Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 208 of 322
Found at i:68374081 original size:27 final size:27
Alignment explanation
Indices: 68374050--68374227 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68374040 TAAATTGTAC
68374050 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68374077 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68374103 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68374131 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68374159 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68374186 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68374213 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68374228 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68374164 original size:82 final size:81
Alignment explanation
Indices: 68374051--68374206 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68374041 AAATTGTACA
* *
68374051 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68374115 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68374132 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68374197 TGCGAGTTGA
65 TGCGAATTGA
68374207 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68374218 original size:82 final size:81
Alignment explanation
Indices: 68374047--68374227 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68374037 GATTAAATTG
* *
68374047 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68374112 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68374128 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68374192 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68374210 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68374228 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68390795 original size:45 final size:45
Alignment explanation
Indices: 68390731--68390817 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
68390721 TATGTGCTCT
*
68390731 GAACTCATTGATTTGTGGTCTGAGTTCATGATATACGTGACATTC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATACGTGACATTC
* *
68390776 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATACGTGACA
68390818 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTGAGTTCATGATATACGTGACATTC
Found at i:68395242 original size:43 final size:43
Alignment explanation
Indices: 68395188--68395302 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
68395178 ATATCGTGCA
* * *
68395188 ATGCCAATGTCCCAGACTTGGTCTTACAT-GTAATCACATATCG
1 ATGCCACTGTCCCAGACTTGGTCTTAC-TCATAAACACATATCG
* *
68395231 ATGCCACTGTCCCAGA-TAGGGCTTACTCATAAACACATATCG
1 ATGCCACTGTCCCAGACTTGGTCTTACTCATAAACACATATCG
*
68395273 ATGCCAAC-GTCCCAGACGTGGTCTTACTCA
1 ATGCC-ACTGTCCCAGACTTGGTCTTACTCA
68395303 CACACATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 33 0.54
43 27 0.44
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACTTGGTCTTACTCATAAACACATATCG
Found at i:68395314 original size:43 final size:42
Alignment explanation
Indices: 68395222--68395314 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
68395212 TACATGTAAT
*
68395222 CACATATCGATGCCACTGTCCCAGATAGGGCTTACTCATAAA
1 CACATATCGATGCCACTGTCCCAGATAGGGCTTACTCACAAA
* *
68395264 CACATATCGATGCCAAC-GTCCCAGACGT-GGTCTTACTCACACA
1 CACATATCGATGCC-ACTGTCCCAGA--TAGGGCTTACTCACAAA
*
68395307 CATATATC
1 CACATATC
68395315 AGAATCACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 22 0.50
43 21 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (42 bp):
CACATATCGATGCCACTGTCCCAGATAGGGCTTACTCACAAA
Found at i:68400689 original size:15 final size:15
Alignment explanation
Indices: 68400671--68400703 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
68400661 TATGTAATAG
68400671 ATTAACATGTTTTGT
1 ATTAACATGTTTTGT
68400686 ATTAACATGTTTTGT
1 ATTAACATGTTTTGT
68400701 ATT
1 ATT
68400704 GGAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (15 bp):
ATTAACATGTTTTGT
Found at i:68401317 original size:45 final size:45
Alignment explanation
Indices: 68401255--68401391 Score: 195
Period size: 45 Copynumber: 3.0 Consensus size: 45
68401245 TAGGATTCTG
* **
68401255 ATATGTGTTTTTC-TGTAAGACGACGTCTGGGACATTGGCATCGAT
1 ATATGTG-TTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * *
68401300 ATATGTGTTTTCGTGTAAGACCACATCTAGGATGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
*
68401345 ATATGTGTTTTCGTGTAAGACCATGTCTGGGATGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
68401390 AT
1 AT
68401392 GCGGTTACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 5 0.06
45 76 0.94
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
Found at i:68402903 original size:49 final size:51
Alignment explanation
Indices: 68402826--68403077 Score: 188
Period size: 53 Copynumber: 4.8 Consensus size: 51
68402816 GCGGGTACCC
* * * **
68402826 TACCATTTCCATGACTTGTCATGCTCTTATGTGGTATCCTT-TTA-AAACT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTATAAACT
* *
68402875 TACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTATAAACT
* * * * *
68402928 CACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCC-TT--CTTATA--AACT
* * * * *
68402983 TATCAATT-CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCT
1 TA-CCATTGCCATGACTTGACATGGTCTTACATGGTATCCTT--CTTATAAA-CT
* * * *
68403037 TACAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTT
68403078 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
49 35 0.21
52 5 0.03
53 51 0.31
54 33 0.20
55 37 0.22
56 5 0.03
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (51 bp):
TACCATTGCCATGACTTGACATGGTCTTACATGGTATCCTTCTTATAAACT
Found at i:68402952 original size:53 final size:54
Alignment explanation
Indices: 68402870--68403077 Score: 235
Period size: 53 Copynumber: 3.9 Consensus size: 54
68402860 TATCCTTTTA
* *
68402870 AAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * *
68402924 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G
* * * * * *
68402978 TAACTTATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* *
68403031 AAACCTTA-CAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
68403078 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 50 0.38
54 36 0.28
55 40 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:68403449 original size:30 final size:30
Alignment explanation
Indices: 68403415--68403473 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
68403405 TCCTTGACCC
68403415 AAACTTTGACAAAATTACA-TTTTTGCCCCT
1 AAACTTTGACAAAATTACACTTTTT-CCCCT
* * *
68403445 AAACTTTTACATATTTACACTTTTTCCCC
1 AAACTTTGACAAAATTACACTTTTTCCCC
68403474 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTTCCCCT
Found at i:68403811 original size:18 final size:18
Alignment explanation
Indices: 68403784--68403824 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
68403774 CGGGACTCCG
*
68403784 AAAACGTAAAGAACATTA
1 AAAACATAAAGAACATTA
68403802 AAAACATAAAGAACATTA
1 AAAACATAAAGAACATTA
68403820 AAAAC
1 AAAAC
68403825 GGGGCTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.66, C:0.12, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAACATAAAGAACATTA
Found at i:68403821 original size:10 final size:10
Alignment explanation
Indices: 68403790--68403821 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
68403780 TCCGAAAACG
68403790 TAAAGAACAT
1 TAAAGAACAT
68403800 TAAA-AACA-
1 TAAAGAACAT
68403808 TAAAGAACAT
1 TAAAGAACAT
68403818 TAAA
1 TAAA
68403822 AACGGGGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.20
9 8 0.40
10 8 0.40
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19
Consensus pattern (10 bp):
TAAAGAACAT
Found at i:68406215 original size:26 final size:26
Alignment explanation
Indices: 68406185--68406237 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
68406175 TTCTAGAGAG
68406185 TATGATACCGAGATATACCTATTAGA
1 TATGATACCGAGATATACCTATTAGA
*
68406211 TATGATACTGAGATATACCTATTAGA
1 TATGATACCGAGATATACCTATTAGA
68406237 T
1 T
68406238 TTGTTCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (26 bp):
TATGATACCGAGATATACCTATTAGA
Found at i:68415174 original size:34 final size:33
Alignment explanation
Indices: 68415136--68415213 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
68415126 TCAGAGGCAA
*
68415136 TATCAATGTGAGCCTTAGCCC-ATTACAGTAACAG
1 TATCAATATGAGCCTTAGCCCAATT-CAGT-ACAG
* *
68415170 TATCAGTATGGGCCTTAGCCCAATTCAGTACAG
1 TATCAATATGAGCCTTAGCCCAATTCAGTACAG
68415203 TATCAGATATG
1 TATCA-ATATG
68415214 CAAAAAGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 9 0.24
34 26 0.68
35 3 0.08
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (33 bp):
TATCAATATGAGCCTTAGCCCAATTCAGTACAG
Found at i:68415208 original size:33 final size:35
Alignment explanation
Indices: 68415147--68415213 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
68415137 ATCAATGTGA
68415147 GCCTTAGCCCATTACAGTAACAGTATCAG-TATGG
1 GCCTTAGCCCATTACAGTAACAGTATCAGATATGG
68415181 GCCTTAGCCCAATT-CAGT-ACAGTATCAGATATG
1 GCCTTAGCCC-ATTACAGTAACAGTATCAGATATG
68415214 CAAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 10 0.32
34 18 0.58
35 3 0.10
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (35 bp):
GCCTTAGCCCATTACAGTAACAGTATCAGATATGG
Found at i:68420803 original size:40 final size:39
Alignment explanation
Indices: 68420705--68420887 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
68420695 TCCTCGTTCA
* * * *
68420705 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
68420744 AATGCCTTCGGGACATAACCCGGATTTA-TCAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGT-AACTCGCAC
*
68420783 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * * *
68420823 GAATGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
68420864 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
68420888 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 37 0.29
40 79 0.63
41 9 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:68420874 original size:80 final size:78
Alignment explanation
Indices: 68420703--68420887 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 78
68420693 GCTCCTCGTT
* * *
68420703 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* *
68420768 TTTATCAACTCGCA
65 TATATCAACTAGCA
* * * * *
68420782 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGATCTTAATCCG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGA-CATAACCCG
68420846 GATATATTC-ACTTAGCA
63 GATATA-TCAAC-TAGCA
68420863 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
68420888 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
79 35 0.39
80 47 0.53
81 7 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
ATATCAACTAGCA
Found at i:68421615 original size:104 final size:104
Alignment explanation
Indices: 68421497--68421696 Score: 400
Period size: 104 Copynumber: 1.9 Consensus size: 104
68421487 GTGCTCACAC
68421497 AAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTC
1 AAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTC
68421562 ATATTTTGCATGCAATGGCATTAACACAACCACACAAAA
66 ATATTTTGCATGCAATGGCATTAACACAACCACACAAAA
68421601 AAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTC
1 AAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTC
68421666 ATATTTTGCATGCAATGGCATTAACACAACC
66 ATATTTTGCATGCAATGGCATTAACACAACC
68421697 TCCACCTAGG
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (104 bp):
AAAAATGCTAAAAAGGAGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTC
ATATTTTGCATGCAATGGCATTAACACAACCACACAAAA
Found at i:68428098 original size:40 final size:39
Alignment explanation
Indices: 68428000--68428222 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
68427990 TCCTCGTTCA
* * * * *
68428000 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
68428039 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
68428078 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
68428118 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
68428158 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
68428199 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
68428223 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:68428222 original size:120 final size:119
Alignment explanation
Indices: 68428000--68428222 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
68427990 TCCTCGTTCA
* * * *
68428000 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
68428065 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
68428119 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
68428183 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
68428223 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:68431190 original size:53 final size:53
Alignment explanation
Indices: 68431013--68431215 Score: 176
Period size: 53 Copynumber: 3.8 Consensus size: 53
68431003 TTAGGGTTTC
* * * * * *
68431013 AGGATACCAAGCAAGACCATGCCAAGGCATGGCATTGGT-ATGTTCCACAAGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATGATGA-GTT-CATAAGGCA
* * * * * **
68431067 AGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACT-ATAAGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATGATGAGTTCATAAGGCA
* * * * *
68431119 AAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTCATAAGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATGATGAGTTCATAAGGCA
* * * *
68431172 AGGATACCACGTAGGACCATGTCAAAACATGGCAATGATGAGTT
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATGATGAGTT
68431216 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
52 39 0.34
53 43 0.37
54 33 0.28
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (53 bp):
AGGATACCATGTAAGACCATGCCAAGACATGGCAATGATGAGTTCATAAGGCA
Found at i:68444131 original size:28 final size:28
Alignment explanation
Indices: 68444099--68444161 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
68444089 GTGCATGCAA
* *
68444099 TAACAGTCTGGACCTTAGCCCTATATAG
1 TAACAGTCTGGACCTAAGCCCAATATAG
* *
68444127 TAACAGTGTGGGCCTAAGCCCAATATAG
1 TAACAGTCTGGACCTAAGCCCAATATAG
68444155 TAACAGT
1 TAACAGT
68444162 ACAGTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (28 bp):
TAACAGTCTGGACCTAAGCCCAATATAG
Found at i:68444224 original size:21 final size:22
Alignment explanation
Indices: 68444185--68444230 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
68444175 ATTATGCATC
*
68444185 CCACCCAAATCCAATCAACACA
1 CCACCCAAATCCAACCAACACA
*
68444207 CCACCCATA-CCAACCAACACA
1 CCACCCAAATCCAACCAACACA
68444228 CCA
1 CCA
68444231 TGTGGGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.43, C:0.50, G:0.00, T:0.07
Consensus pattern (22 bp):
CCACCCAAATCCAACCAACACA
Found at i:68444364 original size:27 final size:25
Alignment explanation
Indices: 68444318--68444403 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 25
68444308 GCTGTCAGAA
*
68444318 ACAGTAAGTGTGACAAAGCCACCAGT
1 ACAGTAA-TGTGACATAGCCACCAGT
*
68444344 ATCAGTAATTGTGGCATAGCCACCAGT
1 A-CAGTAA-TGTGACATAGCCACCAGT
* *
68444371 AACAGTGAATGTGACATAGTCACCAAT
1 -ACAGT-AATGTGACATAGCCACCAGT
68444398 ACAGTA
1 ACAGTA
68444404 CTTCCTCCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 41 0.80
28 3 0.06
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
ACAGTAATGTGACATAGCCACCAGT
Found at i:68444585 original size:27 final size:26
Alignment explanation
Indices: 68444555--68444752 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 26
68444545 TTTTTCGCAT
* *
68444555 AGGGATATCACGGTTATTTTACCCTAC
1 AGGG-TATTACGGTCATTTTACCCTAC
*
68444582 AGGGCCATTACGGTCATTTTACCCTAC
1 AGGG-TATTACGGTCATTTTACCCTAC
*
68444609 AGGGATATTACGCTCATTTTACCCTAC
1 AGGG-TATTACGGTCATTTTACCCTAC
* *
68444636 AAGGGTATTACGATCATTTTATCCTAC
1 -AGGGTATTACGGTCATTTTACCCTAC
68444663 AGGGGTATTACGGTCATTTTACCCTAC
1 A-GGGTATTACGGTCATTTTACCCTAC
*
68444690 AGAGGTATTACGATCATTTTACCCTAC
1 AG-GGTATTACGGTCATTTTACCCTAC
68444717 AGGGTATTACGGTCATTTTACCCTAC
1 AGGGTATTACGGTCATTTTACCCTAC
68444743 AGGGTCATTA
1 AGGGT-ATTA
68444753 TAGTTATTTT
Statistics
Matches: 154, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
26 30 0.19
27 120 0.78
28 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (26 bp):
AGGGTATTACGGTCATTTTACCCTAC
Found at i:68462268 original size:46 final size:46
Alignment explanation
Indices: 68462216--68462391 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
68462206 TGGTTGAGCA
68462216 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
68462262 TTCAAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
68462307 CATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
68462355 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68462392 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68462372 original size:93 final size:93
Alignment explanation
Indices: 68462213--68462384 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
68462203 GGATGGTTGA
* **
68462213 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCAAACTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
68462278 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
68462306 GCATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
68462371 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
68462385 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68470723 original size:38 final size:38
Alignment explanation
Indices: 68470636--68470762 Score: 168
Period size: 37 Copynumber: 3.4 Consensus size: 38
68470626 GCGTGGTATT
* *
68470636 TGGAACATATCCGGACTTGAGGTCTGCAGGC-ACGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* *
68470673 TGGAACATATCCGGACTTGAGGTCCGCAAGCTATGTAC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* *
68470711 TGGAATATATCCGGACTTGAGGT-CGTAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
68470748 TGGAAATATATCCGG
1 TGG-AACATATCCGG
68470763 GCTTAAAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
37 43 0.54
38 37 0.46
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (38 bp):
TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:68478318 original size:38 final size:38
Alignment explanation
Indices: 68478267--68478395 Score: 195
Period size: 38 Copynumber: 3.4 Consensus size: 38
68478257 GCGTGGTATT
*
68478267 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
68478305 TGGAACATATCCGGACTTTAGGTCCGCAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* * *
68478343 TGGAATATATCTGGACTTGAGGTCTGCAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
68478381 TGGAAATATATCCGG
1 TGG-AACATATCCGG
68478396 GCCTAAAGTC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 73 0.88
39 10 0.12
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:68483620 original size:40 final size:39
Alignment explanation
Indices: 68483575--68483679 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 39
68483565 ATTTATCCAT
* *
68483575 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGATACTAA
* * *
68483615 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
*
68483654 ATCTGGGCTAAGTTCCGAAGAGCATT
1 ATCCGGGCTAAG-TCCGAAG-GCATT
68483680 CATGCTAGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.62
40 16 0.29
41 5 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
Found at i:68483637 original size:39 final size:40
Alignment explanation
Indices: 68483575--68483719 Score: 127
Period size: 40 Copynumber: 3.6 Consensus size: 40
68483565 ATTTATCCAT
* *
68483575 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGATACTAA
* *
68483615 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAA
* * ** * **
68483654 ATCTGGGCTAAGTTCCGAAGAGCATTCATGCTAG-TGA-TGT
1 ATCCGGGCTAAGTCCCGAAG-GCATTGGTGCGAGAT-ACTAA
68483694 ATCCGGGCTAAGTCCCGAAGAGCATT
1 ATCCGGGCTAAGTCCCGAAG-GCATT
68483720 CATGCTAGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 34 0.39
40 42 0.48
41 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAA
Found at i:68483702 original size:40 final size:40
Alignment explanation
Indices: 68483658--68483810 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
68483648 TACTAAATCT
*
68483658 GGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
68483698 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* * * * *
68483738 GGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
* * *
68483778 GGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
68483811 AGTGTATTCG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
Found at i:68487940 original size:47 final size:47
Alignment explanation
Indices: 68487388--68487911 Score: 967
Period size: 47 Copynumber: 11.1 Consensus size: 47
68487378 GAAATGATAG
* *
68487388 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
*
68487435 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* *
68487482 TAAGGCCTAATAGCTGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487529 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487576 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487623 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487670 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487717 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
68487764 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
*
68487811 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
* *
68487858 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
*
68487905 CAAGGCC
1 TAAGGCC
68487912 GAGTGGCCAA
Statistics
Matches: 466, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 466 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:68488130 original size:37 final size:37
Alignment explanation
Indices: 68488074--68488152 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
68488064 CCGAGCTCTA
* * *
68488074 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
68488111 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
68488148 AAGAC
1 AAGAC
68488153 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:68489023 original size:48 final size:48
Alignment explanation
Indices: 68488947--68489041 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
68488937 ATAAATTATT
68488947 TAAACTAACCTTGATGAATCTATTTTCATAGAAAAGTAACGAAATGAG
1 TAAACTAACCTTGATGAATCTATTTTCATAGAAAAGTAACGAAATGAG
* *
68488995 TAAATTAACCTTGATGAATCTATTTTCATAGAAAAGTAACTAAATGA
1 TAAACTAACCTTGATGAATCTATTTTCATAGAAAAGTAACGAAATGA
68489042 TCATATGGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (48 bp):
TAAACTAACCTTGATGAATCTATTTTCATAGAAAAGTAACGAAATGAG
Found at i:68490154 original size:43 final size:43
Alignment explanation
Indices: 68490054--68490156 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
68490044 TTGGTTTTCA
* *
68490054 GCACTAAGTGTTCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
68490097 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
68490140 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
68490157 TTAAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:68490173 original size:29 final size:29
Alignment explanation
Indices: 68490138--68490211 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
68490128 GTTGTGAGAT
* *
68490138 TGGCACTAAGTGTGCGGGCTTAAAATGCA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
* *
68490167 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
68490196 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
68490212 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAAATACA
Found at i:68490572 original size:40 final size:40
Alignment explanation
Indices: 68490524--68490719 Score: 248
Period size: 40 Copynumber: 4.9 Consensus size: 40
68490514 TTGAATGATG
*
68490524 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
68490564 TCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
68490604 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * ** * * * *
68490644 TCTGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
68490684 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
68490720 CGTGTATTCG
Statistics
Matches: 135, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:68500034 original size:30 final size:30
Alignment explanation
Indices: 68499998--68500059 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
68499988 AGTGTGCGAG
*
68499998 TATAAATGATTACGGATGTGAATCTTGCAC
1 TATAAATGATTACGGATCTGAATCTTGCAC
68500028 TATAAATGATTACGGATCTGAATCTTGCAC
1 TATAAATGATTACGGATCTGAATCTTGCAC
68500058 TA
1 TA
68500060 AGTATGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (30 bp):
TATAAATGATTACGGATCTGAATCTTGCAC
Found at i:68513435 original size:39 final size:39
Alignment explanation
Indices: 68513356--68513448 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
68513346 ACCAATTACC
*
68513356 AGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAATACT
1 AGCACGAAGCCTGCGGGAATTTAAACCCGGCATAATACT
* * * * *
68513394 AGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATATTTCT
1 AGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAATACT
*
68513433 AGCACGTAGCCTGCGG
1 AGCACGAAGCCTGCGG
68513449 ACCTTAAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
38 10 0.22
39 35 0.78
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGAATTTAAACCCGGCATAATACT
Found at i:68513514 original size:38 final size:39
Alignment explanation
Indices: 68513419--68513543 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
68513409 GGACTTTAGC
* * * *
68513419 CCGGACATATTTCTAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
*
68513458 CCGAATATAATTCTAGCACATAGCCTGCGGACCCTAA-T
1 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
*
68513496 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
68513535 CCGGATATA
1 CCGGATATA
68513544 CATCACTGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.46
39 42 0.54
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
Found at i:68528618 original size:40 final size:40
Alignment explanation
Indices: 68528473--68528618 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
68528463 GCTACTCATT
* *
68528473 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
68528513 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
68528553 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCA
68528594 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68528619 CATCATTCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 75 0.83
41 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:68536535 original size:40 final size:40
Alignment explanation
Indices: 68536491--68536756 Score: 353
Period size: 40 Copynumber: 6.7 Consensus size: 40
68536481 GCTACTCATT
*
68536491 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
68536531 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
68536571 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
68536611 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
68536651 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
68536691 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
68536732 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68536757 CATCATTCAA
Statistics
Matches: 205, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
39 5 0.02
40 184 0.90
41 16 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:68540040 original size:58 final size:57
Alignment explanation
Indices: 68539950--68540096 Score: 156
Period size: 57 Copynumber: 2.6 Consensus size: 57
68539940 CATTAACCTT
* * *
68539950 GTTATAGAAAGGATTTAGCCCGGA-TGGATAATCCTGATAC-AACACCTCTTGAGCATAC
1 GTTATATAAAGGATTTAGCCTGGACTGG-TAATCCTAAT-CGAACACCTC-TGAGCATAC
* * * *
68540008 GTTATGAT-TAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCCCCTCTGAGCATAT
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAACACCTCTGAGCATAC
* *
68540065 GTTATATAAAGGACTTAGTCTGGACTGGTAAT
1 GTTATATAAAGGATTTAGCCTGGACTGGTAAT
68540097 TCTGTTATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
56 2 0.03
57 35 0.47
58 34 0.45
59 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (57 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAACACCTCTGAGCATAC
Found at i:68542180 original size:29 final size:29
Alignment explanation
Indices: 68542120--68542193 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
68542110 TAATCAACCG
* *
68542120 CGCACACTTAGTTCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
68542149 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
*
68542178 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
68542194 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:68551610 original size:27 final size:27
Alignment explanation
Indices: 68551580--68551757 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
68551570 ATATTGAGCC
* *
68551580 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
68551607 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
68551634 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
68551662 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
68551689 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
68551716 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
68551743 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68551758 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68551692 original size:55 final size:54
Alignment explanation
Indices: 68551580--68551757 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
68551570 ATATTGAGCC
* * * * *
68551580 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
68551634 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
68551689 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
68551743 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68551758 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:68556044 original size:34 final size:34
Alignment explanation
Indices: 68556006--68556100 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 34
68555996 GTGGTGTAGG
68556006 GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
1 GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
*
68556040 GAAGA--GG-AGAAGG--T-AG--AT-GNG----
1 GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
68556061 GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
1 GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
68556095 GAAGAG
1 GAAGAG
68556101 GAGAAGGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 26
0.62 0.03 0.35
Matches are distributed among these distances:
21 5 0.11
23 2 0.04
24 6 0.13
25 2 0.04
26 3 0.07
27 2 0.04
28 2 0.04
29 3 0.07
30 2 0.04
31 6 0.13
32 2 0.04
34 11 0.24
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.15
Consensus pattern (34 bp):
GAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAA
Found at i:68556052 original size:31 final size:31
Alignment explanation
Indices: 68556016--68556107 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
68556006 GAAGAGTGGT
68556016 AGAAGGATTCAGCTATGGAGAAAAGAAGAGG
1 AGAAGGATTCAGCTATGGAGAAAAGAAGAGG
*
68556047 AGAAGG--T-AG--ATGNG-G--AAG-AGTGG
1 AGAAGGATTCAGCTATG-GAGAAAAGAAGAGG
68556070 TAGAAGGATTCAGCTATGGAGAAAAGAAGAGG
1 -AGAAGGATTCAGCTATGGAGAAAAGAAGAGG
68556102 AGAAGG
1 AGAAGG
68556108 TAGATGGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 22
0.67 0.03 0.31
Matches are distributed among these distances:
23 4 0.08
24 9 0.19
26 5 0.10
27 3 0.06
28 3 0.06
29 5 0.10
31 15 0.31
32 4 0.08
ACGTcount: A:0.42, C:0.04, G:0.39, T:0.13
Consensus pattern (31 bp):
AGAAGGATTCAGCTATGGAGAAAAGAAGAGG
Found at i:68556071 original size:55 final size:54
Alignment explanation
Indices: 68556004--68556114 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 54
68555994 AAGTGGTGTA
68556004 GGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGAGGAGAAGGTAGAT
1 GGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGAGGAGAAGGTAGAT
68556058 GNGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGAGGAGAAGGTAGAT
1 G-GGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGAGGAGAAGGTAGAT
68556113 GG
1 GG
68556115 AGAGAAAAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
54 2 0.04
55 54 0.96
ACGTcount: A:0.40, C:0.04, G:0.41, T:0.14
Consensus pattern (54 bp):
GGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGAGGAGAAGGTAGAT
Found at i:68556115 original size:26 final size:26
Alignment explanation
Indices: 68556030--68556125 Score: 76
Period size: 26 Copynumber: 3.6 Consensus size: 26
68556020 GGATTCAGCT
68556030 ATGGAGAAAAGAAGAGGAGAAGGTAG
1 ATGGAGAAAAGAAGAGGAGAAGGTAG
*
68556056 ATGNG-G--AAG-AGTGGTAGAAGGATTCAG
1 ATG-GAGAAAAGAAGAGG-AGAAGG--T-AG
68556083 CTATGGAGAAAAGAAGAGGAGAAGGTAG
1 --ATGGAGAAAAGAAGAGGAGAAGGTAG
68556111 ATGGAGAGAAA-AAGA
1 ATGGAGA-AAAGAAGA
68556126 AAAGAAAGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 24
0.68 0.02 0.29
Matches are distributed among these distances:
23 4 0.07
24 9 0.16
26 16 0.29
27 6 0.11
28 3 0.05
29 5 0.09
31 9 0.16
32 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.40, T:0.11
Consensus pattern (26 bp):
ATGGAGAAAAGAAGAGGAGAAGGTAG
Found at i:68558185 original size:44 final size:41
Alignment explanation
Indices: 68558102--68558231 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 41
68558092 TAGGATTTCA
* * * *
68558102 ATTTGTGATTCGTGTAAGACCACGTTTGGGTCGTTGGCATCG
1 ATTTGTGATTCGTGTAAGACCATGTCTGGGAC-ATGGCATCG
*
68558144 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCATTG
1 ATTTGTGA-TT-CGTGTAAGACCATGTCTGGGACAT-GGCATCG
* * * *
68558188 -TATATGAGTTCGTGTAATACCTTGTCTGGGACAGTGGCATCG
1 ATTTGTGA-TTCGTGTAAGACCATGTCTGGGACA-TGGCATCG
68558230 AT
1 AT
68558232 AGTCGATTAC
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
42 35 0.49
43 12 0.17
44 25 0.35
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (41 bp):
ATTTGTGATTCGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:68561382 original size:150 final size:150
Alignment explanation
Indices: 68561111--68561387 Score: 554
Period size: 150 Copynumber: 1.8 Consensus size: 150
68561101 ATCACAAACG
68561111 ACAAATTTAGCCTTTAACTTTACATATTATATCAATTTAATCATAATTTTAAAAAATTAACTCTC
1 ACAAATTTAGCCTTTAACTTTACATATTATATCAATTTAATCATAATTTTAAAAAATTAACTCTC
68561176 AAAGTTTACAAATGGGTCTCTTTTTTGTCCTAATTCTAGTAAATTCAAAGAAATATATAAAATAG
66 AAAGTTTACAAATGGGTCTCTTTTTTGTCCTAATTCTAGTAAATTCAAAGAAATATATAAAATAG
68561241 GTAAGAAAATCGGTATAGTA
131 GTAAGAAAATCGGTATAGTA
68561261 ACAAATTTAGCCTTTAACTTTACATATTATATCAATTTAATCATAATTTTAAAAAATTAACTCTC
1 ACAAATTTAGCCTTTAACTTTACATATTATATCAATTTAATCATAATTTTAAAAAATTAACTCTC
68561326 AAAGTTTACAAATGGGTCTCTTTTTTGTCCTAATTCTAGTAAATTCAAAGAAATATATAAAA
66 AAAGTTTACAAATGGGTCTCTTTTTTGTCCTAATTCTAGTAAATTCAAAGAAATATATAAAA
68561388 ATACATAAAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 127 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (150 bp):
ACAAATTTAGCCTTTAACTTTACATATTATATCAATTTAATCATAATTTTAAAAAATTAACTCTC
AAAGTTTACAAATGGGTCTCTTTTTTGTCCTAATTCTAGTAAATTCAAAGAAATATATAAAATAG
GTAAGAAAATCGGTATAGTA
Found at i:68561417 original size:22 final size:22
Alignment explanation
Indices: 68561383--68561445 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
68561373 AAGAAATATA
* **
68561383 TAAAAATA-CATAAATATTTTT
1 TAAAAATATAATAAATAAATTT
68561404 TAAAAATATAAT-AATAAATTT
1 TAAAAATATAATAAATAAATTT
*
68561425 TAAAAAATATATAAAAATAAA
1 T-AAAAATATA-ATAAATAAA
68561446 AAAAATATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 16 0.47
22 11 0.32
23 1 0.03
24 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAATATAATAAATAAATTT
Found at i:68561419 original size:21 final size:22
Alignment explanation
Indices: 68561400--68561442 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
68561390 ACATAAATAT
*
68561400 TTTTTAAAAATATAATAATAAA
1 TTTTAAAAAATATAATAATAAA
68561422 TTTTAAAAAATAT-ATAA-AAA
1 TTTTAAAAAATATAATAATAAA
68561442 T
1 T
68561443 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAAAATATAATAATAAA
Found at i:68561450 original size:19 final size:20
Alignment explanation
Indices: 68561426--68561463 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68561416 AATAAATTTT
68561426 AAAAAATA-TATAAAAATAA
1 AAAAAATATTATAAAAATAA
*
68561445 AAAAAATATTCTAAAAATA
1 AAAAAATATTATAAAAATA
68561464 TAATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATATTATAAAAATAA
Found at i:68561479 original size:20 final size:19
Alignment explanation
Indices: 68561402--68561479 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 19
68561392 ATAAATATTT
68561402 TTTAAAAATATAATAATAAA
1 TTTAAAAA-ATAATAATAAA
68561422 TTTTAAAAAATATATAA-AAA
1 -TTTAAAAAATA-ATAATAAA
68561442 --TAAAAAA-AAT-AT---
1 TTTAAAAAATAATAATAAA
*
68561454 TCTAAAAATATAATAATAAA
1 TTTAAAAA-ATAATAATAAA
68561474 TTTAAA
1 TTTAAA
68561480 TTTAATATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 21
0.68 0.01 0.31
Matches are distributed among these distances:
14 7 0.15
15 3 0.07
16 4 0.09
17 9 0.20
20 11 0.24
21 12 0.26
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAAAAATAATAATAAA
Found at i:68561487 original size:53 final size:53
Alignment explanation
Indices: 68561376--68561476 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 53
68561366 AAATTCAAAG
* * * *
68561376 AAATATATAAAAATACATAAATATTTTTTAAAAATATAATAATAAATTTTAAA
1 AAATATATAAAAATACAAAAAAATATTCTAAAAATATAATAATAAATTTTAAA
68561429 AAATATATAAAAATA-AAAAAAATATTCTAAAAATATAATAATAAATTT
1 AAATATATAAAAATACAAAAAAATATTCTAAAAATATAATAATAAATTT
68561477 AAATTTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 29 0.66
53 15 0.34
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (53 bp):
AAATATATAAAAATACAAAAAAATATTCTAAAAATATAATAATAAATTTTAAA
Found at i:68563566 original size:23 final size:24
Alignment explanation
Indices: 68563524--68563571 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
68563514 ACATGTAAGA
68563524 AATTAAGTAAATTACCCAAGATTT
1 AATTAAGTAAATTACCCAAGATTT
* *
68563548 AATTAAGTAATTTA-GCAAGATTT
1 AATTAAGTAAATTACCCAAGATTT
68563571 A
1 A
68563572 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.35
Consensus pattern (24 bp):
AATTAAGTAAATTACCCAAGATTT
Found at i:68563680 original size:75 final size:76
Alignment explanation
Indices: 68563586--68563752 Score: 259
Period size: 75 Copynumber: 2.2 Consensus size: 76
68563576 TTTTTAATAT
*
68563586 TTTAAGTAACATTTAAGAAATTAAGT-AATTTTGTCATTATTTTAAGTTACTTAATTT-TTTAAA
1 TTTAAGTAACATTTAAGAAATTAAGTAAATTTT-TCATTATTATAAGTTACTTAATTTCTTTAAA
*
68563649 AGTCCTTTAAT-G
65 A-CCCTTTAATGG
* *
68563661 TTTATGTAACATTTAAGAAATTAAGTAAATTTTTCATTATTATGAGTTACTTAATTTCTTTAAAA
1 TTTAAGTAACATTTAAGAAATTAAGTAAATTTTTCATTATTATAAGTTACTTAATTTCTTTAAAA
68563726 CCCTTTAATGG
66 CCCTTTAATGG
68563737 TTTAAGTAACATTTAA
1 TTTAAGTAACATTTAA
68563753 TGTGGGTTTA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
75 55 0.65
76 29 0.35
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (76 bp):
TTTAAGTAACATTTAAGAAATTAAGTAAATTTTTCATTATTATAAGTTACTTAATTTCTTTAAAA
CCCTTTAATGG
Found at i:68565760 original size:20 final size:21
Alignment explanation
Indices: 68565724--68565763 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
68565714 AATAGGAGAG
68565724 TAAAAAGAGCGAGAAATGGGC
1 TAAAAAGAGCGAGAAATGGGC
68565745 TAAAAA-AG-GAGAAAATGGG
1 TAAAAAGAGCGAG-AAATGGG
68565764 TCAACGTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 9 0.50
21 6 0.33
ACGTcount: A:0.53, C:0.05, G:0.33, T:0.10
Consensus pattern (21 bp):
TAAAAAGAGCGAGAAATGGGC
Found at i:68570024 original size:28 final size:28
Alignment explanation
Indices: 68569973--68570026 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
68569963 GCCTTAGGCT
68569973 GTGCTCATACCACGGACAGCGACACGAC
1 GTGCTCATACCACGGACAGCGACACGAC
* * *
68570001 GTGCTCATACCTCGGGCAGTGACACG
1 GTGCTCATACCACGGACAGCGACACG
68570027 GTTGTGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.28, T:0.15
Consensus pattern (28 bp):
GTGCTCATACCACGGACAGCGACACGAC
Found at i:68583528 original size:60 final size:61
Alignment explanation
Indices: 68583422--68583538 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 61
68583412 GTTAAAATAT
**
68583422 ATTATCTTTTTATTTAATGGTTGAGGTGAGTAATTTAAAAATTGTATAAAAAAATAAGTAC
1 ATTATCTTTTTATTTAAAAGTTGAGGTGAGTAATTTAAAAATTGTATAAAAAAATAAGTAC
* *
68583483 ATTATCTTTTTATTTAAAAGTTG-GATG-GATAATTTAAAAATTGTATGAAAAAATAA
1 ATTATCTTTTTATTTAAAAGTTGAGGTGAG-TAATTTAAAAATTGTATAAAAAAATAA
68583539 ATATTAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 1 0.02
60 29 0.57
61 21 0.41
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (61 bp):
ATTATCTTTTTATTTAAAAGTTGAGGTGAGTAATTTAAAAATTGTATAAAAAAATAAGTAC
Found at i:68599600 original size:19 final size:20
Alignment explanation
Indices: 68599576--68599625 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
68599566 AGTTTAAGCT
68599576 AAGTAAATGAAATAG-AAGA
1 AAGTAAATGAAATAGAAAGA
* * *
68599595 AAGTAAATGGAATGGAAAGT
1 AAGTAAATGAAATAGAAAGA
68599615 AAGTAAATGAA
1 AAGTAAATGAA
68599626 GTGGCTCTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (20 bp):
AAGTAAATGAAATAGAAAGA
Found at i:68601013 original size:27 final size:27
Alignment explanation
Indices: 68600983--68601160 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68600973 ATATTGAGTC
* * * *
68600983 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
68601010 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68601037 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
68601065 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
68601092 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
68601119 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68601146 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68601161 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:68601122 original size:82 final size:81
Alignment explanation
Indices: 68601004--68601159 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68600994 TGCTATATAA
* *
68601004 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
68601069 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
68601086 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68601150 CACTTAGTGC
65 CACTTAGTGC
68601160 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68624603 original size:16 final size:15
Alignment explanation
Indices: 68624582--68624615 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
68624572 AAAAAGAAGG
68624582 AAAAAGAATAATAGAT
1 AAAAAGAATAATA-AT
68624598 AAAAAGAATAATAAT
1 AAAAAGAATAATAAT
68624613 AAA
1 AAA
68624616 TAATTAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAAGAATAATAAT
Found at i:68624701 original size:16 final size:16
Alignment explanation
Indices: 68624679--68624722 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
68624669 GGAGTTTGTT
*
68624679 ATTATTTATTTACCAA
1 ATTATTTATTTACAAA
*
68624695 TTTATTTATTTACAAA
1 ATTATTTATTTACAAA
*
68624711 ATTATTTTTTTA
1 ATTATTTATTTA
68624723 ATGACTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTTATTTACAAA
Found at i:68625633 original size:30 final size:30
Alignment explanation
Indices: 68625597--68625657 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
68625587 ATTTGGATAC
68625597 ATAGTCAACGACTACAAAGATGTACCTATT
1 ATAGTCAACGACTACAAAGATGTACCTATT
* *
68625627 ATAGTCAATGACTACCAAGATGTACCTATT
1 ATAGTCAACGACTACAAAGATGTACCTATT
68625657 A
1 A
68625658 CCATAAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (30 bp):
ATAGTCAACGACTACAAAGATGTACCTATT
Found at i:68627811 original size:24 final size:26
Alignment explanation
Indices: 68627759--68627827 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 26
68627749 AGTTGATGAA
*
68627759 TAGTAAGCTCTATCGAGCTG-GAAGC
1 TAGTAAGCTCTAACGAGCTGAGAAGC
*
68627784 -AGTAAGCTCTAACTAGCTGAG-A-C
1 TAGTAAGCTCTAACGAGCTGAGAAGC
*
68627807 TAGTAAGCTCTTACGAGCTGA
1 TAGTAAGCTCTAACGAGCTGA
68627828 TATATTGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (26 bp):
TAGTAAGCTCTAACGAGCTGAGAAGC
Found at i:68631300 original size:24 final size:25
Alignment explanation
Indices: 68631267--68631315 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
68631257 ACATTATGTA
68631267 TCGACAAAGCTAAAATGCCGAAAAG
1 TCGACAAAGCTAAAATGCCGAAAAG
*
68631292 TCGA-AAAGCTGAAATGCCGAAAAG
1 TCGACAAAGCTAAAATGCCGAAAAG
68631316 CTGAAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.12
Consensus pattern (25 bp):
TCGACAAAGCTAAAATGCCGAAAAG
Found at i:68631305 original size:16 final size:16
Alignment explanation
Indices: 68631286--68631321 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
68631276 CTAAAATGCC
*
68631286 GAAAAGTCGAAAAGCT
1 GAAAAGCCGAAAAGCT
*
68631302 GAAATGCCGAAAAGCT
1 GAAAAGCCGAAAAGCT
68631318 GAAA
1 GAAA
68631322 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.25, T:0.11
Consensus pattern (16 bp):
GAAAAGCCGAAAAGCT
Found at i:68631584 original size:29 final size:28
Alignment explanation
Indices: 68631532--68631644 Score: 136
Period size: 29 Copynumber: 4.0 Consensus size: 28
68631522 GTGAGCATGA
* *
68631532 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
68631560 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
68631589 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
68631618 ATATGAATATGATTGGGCTTAGTGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
68631645 TAGATACAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 24 0.32
29 50 0.68
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:68631614 original size:58 final size:57
Alignment explanation
Indices: 68631545--68631655 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
68631535 TGAATGTGAC
* *
68631545 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
68631603 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAGTGGGCTAGATACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
68631656 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:68637339 original size:104 final size:104
Alignment explanation
Indices: 68637159--68637364 Score: 403
Period size: 104 Copynumber: 2.0 Consensus size: 104
68637149 ACTCATGCGC
68637159 GCTATGGTAGTCCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCCGAAC
1 GCTATGGTAGTCCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCCGAAC
68637224 CCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACGT
66 CCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACGT
*
68637263 GCTATGGTAGTCCTAGAACCGACTAAACCATAGCTCTGATACCAATCAAATGTAACACCCCGAAC
1 GCTATGGTAGTCCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCCGAAC
68637328 CCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAC
66 CCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAC
68637365 TGGCTTTAAC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (104 bp):
GCTATGGTAGTCCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCCGAAC
CCGAAACCGACACCGGAGTCGAACACGAGGTGTTAACGT
Found at i:68638694 original size:27 final size:27
Alignment explanation
Indices: 68638664--68638841 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68638654 ATATTGAGTC
* * * *
68638664 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
68638691 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68638718 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
68638746 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
68638773 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
68638800 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68638827 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68638842 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:68638803 original size:82 final size:81
Alignment explanation
Indices: 68638685--68638840 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68638675 TGCTATATAA
* *
68638685 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
68638750 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
68638767 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68638831 CACTTAGTGC
65 CACTTAGTGC
68638841 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68642715 original size:7 final size:7
Alignment explanation
Indices: 68642697--68642736 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
68642687 TTAGCCTCTC
68642697 CATTTTT
1 CATTTTT
68642704 C-TTTTT
1 CATTTTT
68642710 CATTTTT
1 CATTTTT
68642717 CA-TTTT
1 CATTTTT
68642723 CATTTTT
1 CATTTTT
68642730 CATTTTT
1 CATTTTT
68642737 TTTGACTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:68642715 original size:13 final size:13
Alignment explanation
Indices: 68642697--68642736 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
68642687 TTAGCCTCTC
68642697 CATTTTTCTTTTT
1 CATTTTTCTTTTT
*
68642710 CATTTTTCATTTT
1 CATTTTTCTTTTT
68642723 CATTTTTCATTTTT
1 CATTTTTC-TTTTT
68642737 TTTGACTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:68642720 original size:20 final size:20
Alignment explanation
Indices: 68642700--68642736 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68642690 GCCTCTCCAT
68642700 TTTTC-TTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
68642719 TTTTCATTTTTCATTTTT
1 TTTTCATTTTTCATTTTT
68642737 TTTGACTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:68643696 original size:45 final size:47
Alignment explanation
Indices: 68643647--68643755 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
68643637 TAGATTTCTC
68643647 TTTTTTCATTC-TTCTTTCTTTT-TCTCATTTTCA-TTTTAATTTTGAT
1 TTTTTTCATTCTTTCTTT-TTTTGT-TCATTTTCATTTTTAATTTTGAT
** * *
68643693 TTTTTTC-TTCTTTCTTTTTTTGTTTTTTTTTATTTTTATTTTTGA-
1 TTTTTTCATTCTTTCTTTTTTTGTTCATTTTCATTTTTAATTTTGAT
*
68643738 TTTTTTCATT-TTCCTTTT
1 TTTTTTCATTCTTTCTTTT
68643756 GACTTTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
45 27 0.50
46 27 0.50
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (47 bp):
TTTTTTCATTCTTTCTTTTTTTGTTCATTTTCATTTTTAATTTTGAT
Found at i:68643718 original size:22 final size:23
Alignment explanation
Indices: 68643680--68643744 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
68643670 CTCATTTTCA
* *
68643680 TTTTAATTTTGATTTTTTTCTTCT
1 TTTTATTTTTGA-TTTTTTCTTAT
*
68643704 TTCTT-TTTTTG-TTTTTTTTTAT
1 TT-TTATTTTTGATTTTTTCTTAT
68643726 TTTTATTTTTGATTTTTTC
1 TTTTATTTTTGATTTTTTC
68643745 ATTTTCCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 6 0.18
24 7 0.21
25 2 0.06
ACGTcount: A:0.09, C:0.06, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTATTTTTGATTTTTTCTTAT
Found at i:68647853 original size:27 final size:27
Alignment explanation
Indices: 68647823--68647999 Score: 212
Period size: 27 Copynumber: 6.5 Consensus size: 27
68647813 TATCGAGTCT
* * * *
68647823 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
*
68647850 GCACACTTAGTGCTACATAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
68647877 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
68647905 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
68647932 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
68647959 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
68647986 GCACACTTAGTGCT
1 GCACACTTAGTGCT
68648000 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:68647961 original size:82 final size:81
Alignment explanation
Indices: 68647843--68647998 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
68647833 TGCTATATAA
*
68647843 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
68647908 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
68647925 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68647989 CACTTAGTGC
65 CACTTAGTGC
68647999 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68656862 original size:49 final size:49
Alignment explanation
Indices: 68656809--68656905 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
68656799 GGTAGTACCT
68656809 ATGTAATTATAATTAGTTCATTTTGATGGTTTAGCATGAGGTGATAAGC
1 ATGTAATTATAATTAGTTCATTTTGATGGTTTAGCATGAGGTGATAAGC
*
68656858 ATGTAATTATAATTAGTTCATTTTGATGGTTTGGCATGAGGTGATAAG
1 ATGTAATTATAATTAGTTCATTTTGATGGTTTAGCATGAGGTGATAAG
68656906 TAAAAGTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (49 bp):
ATGTAATTATAATTAGTTCATTTTGATGGTTTAGCATGAGGTGATAAGC
Found at i:68660819 original size:22 final size:22
Alignment explanation
Indices: 68660791--68660833 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
68660781 GGTATTTGGT
68660791 TTTGGTACGAAATGGTAAGGGA
1 TTTGGTACGAAATGGTAAGGGA
68660813 TTTGGTACGAAATGGTAAGGG
1 TTTGGTACGAAATGGTAAGGG
68660834 TTCAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (22 bp):
TTTGGTACGAAATGGTAAGGGA
Found at i:68664411 original size:74 final size:75
Alignment explanation
Indices: 68664285--68664430 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 75
68664275 AACCTCACCA
*
68664285 TTAATCACTCAAAAAGAAAAATCAAATTCTCAATGAGGTCGAATTCAATCTTGTGAGTTCTTTA-
1 TTAATCACTCAAAAAGAAAAATCAAATTCTCAATGAGGTAGAATTCAATCTTGTGAGTTCTTTAG
68664349 TCAGAGTTCCG
66 T-AGAGTTCCG
* * *
68664360 TTAATCACTCGAAAAG-AAAATTAAATTCTCAATGAGGTAGAATTCAGTCTTGTGAGTTCTTTAG
1 TTAATCACTCAAAAAGAAAAATCAAATTCTCAATGAGGTAGAATTCAATCTTGTGAGTTCTTTAG
68664424 TAGAGTT
66 TAGAGTT
68664431 TATATCAACC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
74 50 0.76
75 16 0.24
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (75 bp):
TTAATCACTCAAAAAGAAAAATCAAATTCTCAATGAGGTAGAATTCAATCTTGTGAGTTCTTTAG
TAGAGTTCCG
Found at i:68671859 original size:30 final size:30
Alignment explanation
Indices: 68671825--68671921 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
68671815 AGCTCACTCC
68671825 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
68671855 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
68671885 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
68671915 TAGCTCA
1 TAGCTCA
68671922 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:68685771 original size:10 final size:10
Alignment explanation
Indices: 68685755--68685803 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
68685745 AGCTCGTTTC
*
68685755 CAGCTCACTT
1 CAGCTCAATT
* *
68685765 GAGCTCAAGT
1 CAGCTCAATT
*
68685775 CAGCTCATTT
1 CAGCTCAATT
*
68685785 GAGCTCAATT
1 CAGCTCAATT
68685795 CAGCTCAAT
1 CAGCTCAAT
68685804 CTTAACCCAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:68685780 original size:20 final size:20
Alignment explanation
Indices: 68685755--68685801 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
68685745 AGCTCGTTTC
68685755 CAGCTCACTTGAGCTCAAGT
1 CAGCTCACTTGAGCTCAAGT
* *
68685775 CAGCTCATTTGAGCTCAATT
1 CAGCTCACTTGAGCTCAAGT
68685795 CAGCTCA
1 CAGCTCA
68685802 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (20 bp):
CAGCTCACTTGAGCTCAAGT
Found at i:68689816 original size:10 final size:10
Alignment explanation
Indices: 68689801--68689849 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
68689791 TTGGGTTAAG
68689801 ATTGAGCTGA
1 ATTGAGCTGA
68689811 ATTGAGCTCGA
1 ATTGAGCT-GA
68689822 A-TGAGCTGA
1 ATTGAGCTGA
* *
68689831 CTTGAGCTCA
1 ATTGAGCTGA
*
68689841 AGTGAGCTG
1 ATTGAGCTG
68689850 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:68689826 original size:20 final size:20
Alignment explanation
Indices: 68689803--68689849 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
68689793 GGGTTAAGAT
68689803 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
68689823 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
68689843 TGAGCTG
1 TGAGCTG
68689850 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:68691701 original size:20 final size:20
Alignment explanation
Indices: 68691678--68691724 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
68691668 GGGTTAAGAT
*
68691678 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
68691698 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
68691718 TGAGCTG
1 TGAGCTG
68691725 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:68697337 original size:30 final size:30
Alignment explanation
Indices: 68697303--68697399 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
68697293 AAAACTAAAA
68697303 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
68697333 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
68697363 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
68697392 ATGAGCTA
1 -TGAGCTA
68697400 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:68702998 original size:30 final size:30
Alignment explanation
Indices: 68702962--68703058 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
68702952 AGCTCACTCC
68702962 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * * *
68702992 TGGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
68703022 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
68703052 TAGCTCA
1 TAGCTCA
68703059 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:68703754 original size:22 final size:22
Alignment explanation
Indices: 68703703--68703768 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
68703693 GGTATTTGGG
* *
68703703 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
68703724 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
68703746 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
68703769 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:68704271 original size:100 final size:100
Alignment explanation
Indices: 68704098--68704297 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
68704088 AATAATCCAC
68704098 TAGGCTAGCCGAATGGTCACTTAAATTCCTTAAAAATTAAGCAAATGAATTACTTAAATGGGCTA
1 TAGGCTAGCCGAATGGTCACTTAAATTCCTTAAAAATTAAGCAAATGAATTACTTAAATGGGCTA
68704163 GCTAGATTCGGCTGAACTTGGAGCTCCAATGGTCA
66 GCTAGATTCGGCTGAACTTGGAGCTCCAATGGTCA
68704198 TAGGCTAGCCGAATGGTCACTTAAATTCCTTAAAAATTAAGCAAATGAATTACTTAAATGGGCTA
1 TAGGCTAGCCGAATGGTCACTTAAATTCCTTAAAAATTAAGCAAATGAATTACTTAAATGGGCTA
68704263 GCTAGATTCGGCTGAACTTGGAGCTCCAATGGTCA
66 GCTAGATTCGGCTGAACTTGGAGCTCCAATGGTCA
68704298 CCTTCTAGAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (100 bp):
TAGGCTAGCCGAATGGTCACTTAAATTCCTTAAAAATTAAGCAAATGAATTACTTAAATGGGCTA
GCTAGATTCGGCTGAACTTGGAGCTCCAATGGTCA
Found at i:68708074 original size:15 final size:16
Alignment explanation
Indices: 68708054--68708091 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
68708044 CTTTTCATTC
68708054 TCTTTTTTTGAA-TTT
1 TCTTTTTTTGAATTTT
68708069 TCTTTTTTTTGAATTTT
1 TC-TTTTTTTGAATTTT
68708086 TCTTTT
1 TCTTTT
68708092 CTTTTGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (16 bp):
TCTTTTTTTGAATTTT
Found at i:68708077 original size:16 final size:16
Alignment explanation
Indices: 68708051--68708104 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
68708041 TCTCTTTTCA
68708051 TTCTCTTTTTTTGAATT
1 TTCT-TTTTTTTGAATT
68708068 TTCTTTTTTTTGAATTT
1 TTCTTTTTTTTGAA-TT
*
68708085 TTCTTTTCTTTTGTATT
1 TTCTTTT-TTTTGAATT
68708102 TTC
1 TTC
68708105 GCTTTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.29
17 18 0.53
18 6 0.18
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (16 bp):
TTCTTTTTTTTGAATT
Found at i:68710333 original size:15 final size:15
Alignment explanation
Indices: 68710313--68710364 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
68710303 CCGTATGCAA
68710313 TTTTTTT-AATAATTT
1 TTTTTTTCAA-AATTT
68710328 TTTTTTTCAAAATTT
1 TTTTTTTCAAAATTT
* * *
68710343 TTTTTTTCGAACTCT
1 TTTTTTTCAAAATTT
68710358 TTTTTTT
1 TTTTTTT
68710365 ACGTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 31 0.94
16 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTTTTCAAAATTT
Found at i:68710716 original size:22 final size:21
Alignment explanation
Indices: 68710663--68710725 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
68710653 TTGGTATTTG
*
68710663 GGAATTGGTTCGAAATAGTAT
1 GGAATTGGTACGAAATAGTAT
*
68710684 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATAGTAT
* *
68710705 GGTATTTGGTACGAATTAGTA
1 GG-AATTGGTACGAAATAGTA
68710726 ATGGTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATAGTAT
Found at i:68713873 original size:13 final size:13
Alignment explanation
Indices: 68713855--68713879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68713845 TGGTCATCAT
68713855 GGTGTGAACACAA
1 GGTGTGAACACAA
68713868 GGTGTGAACACA
1 GGTGTGAACACA
68713880 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:68716528 original size:30 final size:30
Alignment explanation
Indices: 68716493--68716549 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68716483 TGTTTCGATT
*
68716493 TCTTTTTCA-TCTTCTTTTCCACTCTCAAAC
1 TCTTTTTCATTC-TCTTTTCCAATCTCAAAC
*
68716523 TCTTTTTCATTCTCTTTTTCAATCTCA
1 TCTTTTTCATTCTCTTTTCCAATCTCA
68716550 TTTTCTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.54
Consensus pattern (30 bp):
TCTTTTTCATTCTCTTTTCCAATCTCAAAC
Found at i:68720304 original size:30 final size:29
Alignment explanation
Indices: 68720210--68720306 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
68720200 TAAACTGAAA
*
68720210 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
* * * * * * *
68720240 TGAGCTGAGGCTAAACTCTTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCT-AAAT
68720270 TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
68720299 ATGAGCTA
1 -TGAGCTA
68720307 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 3 0.06
30 45 0.90
31 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
Found at i:68722579 original size:12 final size:12
Alignment explanation
Indices: 68722564--68722594 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
68722554 TTCTTTTTGC
68722564 TTTTCAAAGGCT
1 TTTTCAAAGGCT
68722576 TTTTCAAAGGCT
1 TTTTCAAAGGCT
68722588 TTTTCAA
1 TTTTCAA
68722595 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:68722671 original size:6 final size:6
Alignment explanation
Indices: 68722655--68722705 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
68722645 TTTCTTTTTA
*
68722655 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTCTT TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
68722705 T
1 T
68722706 GTTTTCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.12
6 26 0.65
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:68722677 original size:27 final size:26
Alignment explanation
Indices: 68722642--68722711 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
68722632 CTCTTGCCTC
68722642 TCTTTTCTTTTTATTTCATTTTCTTTT
1 TCTTTTCTTTTT-TTTCATTTTCTTTT
* * *
68722669 TCTTCTCTTGCTTTTTCTTTTTCTTTT
1 TCTTTTCTT-TTTTTTCATTTTCTTTT
*
68722696 TCTTTTCTTTGTTTTC
1 TCTTTTCTTTTTTTTC
68722712 TCTTTACAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.14
27 29 0.81
28 2 0.06
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (26 bp):
TCTTTTCTTTTTTTTCATTTTCTTTT
Found at i:68724942 original size:15 final size:15
Alignment explanation
Indices: 68724924--68724990 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
68724914 AAAAAAAGTG
*
68724924 AAAAAAATCGAGCAA
1 AAAAAAATCAAGCAA
**
68724939 AAAAAAAGAAAG-AA
1 AAAAAAATCAAGCAA
*
68724953 AAAAAAAGT-GAGCAA
1 AAAAAAA-TCAAGCAA
*
68724968 AAAAAAATCAAGTTAA
1 AAAAAAATCAAG-CAA
68724984 AAAAAAA
1 AAAAAAA
68724991 GTGAAAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
14 12 0.29
15 20 0.49
16 9 0.22
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.07
Consensus pattern (15 bp):
AAAAAAATCAAGCAA
Found at i:68724944 original size:29 final size:29
Alignment explanation
Indices: 68724912--68724994 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
68724902 ATCGAAATTC
*
68724912 AAAAAAAAAGTGAAAAAAA-TCGAGCAAAA
1 AAAAAAAAAGTAAAAAAAAGT-GAGCAAAA
* *
68724941 AAAAAGAAAGAAAAAAAAAGTGAGCAAAA
1 AAAAAAAAAGTAAAAAAAAGTGAGCAAAA
**
68724970 AAAAATCAAGTTAAAAAAAAAGTGA
1 AAAAAAAAAG-T-AAAAAAAAGTGA
68724995 AAAGTCTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 32 0.71
30 1 0.02
31 12 0.27
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.08
Consensus pattern (29 bp):
AAAAAAAAAGTAAAAAAAAGTGAGCAAAA
Found at i:68724954 original size:14 final size:15
Alignment explanation
Indices: 68724934--68724974 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
68724924 AAAAAAATCG
68724934 AGCAAAAAAAAAGAA
1 AGCAAAAAAAAAGAA
**
68724949 AG-AAAAAAAAAGTG
1 AGCAAAAAAAAAGAA
68724963 AGCAAAAAAAAA
1 AGCAAAAAAAAA
68724975 TCAAGTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (15 bp):
AGCAAAAAAAAAGAA
Found at i:68745214 original size:28 final size:28
Alignment explanation
Indices: 68745174--68745230 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
68745164 ATGTAAATGA
68745174 AATTAATGTATTATTTACATACAAACTT
1 AATTAATGTATTATTTACATACAAACTT
*
68745202 AATTAATGTATTATTTATATACAAACTT
1 AATTAATGTATTATTTACATACAAACTT
68745230 A
1 A
68745231 CCCCGGTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (28 bp):
AATTAATGTATTATTTACATACAAACTT
Found at i:68749863 original size:119 final size:120
Alignment explanation
Indices: 68749681--68749903 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
68749671 TCCTCGTTCA
* *
68749681 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * *
68749746 TTAGTAAC-TCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAA-AGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
68749801 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
68749863 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
68749904 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:68749903 original size:40 final size:40
Alignment explanation
Indices: 68749679--68749903 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
68749669 GCTCCTCGTT
* *
68749679 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
68749719 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
68749759 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
68749799 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
68749838 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
68749879 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
68749904 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 116 0.73
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:68763586 original size:53 final size:54
Alignment explanation
Indices: 68763528--68763634 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 54
68763518 TGAAATTCAA
* *
68763528 ATCCGTAAAATTTCCCTAAATCTAGACTCATAAAACTTCTTACTAATT-TTTTT
1 ATCCGTAAAATTTCCCTAAATCTAGACTCACAAAAATTCTTACTAATTGTTTTT
* *
68763581 ATCCGTAAAATTTCCCTGAATCTAGACTCACAAAAATTCTTACTTATTGTTTTT
1 ATCCGTAAAATTTCCCTAAATCTAGACTCACAAAAATTCTTACTAATTGTTTTT
68763635 TAGAATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 44 0.90
54 5 0.10
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (54 bp):
ATCCGTAAAATTTCCCTAAATCTAGACTCACAAAAATTCTTACTAATTGTTTTT
Found at i:68777960 original size:42 final size:42
Alignment explanation
Indices: 68777844--68777964 Score: 113
Period size: 42 Copynumber: 2.8 Consensus size: 42
68777834 ATCTAAATTA
* * *
68777844 TCGTATAAGACCATGTCTGGGACACTGGCATCGATTTGAAATTT
1 TCGTATAAGACCTTGTCTGGGACACAGGCATCGATCTG--ATTT
* * *
68777888 ACGTGTAAGA-CTATGTCTGGAACATC-GGCATCGTATCTG-TTT
1 TCGTATAAGACCT-TGTCTGGGACA-CAGGCATCG-ATCTGATTT
*
68777930 TCGTATAAGACCTTGTCTGGGACAGAGGCATCGAT
1 TCGTATAAGACCTTGTCTGGGACACAGGCATCGAT
68777965 ATTGAATTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
41 2 0.03
42 28 0.44
43 3 0.05
44 25 0.40
45 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTATAAGACCTTGTCTGGGACACAGGCATCGATCTGATTT
Found at i:68777991 original size:43 final size:43
Alignment explanation
Indices: 68777839--68778003 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
68777829 TATTGATCTA
* *
68777839 AATTATCGTATAAGACCATGTCTGGGACACTGGCATCGAT-TTG
1 AATTA-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTG
* *
68777882 AAATTTACGTGTAAGACTATGTCTGGAACA-TCGGCATCG-TATCTG
1 -AA-TTACGTGTAAGACCATGTCTGGGACAGT-GGCATCGATAT-TG
* * * * *
68777927 -TTTTCGTATAAGACCTTGTCTGGGACAGAGGCATCGATATTG
1 AATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTG
* *
68777969 AATTACATGTAAGACCACGTCTGGGACAGTGGCAT
1 AATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
68778004 TGTACTTGTC
Statistics
Matches: 97, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
42 30 0.31
43 32 0.33
44 30 0.31
45 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
AATTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTG
Found at i:68781308 original size:12 final size:12
Alignment explanation
Indices: 68781291--68781315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68781281 TTTTAATAAG
68781291 ATTTAATATTAA
1 ATTTAATATTAA
68781303 ATTTAATATTAA
1 ATTTAATATTAA
68781315 A
1 A
68781316 ATGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:68782203 original size:47 final size:47
Alignment explanation
Indices: 68782131--68782224 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
68782121 AACTCGATTA
* *
68782131 GATTAGTGTAGAAACTAACGTCGATAATGGCAACATAGAATGATCGC
1 GATTAGTGTAGAAACTAACGCCGATAATGGCAACATAGAACGATCGC
68782178 GATTAGTGTAGAAACTAACGCCGATAATGGCAACATAGAACGATCGC
1 GATTAGTGTAGAAACTAACGCCGATAATGGCAACATAGAACGATCGC
68782225 AAAGCAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (47 bp):
GATTAGTGTAGAAACTAACGCCGATAATGGCAACATAGAACGATCGC
Found at i:68782583 original size:18 final size:18
Alignment explanation
Indices: 68782560--68782612 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
68782550 CGAATTCTCG
68782560 ATGAACAAGTTCTTCACC
1 ATGAACAAGTTCTTCACC
68782578 ATGAAC----TC-TCA--
1 ATGAACAAGTTCTTCACC
68782589 ATGAACAAGTTCTTCACC
1 ATGAACAAGTTCTTCACC
68782607 ATGAAC
1 ATGAAC
68782613 TCTCAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 6 0.21
13 3 0.11
14 2 0.07
15 2 0.07
16 3 0.11
18 12 0.43
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
ATGAACAAGTTCTTCACC
Done.