGGTAAAATGGTAATTTTTGG-AAAGTTCGA
*
45661323 GGGTTAAAAATGG-AA-TTTTGGAAAGTT-TA
1 GGG-T-AAAATGGTAATTTTTGGAAAGTTCGA
* *
45661352 GGGGTAAAATGATAATTTTGGGTGAAA--TCG-
1 -GGGTAAAATGGTAATTTT-TG-GAAAGTTCGA
* **
45661382 GGGTTAAAAATGG-AA-TTTAGGAAAGTTTAA
1 GGG-T-AAAATGGTAATTTTTGGAAAGTTCGA
* **
45661412 GGGTAAAATGGTAATTTTTAGAAA-TTTAA
1 GGGTAAAATGGTAATTTTTGGAAAGTTCGA
*
45661441 GAGGTCAAAAT-GTAATTTTTTGAAA
1 G-GGT-AAAATGGTAATTTTTGGAAA
45661466 TTTTTGGGGT
Statistics
Matches: 309, Mismatches: 48, Indels: 96
0.68 0.11 0.21
Matches are distributed among these distances:
27 12 0.04
28 70 0.23
29 87 0.28
30 92 0.30
31 39 0.13
32 5 0.02
33 4 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (30 bp):
GGGTAAAATGGTAATTTTTGGAAAGTTCGA
Found at i:45661324 original size:118 final size:118
Alignment explanation
Indices: 45661088--45661430 Score: 451
Period size: 118 Copynumber: 2.9 Consensus size: 118
45661078 GGAAAATTTA
* * * * * * * *
45661088 GGGTTAAAAGGGGATTTTGGAAGGTTCGAGGGGTAAAATGGTAA-TTTTAGTAAAATCGAGGTTT
1 GGGTTAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* * * * **
45661152 AAAATGGGACTTCGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCG
66 AAAATGGAATTTAGGAAAGTTTAG-GGGTAAAATGGTAATTTTTGGAAGAATCG
*
45661205 GGGTTAAAATGGAATTTTGGAAAGTTTGGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 GGGTTAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* *
45661270 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAGTTTTTGGTAA-AATCG
66 AAAATGGAATTTAGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG-AAGAATCG
* *
45661323 GGGTTAAAAATGGAATTTTGGAAAGTTT-AGGGGTAAAATGATAATTTTGGGTGAAATCGGGGTT
1 GGGTT-AAAATGGAATTTTGGAAAGTTTGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT
*
45661387 AAAAATGGAATTTAGGAAAGTTTAAGGGTAAAATGGTAATTTTT
65 AAAAATGGAATTTAGGAAAGTTTAGGGGTAAAATGGTAATTTTT
45661431 AGAAATTTAA
Statistics
Matches: 200, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
117 39 0.19
118 134 0.67
119 27 0.14
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.33
Consensus pattern (118 bp):
GGGTTAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
AAAATGGAATTTAGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGAATCG
Found at i:45661458 original size:30 final size:29
Alignment explanation
Indices: 45661397--45661500 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 29
45661387 AAAAATGGAA
45661397 TTTAGGAAAGTTTAAGGGT-AAAATGGTAATT
1 TTTA-GAAA-TTTAAGGGTCAAAAT-GTAATT
45661428 TTTAGAAATTTAAGAGGTCAAAATGTAATT
1 TTTAGAAATTTAAG-GGTCAAAATGTAATT
* ** *
45661458 TTTTGAAATTTTTGGGGTCAAAATGTAGTT
1 TTTAGAAA-TTTAAGGGTCAAAATGTAATT
*
45661488 TCTAGATAATTTA
1 TTTAGA-AATTTA
45661501 GGGAACTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 6 0.10
30 41 0.66
31 15 0.24
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTAGAAATTTAAGGGTCAAAATGTAATT
Found at i:45663541 original size:6 final size:6
Alignment explanation
Indices: 45663526--45663584 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
45663516 TTAAATTTGA
* * *
45663526 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
45663574 ATAAAT TTAAA
1 TTAAAT TTAAA
45663585 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:45663560 original size:14 final size:14
Alignment explanation
Indices: 45663541--45663568 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45663531 CTTAAATTTA
45663541 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
45663555 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
45663569 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:45664441 original size:13 final size:13
Alignment explanation
Indices: 45664423--45664447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45664413 TACATTGAAT
45664423 AATTTATATAAAA
1 AATTTATATAAAA
45664436 AATTTATATAAA
1 AATTTATATAAA
45664448 TGTGTGCCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTATATAAAA
Found at i:45667769 original size:25 final size:27
Alignment explanation
Indices: 45667741--45667826 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 27
45667731 AAACAAATAA
*
45667741 CAAAACCCAAAACCAAAATC-AAA-TC
1 CAAAAACCAAAACCAAAATCAAAAGTC
** *
45667766 CAAAAACTTAATCCAAAATCAAAAGTC
1 CAAAAACCAAAACCAAAATCAAAAGTC
** *
45667793 CAAAAAACTTAATCCAAAATCAAAAGTC
1 C-AAAAACCAAAACCAAAATCAAAAGTC
45667821 CAAAAA
1 CAAAAA
45667827 ACTTAATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.30
26 3 0.06
27 8 0.15
28 27 0.50
ACGTcount: A:0.59, C:0.24, G:0.02, T:0.14
Consensus pattern (27 bp):
CAAAAACCAAAACCAAAATCAAAAGTC
Found at i:45667771 original size:13 final size:14
Alignment explanation
Indices: 45667755--45667826 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 14
45667745 ACCCAAAACC
45667755 AAAATC-AAATCCA
1 AAAATCAAAATCCA
**
45667768 AAAA-CTTAATCC-
1 AAAATCAAAATCCA
45667780 AAAATCAAAAGTCCA
1 AAAATCAAAA-TCCA
* **
45667795 AAAAACTTAATCC-
1 AAAATCAAAATCCA
45667808 AAAATCAAAAGTCCA
1 AAAATCAAAA-TCCA
45667823 AAAA
1 AAAA
45667827 ACTTAATTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
12 5 0.11
13 19 0.43
14 9 0.20
15 11 0.25
ACGTcount: A:0.60, C:0.21, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAATCAAAATCCA
Found at i:45667796 original size:14 final size:14
Alignment explanation
Indices: 45667777--45667825 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
45667767 AAAAACTTAA
45667777 TCCAAAATCAAAAG
1 TCCAAAATCAAAAG
* **
45667791 TCCAAAAAACTTAA-
1 TCC-AAAATCAAAAG
45667805 TCCAAAATCAAAAG
1 TCCAAAATCAAAAG
45667819 TCCAAAA
1 TCCAAAA
45667826 AACTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 7 0.26
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.16
Consensus pattern (14 bp):
TCCAAAATCAAAAG
Found at i:45667840 original size:28 final size:28
Alignment explanation
Indices: 45667753--45667833 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
45667743 AAACCCAAAA
45667753 CCAAAATC-AAA-TCC-AAAAACTTAAT
1 CCAAAATCAAAAGTCCAAAAAACTTAAT
45667778 CCAAAATCAAAAGTCCAAAAAACTTAAT
1 CCAAAATCAAAAGTCCAAAAAACTTAAT
45667806 CCAAAATCAAAAGTCCAAAAAACTTAAT
1 CCAAAATCAAAAGTCCAAAAAACTTAAT
45667834 TAAAAATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 8 0.15
26 3 0.06
27 3 0.06
28 39 0.74
ACGTcount: A:0.57, C:0.22, G:0.02, T:0.19
Consensus pattern (28 bp):
CCAAAATCAAAAGTCCAAAAAACTTAAT
Found at i:45668928 original size:14 final size:15
Alignment explanation
Indices: 45668897--45668925 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45668887 AAGGTTCATA
45668897 AAAGACATATTTTTT
1 AAAGACATATTTTTT
45668912 AAAGACATATTTTT
1 AAAGACATATTTTT
45668926 AAAAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
AAAGACATATTTTTT
Found at i:45670691 original size:34 final size:35
Alignment explanation
Indices: 45670647--45670722 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 35
45670637 TCGGATAATA
*
45670647 TCATATTTTCATAA-ACATATATCAAATCAGAATG
1 TCATATTTTCATAACACATATATCAAACCAGAATG
* * *
45670681 TCATGTTTTCATAAGCACATATATTATACCAGAATG
1 TCATATTTTCATAA-CACATATATCAAACCAGAATG
45670717 TCATAT
1 TCATAT
45670723 CAGACCAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 13 0.37
36 22 0.63
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (35 bp):
TCATATTTTCATAACACATATATCAAACCAGAATG
Found at i:45670990 original size:18 final size:18
Alignment explanation
Indices: 45670967--45671002 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45670957 ATGCATGTGA
45670967 TATGACAAATAGAAATAT
1 TATGACAAATAGAAATAT
*
45670985 TATGACATATAGAAATAT
1 TATGACAAATAGAAATAT
45671003 AATCAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
TATGACAAATAGAAATAT
Found at i:45672992 original size:2 final size:2
Alignment explanation
Indices: 45672985--45673028 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
45672975 AAACGTTTTA
* *
45672985 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT -T AT TT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45673025 AT AT
1 AT AT
45673029 TAATATGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:45674264 original size:29 final size:29
Alignment explanation
Indices: 45674192--45674504 Score: 259
Period size: 29 Copynumber: 10.8 Consensus size: 29
45674182 TTTGACCCTT
* * * *
45674192 AAACTTTTCCAAAATTACATTTTAACCCTT
1 AAACTTCTCAAAAATTACATTTTTACCC-C
* * * *
45674222 AAACTTTTCTAAAATTACATTTTGACCTC
1 AAACTTCTCAAAAATTACATTTTTACCCC
*
45674251 AAACTTCTCAAAAATCACATTTTTACCCCC
1 AAACTTCTCAAAAATTACATTTTTA-CCCC
* *
45674281 GAACTTCTCAAAAATTACA-TTTTGCCCC
1 AAACTTCTCAAAAATTACATTTTTACCCC
*
45674309 TAAACTTC-CAAAAATCT-CATATTTACCCTC
1 -AAACTTCTCAAAAAT-TACATTTTTACCC-C
* *
45674339 GAACTTCT-AAAAATCT-CATTTTTACCTC
1 AAACTTCTCAAAAAT-TACATTTTTACCCC
* *
45674367 AAATTTCTCAAAAATTACATTTTCACCCC
1 AAACTTCTCAAAAATTACATTTTTACCCC
**
45674396 AAACTT-TTGAAAATTACATTTTTACCCCC
1 AAACTTCTCAAAAATTACATTTTTA-CCCC
*
45674425 AAACTTC-C-AAAATCACATTTTTACCCC
1 AAACTTCTCAAAAATTACATTTTTACCCC
* *
45674452 TAAACCTTC-CCAAAATTATATTTTTACCCC
1 -AAA-CTTCTCAAAAATTACATTTTTACCCC
* *
45674482 TAAACTT-TCCAAAAGTACATTTT
1 -AAACTTCTCAAAAATTACATTTT
45674505 AACCTCGACC
Statistics
Matches: 237, Mismatches: 32, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
27 4 0.02
28 53 0.22
29 113 0.48
30 67 0.28
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
AAACTTCTCAAAAATTACATTTTTACCCC
Found at i:45674400 original size:86 final size:86
Alignment explanation
Indices: 45674167--45674495 Score: 283
Period size: 86 Copynumber: 3.8 Consensus size: 86
45674157 TCTCTGAACT
* * * * * * * * * *
45674167 TTCTAGAAATCATATTTTGACCCTTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCT
1 TTCTAAAAATCACATTTTTACCC-CAAACTTCTCAAAAATTACATTTTCACCC-CAAAC-TTCCA
45674232 AAAATTACAT-TTTGA-CCTCAAAC
63 AAAATTACATATTT-ACCCTCAAAC
* *
45674255 TTCTCAAAAATCACATTTTTACCCCCGAACTTCTCAAAAATTACATTTTGC-CCCTAAACTTCCA
1 TTCT-AAAAATCACATTTTTA-CCCCAAACTTCTCAAAAATTACATTTT-CACCCCAAACTTCCA
*
45674319 AAAATCT-CATATTTACCCTCGAAC
63 AAAAT-TACATATTTACCCTCAAAC
* * * ***
45674343 TTCTAAAAATCTCATTTTTACCTCAAATTTCTCAAAAATTACATTTTCACCCCAAACTTTTGAAA
1 TTCTAAAAATCACATTTTTACCCCAAACTTCTCAAAAATTACATTTTCACCCCAAACTTCCAAAA
* *
45674408 ATTACATTTTTACCCCCAAAC
66 ATTACATATTTACCCTCAAAC
* * * *
45674429 TTC-CAAAATCACATTTTTACCCCTAAACCTTC-CCAAAATTATATTTTTACCCCTAAACTTTCC
1 TTCTAAAAATCACATTTTTACCCC-AAA-CTTCTCAAAAATTACATTTTCACCCC-AAAC-TTCC
45674492 AAAA
62 AAAA
45674496 GTACATTTTA
Statistics
Matches: 197, Mismatches: 32, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
85 19 0.10
86 76 0.39
87 34 0.17
88 29 0.15
89 36 0.18
90 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (86 bp):
TTCTAAAAATCACATTTTTACCCCAAACTTCTCAAAAATTACATTTTCACCCCAAACTTCCAAAA
ATTACATATTTACCCTCAAAC
Found at i:45675465 original size:3 final size:3
Alignment explanation
Indices: 45675457--45675497 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
45675447 CGTAACGTTG
45675457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45675498 ATTCGAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45678492 original size:27 final size:27
Alignment explanation
Indices: 45678435--45678509 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
45678425 AAATTGTGTT
* *
45678435 TTTTTTTTAATTTTTAAGGGACCAAAA
1 TTTTTTTTAACTTTTAAAGGACCAAAA
* * *
45678462 TTTTTTTTAACTTTTAAAGGTCTAAAC
1 TTTTTTTTAACTTTTAAAGGACCAAAA
*
45678489 TTTTTTTACCAACTTTTAAAG
1 TTTTTTT--TAACTTTTAAAG
45678510 AATCTAAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 29 0.73
29 11 0.28
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (27 bp):
TTTTTTTTAACTTTTAAAGGACCAAAA
Found at i:45679301 original size:17 final size:19
Alignment explanation
Indices: 45679274--45679314 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
45679264 GAAAACTACT
45679274 AAAATATTAT-AAATGAAA
1 AAAATATTATAAAATGAAA
*
45679292 AAAATA-TATAAAATGCAA
1 AAAATATTATAAAATGAAA
45679310 AAAAT
1 AAAAT
45679315 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAATATTATAAAATGAAA
Done.