Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 114 of 297
Found at i:40898579 original size:21 final size:22
Alignment explanation
Indices: 40898554--40898599 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
40898544 GAGATATCTG
*
40898554 TTTT-CCTGCTGATCTGATGCT
1 TTTTCCCTGCTGATATGATGCT
40898575 TTTTCCCTGCTGATATGATGCT
1 TTTTCCCTGCTGATATGATGCT
40898597 TTT
1 TTT
40898600 GTCTTTCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (22 bp):
TTTTCCCTGCTGATATGATGCT
Found at i:40903326 original size:27 final size:27
Alignment explanation
Indices: 40903278--40903357 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
40903268 GGGAGGCTGC
* *
40903278 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
40903305 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
40903331 TATATATATGTGGCGAAGCCACCAGAT
1 CAGATAT-TGTGGCGAAGCCACCAGAT
40903358 TGCAGCGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:40903394 original size:67 final size:67
Alignment explanation
Indices: 40903305--40903442 Score: 186
Period size: 67 Copynumber: 2.1 Consensus size: 67
40903295 TCACCAGATA
* * * * * * *
40903305 CAGATATTGTGGCTAGGCCACCAGAATATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
40903370 GC
66 GC
* * *
40903372 CAGATATTGTGACGAAGTCACCAGAACAGATAAATGTGGCGAGGCCACCAAATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
40903437 GC
66 GC
40903439 CAGA
1 CAGA
40903443 ACGCTTCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
GC
Found at i:40904107 original size:27 final size:27
Alignment explanation
Indices: 40904077--40904276 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
40904067 GGGGAAAAAT
* ** *
40904077 GGTAATTTTACCCTACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
40904104 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
40904131 AGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40904158 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40904185 GGTAATTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
40904212 AATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
40904239 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
40904266 GGTAATTCTAC
1 GGTAATTCTAC
40904277 AACTTATCCA
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:40905582 original size:42 final size:42
Alignment explanation
Indices: 40905483--40905623 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 42
40905473 ATCTGAGATA
* *
40905483 TCGTGTAAGACTATGTCTGGGA-AACAGGCCTCGATTGATATT
1 TCGTGTAAGACCATGTCTGGGACAACAGGCATCGATTGA-ATT
* *
40905525 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTG-ATT
1 T-CGTGTAAGACCATGTCTGGGACAACAGGCATCG-AT-TGAATT
* *
40905568 TCGTGTAAGACCATGTCTGGGAC-AGAGGAATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACAACAGGCATCG--ATTGAATT
* *
40905611 ACATGTAAGACCA
1 TCGTGTAAGACCA
40905624 CGTCAAGAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 30 0.37
43 46 0.56
44 4 0.05
45 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACAACAGGCATCGATTGAATT
Found at i:40911164 original size:24 final size:24
Alignment explanation
Indices: 40911132--40911207 Score: 152
Period size: 24 Copynumber: 3.2 Consensus size: 24
40911122 CTCGTCAAAA
40911132 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
40911156 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
40911180 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
40911204 TGAT
1 TGAT
40911208 ATTAAATTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (24 bp):
TGATTACCTTATTAACCATCAGTT
Found at i:40911607 original size:28 final size:28
Alignment explanation
Indices: 40911575--40911673 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 28
40911565 ACAGTACATG
* *
40911575 CAGTAACAGTCTGGGCCTGAGCCTTATT
1 CAGTAACAGTCTGGGCCTGAGCCCTATA
*
40911603 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCCTGAGCCCTATA
* * * * *
40911636 CAGTAACAGTGTAGGCTTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCTATA
*
40911664 CAGTATCAGT
1 CAGTAACAGT
40911674 ATCGTGTAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 30 0.53
30 2 0.04
31 2 0.04
33 23 0.40
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATA
Found at i:40911617 original size:33 final size:34
Alignment explanation
Indices: 40911575--40911645 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
40911565 ACAGTACATG
* * *
40911575 CAGTAACAGTCTGGGCCTGAGCCTTATTCAGTAT
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
*
40911609 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
40911642 CAGT
1 CAGT
40911646 GTAGGCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
Found at i:40912053 original size:27 final size:27
Alignment explanation
Indices: 40912023--40912194 Score: 290
Period size: 27 Copynumber: 6.4 Consensus size: 27
40912013 GGGCATAATC
*
40912023 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
40912050 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
40912077 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* *
40912104 ATCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
40912131 GTCATTTTACCCTACAGGGGTACTACG
1 GTCATTTTACCCTACAGGGGTATTACG
40912158 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
40912185 GTCATTTTAC
1 GTCATTTTAC
40912195 AAATCGAGGA
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:40912294 original size:26 final size:27
Alignment explanation
Indices: 40912172--40912337 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
40912162 TTTTACCCTA
* *
40912172 CAGGGGTATTACGGTCATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
** * * *
40912199 C-GAGGAAATTTTGATTATTTTACAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAAT
*
40912226 CAGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
40912253 CAGGGGTATTTTGGTAATTTTAC-AAC
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
40912279 CTGGGGTATTTCGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
40912306 CAGGGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
40912333 CAGGG
1 CAGGG
40912338 TCTTAATGAC
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.21
27 91 0.78
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:40912304 original size:53 final size:53
Alignment explanation
Indices: 40912172--40912330 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
40912162 TTTTACCCTA
* * ** * *
40912172 CAGGGGTATTACGGTCATTTTACAAATC-GAGGAAATTTTGATTATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAATCAG-GGGTATTTTGATAATTTTAC-AAC
* *
40912226 CAGGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAC
1 CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAC
* *
40912279 CTGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAA
1 CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAA
40912331 ATCAGGGTCT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 50 0.54
54 41 0.45
55 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (53 bp):
CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAC
Found at i:40912556 original size:17 final size:17
Alignment explanation
Indices: 40912534--40912566 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
40912524 TCGCAAATTT
40912534 ATCCGTGTGGGCCCACG
1 ATCCGTGTGGGCCCACG
40912551 ATCCGTGTGGGCCCAC
1 ATCCGTGTGGGCCCAC
40912567 ATAGCCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.33, T:0.18
Consensus pattern (17 bp):
ATCCGTGTGGGCCCACG
Found at i:40927153 original size:30 final size:30
Alignment explanation
Indices: 40927117--40927176 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
40927107 TTCCCGAGCC
*
40927117 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
40927147 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
40927177 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:40931641 original size:14 final size:14
Alignment explanation
Indices: 40931622--40931649 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
40931612 TTTTTTTTAC
40931622 GAACAGAAATTGAA
1 GAACAGAAATTGAA
40931636 GAACAGAAATTGAA
1 GAACAGAAATTGAA
40931650 AAGACCTCAG
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:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:40931696 original size:92 final size:91
Alignment explanation
Indices: 40931540--40931707 Score: 232
Period size: 92 Copynumber: 1.8 Consensus size: 91
40931530 GAGTTGATTT
* *
40931540 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATG
*
40931605 AGTTCATTTTTTTTTACGAACAGAAA
66 AGTTAATTTTTTTTTACGAACAGAAA
* * *
40931631 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTAGCAAT
*
40931694 ATGGGTTAATTTTT
63 ATGAGTTAATTTTT
40931708 GACAAACAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 14 0.21
91 13 0.19
92 38 0.57
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTAATTTTTTTTTACGAACAGAAA
Found at i:40931762 original size:73 final size:73
Alignment explanation
Indices: 40931637--40932090 Score: 818
Period size: 73 Copynumber: 6.2 Consensus size: 73
40931627 GAAATTGAAG
** **
40931637 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGGGTTA
1 AACAGAAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTA
40931702 ATTTTTGACA
64 ATTTTTGACA
40931712 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931777 TTTTGACA
66 TTTTGACA
40931785 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931850 TTTTGACA
66 TTTTGACA
40931858 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931923 TTTTGACA
66 TTTTGACA
40931931 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931996 TTTTGACA
66 TTTTGACA
* **
40932004 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
*
40932069 TTTTGAAA
66 TTTTGACA
40932077 AACAGAAATTGAAA
1 AACAGAAATTGAAA
40932091 ACCAGAAATT
Statistics
Matches: 371, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
73 349 0.94
75 22 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (73 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
TTTTGACA
Found at i:40931903 original size:146 final size:146
Alignment explanation
Indices: 40931637--40932455 Score: 939
Period size: 146 Copynumber: 5.4 Consensus size: 146
40931627 GAAATTGAAG
* **
40931637 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGGGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTA
40931702 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
64 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
*
40931767 ATGGGTTAATTTTTGACA
129 ATGAGTTAATTTTTGACA
*
40931785 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931850 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
40931915 GGGTTAATTTTTGACA
131 GAGTTAATTTTTGACA
*
40931931 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
40931996 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
**
40932061 GAGTCGATTTTTGAAAAACAGAAATTGAA
131 GAGTTAATTTTTG----AC---------A
* * * * *
40932090 AACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT
1 AA-CAGAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGGGTT
** * * ** *
40932155 AATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
63 AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
*
40932220 TATGAGTTGATTTTTGACA
128 TATGAGTTAATTTTTGACA
* * ** * *
40932239 AACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTT-A-
* * * *
40932302 TTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
64 -ATTTTTG--AC---------AAACA-G-AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
*
40932367 TCACCTCTCGCAATATGAGTTGAA--ATT-A-A
115 TCACCTCTCGCAATATGAGTT-AATTTTTGACA
* * *
40932396 AGCACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
1 A--ACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
40932456 AGCTGATTTT
Statistics
Matches: 588, Mismatches: 46, Indels: 61
0.85 0.07 0.09
Matches are distributed among these distances:
144 27 0.05
145 1 0.00
146 262 0.45
147 6 0.01
148 42 0.07
149 4 0.01
150 2 0.00
157 2 0.00
158 6 0.01
159 27 0.05
160 79 0.13
161 28 0.05
162 102 0.17
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (146 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAAT
TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTAATTTTTGACA
Found at i:40932090 original size:14 final size:14
Alignment explanation
Indices: 40932071--40932105 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
40932061 GAGTCGATTT
40932071 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
40932085 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
40932099 TTGAAAA
1 TTGAAAA
40932106 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:40932160 original size:89 final size:87
Alignment explanation
Indices: 40931998--40932182 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 87
40931988 GGGTTAATTT
* *
40931998 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
*
40932062 AGTCGATTTTTGAAAAACAGAAA
65 AGTCAATTTTTGAAAAACAGAAA
* *
40932085 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** *
40932150 GAG-CTAATTTTTGATGAACATAAA
64 GAGTC-AATTTTTGAAAAACAGAAA
40932174 TT-AAAACCA
1 TTGAAAACCA
40932183 CCTCAGCGTG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 3 0.03
87 29 0.34
88 8 0.09
89 46 0.53
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (87 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
GTCAATTTTTGAAAAACAGAAA
Found at i:40932203 original size:162 final size:159
Alignment explanation
Indices: 40931925--40932252 Score: 476
Period size: 162 Copynumber: 2.0 Consensus size: 159
40931915 GGGTTAATTT
* * *
40931925 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
* * **
40931990 GTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
65 GCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
*
40932055 CAATATGAGTCGATTTTTGAAAAACAGAAA
130 CAATATGAGTCGATTTTTGAAAAACAAAAA
* *
40932085 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** * *
40932150 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
63 GAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
* *
40932215 CGCAATATGAGTTGATTTTTGACAAACAAAAA
128 CGCAATATGAGTCGATTTTTGAAAAACAAAAA
40932247 TTGAAA
1 TTGAAA
40932253 TTACCTCAGC
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
159 3 0.02
160 29 0.19
162 117 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (159 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAG
CTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
AATATGAGTCGATTTTTGAAAAACAAAAA
Found at i:40932220 original size:73 final size:71
Alignment explanation
Indices: 40932125--40932324 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
40932115 GTGTGAGCCA
* * *
40932125 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
40932190 GTGTCCTG
66 --GTCCTG
** * * **
40932198 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
*
40932263 GTCTTG
66 GTCCTG
* **
40932269 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATG-AACATAAATTAAAA
40932325 AAACGAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 41 0.38
72 12 0.11
73 56 0.51
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
GTCCTG
Found at i:40932337 original size:235 final size:230
Alignment explanation
Indices: 40931860--40932465 Score: 781
Period size: 235 Copynumber: 2.6 Consensus size: 230
40931850 TTTTGACAAA
* *
40931860 CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTAATTT
1 CAGAAATTGAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
* *
40931925 TTGACA-AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
65 TTGA-AGAACAAAAATT-AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
40931989 GGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTC
128 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCCGAGGCTCAACTCACCTCTC
*
40932054 GCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
192 GCAATATGAGTCGATTTTTGAAAAACAGAAATTAAAAAC
* * *
40932093 CAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAAT
1 CAGAAATTGAAAATACCTCAGCGTGT---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
* * * *
40932158 TTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
63 TTTTGAAGAACAAAAATTAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
** *
40932223 GAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGCTCAACTCACTTCTC
127 GAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTC
* *** *
40932287 GCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAA-
192 GCAATATGAGTCGA-TTTTTGAAAAACAGAAATTAAAAAC
*
40932326 AACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 CA-G-AAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-AA
* * * * *
40932391 --ATTAAAGCACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATA
62 TTTTTGAAGAACAAAAATT-AAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
40932454 TGAGCTGATTTT
126 TGAGTTGATTTT
40932466 GAAAAAGTAG
Statistics
Matches: 326, Mismatches: 37, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
232 62 0.19
233 92 0.28
234 25 0.08
235 147 0.45
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (230 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
TGAAGAACAAAAATTAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTCGATTTTTGAAAAACAGAAATTAAAAAC
Found at i:40932484 original size:160 final size:157
Alignment explanation
Indices: 40932182--40932471 Score: 408
Period size: 160 Copynumber: 1.8 Consensus size: 157
40932172 AATTAAAACC
**
40932182 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAACAAAAA
* ** * *
40932247 TTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAA
66 TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAA
*
40932312 ACATAAATTAAAAAAACGAAAATTGAAAAT
128 AAATAAATTAAAAAAACGAAAATTGAAAAT
40932342 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-A-AAGCACAAA
1 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGACAA--ACAAA
*
40932404 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGA
64 AATTGAAAATACCTCAGCGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
40932468 AAAA
127 AAAA
40932472 GTAGAAATTA
Statistics
Matches: 117, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
157 11 0.09
158 1 0.01
159 26 0.22
160 48 0.41
161 31 0.26
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (157 bp):
ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAACAAAAA
TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
TAAATTAAAAAAACGAAAATTGAAAAT
Found at i:40932836 original size:72 final size:71
Alignment explanation
Indices: 40932616--40933031 Score: 388
Period size: 72 Copynumber: 5.6 Consensus size: 71
40932606 GTAATCTGAA
* *
40932616 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAAATACCTCAG
40932681 CATGTGAACCGAG
62 C--GTG-ACCGAG
* *
40932694 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
* * **
40932759 ACGTGTCTTAAG
61 GCGTGAC-CGAG
** * *
40932771 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
40932836 TCCTGAG
66 ACC-GAG
** * * *
40932843 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAA-AACAGAAATTGAAAATACCTCAG
40932908 CATGTGAACCGAG
62 C--GTG-ACCGAG
* *
40932921 GCTCAACTCACCTCTCGCAATATGAGTTGAA-ATT-AAAGCACAAAAATTGAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA--ACAGAAATTGAAAATACCTCAGCG
*
40932984 TGCCCCGAG
64 TG-ACCGAG
* *
40932993 GCTCAACTCACCTCTTGCAATATGAGCTG-ATTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
40933032 AGTAGAAATT
Statistics
Matches: 296, Mismatches: 28, Indels: 35
0.82 0.08 0.10
Matches are distributed among these distances:
71 2 0.01
72 103 0.35
73 5 0.02
74 23 0.08
75 6 0.02
76 25 0.08
77 33 0.11
78 63 0.21
79 36 0.12
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (71 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
ACCGAG
Found at i:40932968 original size:150 final size:145
Alignment explanation
Indices: 40932616--40933026 Score: 457
Period size: 150 Copynumber: 2.7 Consensus size: 145
40932606 GTAATCTGAA
*
40932616 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTT-AAAACAGAAATTGAAAATACCTCAG
*
40932681 CATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAAT
60 C--GTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAACAGAAAT
* *
40932746 TGAAAATACCTCAACGTGTCTTAAG
121 TGAAAATACCTCAACGTGACTCAAG
** * *
40932771 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAA-TTT-AAAACAGAAATTGAAAATACCTCAGCGTG
* ** *
40932836 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTT-AACAACAGAAATTGAAAT
64 ACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAA-AACAGAAATTGAAAA
* *
40932900 TACCTCAGCATGTGAAC-CGAG
127 TACCTCA--ACGTG-ACTCAAG
* *
40932921 GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAGCACAAAAATTGAAAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTAAA--ACAGAAATTGAAAATACCTCAGCGTG
* * *
40932986 CCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
64 -ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
40933027 GAAAAAGTAG
Statistics
Matches: 221, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
147 2 0.01
148 35 0.16
149 35 0.16
150 91 0.41
151 31 0.14
155 27 0.12
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (145 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTAAAACAGAAATTGAAAATACCTCAGCGTGAC
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACC
TCAACGTGACTCAAG
Found at i:40933262 original size:122 final size:122
Alignment explanation
Indices: 40932919--40933291 Score: 464
Period size: 127 Copynumber: 3.0 Consensus size: 122
40932909 ATGTGAACCG
* *
40932919 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAGCACAAAAATTGAAAATACCTCAGCG
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGAATTTAAA--ACAAAAATTGAAAATACCTCAGCG
* * *
40932984 TGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
64 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA--AAAAATTAAA
* * * * *
40933045 AGG-TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAT
1 AGGCTT-AACTCACCTCTCGCAATATGAGTTGAAT-TT-A-AAACAAAAATTGAAAATACCTCAG
* * *
40933109 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTAATTTTGAAAAACAAAAATTAAA
62 CGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-AAAAATTAAA
* * * * *
40933171 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGAATTTAAAACAAAAATTGAAAATACCTCAGCGTG
* *
40933235 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAAAAAAATTAAA
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
40933291 A
1 A
40933292 ATACCTCAAC
Statistics
Matches: 214, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
120 11 0.05
121 4 0.02
122 59 0.28
123 1 0.00
124 2 0.01
125 4 0.02
126 61 0.29
127 69 0.32
128 1 0.00
129 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (122 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGAATTTAAAACAAAAATTGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAAATTAAA
Found at i:40933318 original size:70 final size:70
Alignment explanation
Indices: 40933171--40933345 Score: 203
Period size: 70 Copynumber: 2.5 Consensus size: 70
40933161 AAAAATTAAA
* * * * * **
40933171 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
40933235 CCCCG
66 CCCCG
*
40933240 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
40933304 GTCTTG
65 GCCCCG
*
40933310 AGGCTCAACTCA-TCTCTCGTAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
40933346 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
69 27 0.30
70 60 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:40941504 original size:21 final size:20
Alignment explanation
Indices: 40941452--40941505 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
40941442 AATTTTGAAG
*
40941452 CACGAAAATTTTTTTTAAAA
1 CACGAAATTTTTTTTTAAAA
* *
40941472 AATGAAAGTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTAAAA
40941493 CACGAGAATTTTT
1 CACGA-AATTTTT
40941506 AAACACGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:40941506 original size:17 final size:17
Alignment explanation
Indices: 40941484--40941669 Score: 136
Period size: 17 Copynumber: 11.3 Consensus size: 17
40941474 TGAAAGTTTT
40941484 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
40941501 TTTTT-AAACACG-GAAA
1 TTTTTAAAACACGAG-AA
** *
40941517 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
40941534 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
40941551 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
40941568 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * ***
40941585 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
*
40941602 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
40941616 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
40941631 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
40941648 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
40941665 TTTTT
1 TTTTT
40941670 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
11 4 0.03
12 3 0.02
14 1 0.01
15 4 0.03
16 12 0.09
17 106 0.79
18 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:40959703 original size:21 final size:21
Alignment explanation
Indices: 40959677--40959718 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
40959667 CAAATGGATG
40959677 AACCCTAACAATGGATTTTTC
1 AACCCTAACAATGGATTTTTC
*
40959698 AACCCTAACAATGGCTTTTTC
1 AACCCTAACAATGGATTTTTC
40959719 TTCTCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
AACCCTAACAATGGATTTTTC
Found at i:40961632 original size:21 final size:21
Alignment explanation
Indices: 40961606--40961650 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
40961596 TCTCACTTTT
*
40961606 TTTTTCGTGTTCT-TCAATCTC
1 TTTTTC-TGTTCTCTCAAGCTC
*
40961627 TTTTTCTTTTCTCTCAAGCTC
1 TTTTTCTGTTCTCTCAAGCTC
40961648 TTT
1 TTT
40961651 CTTTCTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.09, C:0.24, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTTCTGTTCTCTCAAGCTC
Found at i:40963572 original size:68 final size:68
Alignment explanation
Indices: 40963491--40963626 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
40963481 ATGTGTACCA
40963491 GAAGAAGATGCATGCTCATCTAATTGTATATCAGTTCTTATGTTAGATTTTTTTAAAGGAAAAAC
1 GAAGAAGATGCATGCTCATCTAATTGTATATCAGTTCTTATGTTAGATTTTTTTAAAGGAAAAAC
40963556 ATT
66 ATT
*
40963559 GAAGAAGATGCATGCTCATCTAATTGTATATCCGTTCTTATGTTAGATTTTTTTAAAGGAAAAAC
1 GAAGAAGATGCATGCTCATCTAATTGTATATCAGTTCTTATGTTAGATTTTTTTAAAGGAAAAAC
40963624 ATT
66 ATT
40963627 CTCAAAGAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (68 bp):
GAAGAAGATGCATGCTCATCTAATTGTATATCAGTTCTTATGTTAGATTTTTTTAAAGGAAAAAC
ATT
Found at i:40970208 original size:26 final size:24
Alignment explanation
Indices: 40970150--40970209 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 24
40970140 ATAGAAACAC
40970150 AATAATAATAAAACTACAATTGAT
1 AATAATAATAAAACTACAATTGAT
*
40970174 ACACAAATAATAAAACTATACTAA-TGAT
1 A-A-TAATAATAAAAC--TAC-AATTGAT
40970202 AATAATAA
1 AATAATAA
40970210 ACCTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 16 0.55
27 1 0.03
28 8 0.28
29 2 0.07
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (24 bp):
AATAATAATAAAACTACAATTGAT
Found at i:40970262 original size:21 final size:21
Alignment explanation
Indices: 40970232--40970280 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
40970222 CTACTACTAC
* **
40970232 TAAT-AAAATAATAACATTAA
1 TAATAAAAATAATAAAACAAA
40970252 TAATAAAAATAATAAAACAAA
1 TAATAAAAATAATAAAACAAA
40970273 TAATAAAA
1 TAATAAAA
40970281 CAACTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (21 bp):
TAATAAAAATAATAAAACAAA
Found at i:40970289 original size:15 final size:12
Alignment explanation
Indices: 40970249--40970289 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
40970239 ATAATAACAT
40970249 TAATAATAA-AAA
1 TAATAA-AACAAA
40970261 TAATAAAACAAA
1 TAATAAAACAAA
*
40970273 TAATAAAACAAC
1 TAATAAAACAAA
40970285 TAATA
1 TAATA
40970290 TGAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 2 0.07
12 25 0.93
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
TAATAAAACAAA
Found at i:40972201 original size:43 final size:43
Alignment explanation
Indices: 40972153--40972318 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
40972143 GTTACCGAGA
*
40972153 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
40972196 TGTGATTACATGTAGGACCATGTTTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* *** * * *
40972240 T-CGATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
40972281 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
40972319 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 88 0.87
44 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:40982953 original size:46 final size:47
Alignment explanation
Indices: 40982867--40983081 Score: 201
Period size: 46 Copynumber: 4.6 Consensus size: 47
40982857 ACATACCCGT
* * *
40982867 GCCGATGACATGTCCCAAACATGGTCTTACACT-G-ACACATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTTGTAG
* *
40982913 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTTGTAG
* * * ** *
40982959 GCCGATGCATGTCCCAGACATGTCTTATACTAGCTCTCGT-TTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGTAG
* **
40983005 GCCGATGCTATGTCCCAGACATAGTCTTGCACTGGCTCTCATAATGT-G
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTTGTAG
*
40983053 GTCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
40983082 TTAGTACACA
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 63 0.46
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGTAG
Found at i:40987485 original size:128 final size:128
Alignment explanation
Indices: 40987222--40987485 Score: 357
Period size: 128 Copynumber: 2.1 Consensus size: 128
40987212 AATCTAGAGT
* * * *
40987222 AATTTTTTCTTTTTCTCAACCAAAAGAAGCCTTTTTATTTTGATTACAACCCAAAAATTGTGTAC
1 AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTACTCTGATTACAACCCAAAAATTGTGCAC
* * * * * *
40987287 AAAATACCCTTTAGTGTGTATTTTTATTGGTGTTGGAGTTGGACAAGAACTACCTCTACAGTC
66 AAAATACCCATCAATGTGAATTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
* * * *
40987350 AATTTTTTCTTTCTCTCAACCAAAAGAAGGCTTTTTGCTCTGATTACAACCCAAAAATTTTGCCC
1 AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTACTCTGATTACAACCCAAAAATTGTGCAC
* * **
40987415 AAAATGCCCATCAATGTGAATTTTTTATTAGTGTTGGAGTTGGACAAGGACTACCTCTGGAATC
66 AAAATACCCATCAATGTGAA-TTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
40987479 AATTTTT
1 AATTTTT
40987486 GTCTCCTCTC
Statistics
Matches: 117, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
128 72 0.62
129 45 0.38
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (128 bp):
AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTACTCTGATTACAACCCAAAAATTGTGCAC
AAAATACCCATCAATGTGAATTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
Found at i:40989817 original size:22 final size:21
Alignment explanation
Indices: 40989781--40989821 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
40989771 GACTTTGTGG
*
40989781 CTTAGTGTCATGACACTCTATA
1 CTTAGTGTCACGACA-TCTATA
*
40989803 CTTAGTGTTACGACATCTA
1 CTTAGTGTCACGACATCTA
40989822 ACAAAAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
CTTAGTGTCACGACATCTATA
Found at i:41002210 original size:48 final size:46
Alignment explanation
Indices: 41002147--41002419 Score: 194
Period size: 48 Copynumber: 5.7 Consensus size: 46
41002137 TAATATATGT
* * *
41002147 GCCAGTGTAACACCATGTCTTGGACATGGCATCGACCACGATATGTGA
1 GCCAGTGTAAGACCATGT-TTGGACATGGCATCGACCA-GAGATGAGA
* *
41002195 GCCAGTGTAAGACCATGTTTGGAACATGGCATC-AGCA-ATGTAATAAGA
1 GCCAGTGTAAGACCATGTTTGG-ACATGGCATCGACCAGA-G--ATGAGA
* ** *
41002243 GCCAGTGTAAGACCATGTTTGGGACATGGCATAGGTATTA-AGGTGAGA
1 GCCAGTGTAAGACCATGTTT-GGACATGGCAT-CG-ACCAGAGATGAGA
* * * *
41002291 GCCAGTGTAAGACCATGTCTAGGACATGGGATCG-GCATTGAGACGAGA
1 GCCAGTGTAAGACCATGT-TTGGACATGGCATCGACCA--GAGATGAGA
* * * * * * *
41002339 GCTAGTGCAAGACCATGTCTGGGACATGACATCGGCCTAGACATGTGA
1 GCCAGTGTAAGACCATGT-TTGGACATGGCATCGACC-AGAGATGAGA
*
41002387 GCCAGTGTAAGACCATGTTTGAAACATGGCATC
1 GCCAGTGTAAGACCATGTTTG-GACATGGCATC
41002420 AGTAATTCAC
Statistics
Matches: 179, Mismatches: 31, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
47 10 0.06
48 158 0.88
49 4 0.02
50 2 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTTTGGACATGGCATCGACCAGAGATGAGA
Found at i:41002268 original size:96 final size:95
Alignment explanation
Indices: 41002147--41002421 Score: 279
Period size: 96 Copynumber: 2.9 Consensus size: 95
41002137 TAATATATGT
* *
41002147 GCCAGTGTAACACCATGTCTT-GGACATGGCATCGACCACGATATGTGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGT-TTGGGACATGGCATCGACCA-GACATGTGAGCCAGTGTAAGACCAT
*
41002211 GTTTGGAACATGGCATCAGCAATGTA-ATAAGA
64 GTTTGGAACATGGCATCAGCAATG-AGACAAGA
* ** ** *
41002243 GCCAGTGTAAGACCATGTTTGGGACATGGCATAGGTATTA-AGGTGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCAT-CG-ACCAGACATGTGAGCCAGTGTAAGACCAT
* * * * *
41002307 GTCTAGG-ACATGGGATCGGCATTGAGACGAGA
64 GT-TTGGAACATGGCATCAGCAATGAGACAAGA
* * * * *
41002339 GCTAGTGCAAGACCATGTCTGGGACATGACATCGGCCTAGACATGTGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACC-AGACATGTGAGCCAGTGTAAGACCATG
*
41002404 TTTGAAACATGGCATCAG
65 TTTGGAACATGGCATCAG
41002422 TAATTCACCC
Statistics
Matches: 143, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
95 7 0.05
96 130 0.91
97 4 0.03
98 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCAGACATGTGAGCCAGTGTAAGACCATGT
TTGGAACATGGCATCAGCAATGAGACAAGA
Found at i:41009898 original size:48 final size:48
Alignment explanation
Indices: 41009826--41010061 Score: 199
Period size: 48 Copynumber: 4.9 Consensus size: 48
41009816 ACATTTGGGT
* * * *
41009826 GATATGTGTGCCAGTGTAACACCATGTCTGGGATATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * *
41009874 GATATGAGAGCCAATGTAAGACCATGGT-TGGAACATGGCATCGGCAAT
1 GATATGAGAGCCAGTGTAAGACCAT-GTCTGGGACATGGCATCGGCCAC
* * * *
41009922 G-TAATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * ** * *
41009970 GAGACGAGAGCTAGTGTAAGACCATATCTGGGACATGATATCAGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
** * * *
41010018 GACGTGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
41010062 TAATTCACCC
Statistics
Matches: 147, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
47 4 0.03
48 140 0.95
49 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:41012386 original size:13 final size:13
Alignment explanation
Indices: 41012350--41012388 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
41012340 TCCAAGTCAG
41012350 ATAAAAAATTAAA
1 ATAAAAAATTAAA
*
41012363 AGGAAAAAATTAAA
1 A-TAAAAAATTAAA
*
41012377 ATAAATAATTAA
1 ATAAAAAATTAA
41012389 GATAGAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:41020803 original size:14 final size:14
Alignment explanation
Indices: 41020786--41020827 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
41020776 TTATGTAATT
41020786 TATATAAAATTAAA
1 TATATAAAATTAAA
*
41020800 TATATAATATTATAA
1 TATATAAAATTA-AA
*
41020815 TATA-AACATTAAA
1 TATATAAAATTAAA
41020828 AGACACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATAAAATTAAA
Found at i:41035652 original size:34 final size:34
Alignment explanation
Indices: 41035614--41035680 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
41035604 AAGAATGACT
* *
41035614 TTTGCTACTGAGTTGATCTATTATAAGCATATTA
1 TTTGCTACTGAATCGATCTATTATAAGCATATTA
* *
41035648 TTTGCTACTGAATCGATTTGTTATAAGCATATT
1 TTTGCTACTGAATCGATCTATTATAAGCATATT
41035681 GAATGCTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TTTGCTACTGAATCGATCTATTATAAGCATATTA
Found at i:41035688 original size:34 final size:34
Alignment explanation
Indices: 41035616--41035689 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
41035606 GAATGACTTT
* * *
41035616 TGCTACTGAGTTGATCTATTATAAGCATATTATT
1 TGCTACTGAATCGATCTATTATAAGCATATTATA
* *
41035650 TGCTACTGAATCGATTTGTTATAAGCATATTGA-A
1 TGCTACTGAATCGATCTATTATAAGCATATT-ATA
41035684 TGCTAC
1 TGCTAC
41035690 CGTATTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (34 bp):
TGCTACTGAATCGATCTATTATAAGCATATTATA
Found at i:41037399 original size:9 final size:9
Alignment explanation
Indices: 41037385--41037409 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41037375 TTTATTTGTG
41037385 TTTTTTTCC
1 TTTTTTTCC
41037394 TTTTTTTCC
1 TTTTTTTCC
41037403 TTTTTTT
1 TTTTTTT
41037410 TTCTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:41037437 original size:17 final size:16
Alignment explanation
Indices: 41037373--41037439 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 16
41037363 ATTTCTACTA
*
41037373 TTTTTATTTGTGTTTTT
1 TTTTTATTT-TCTTTTT
*
41037390 TTCCTTT-TTTTCCTTTT
1 TT--TTTATTTTCTTTTT
* *
41037407 TTTTTCTTTACTTTTT
1 TTTTTATTTTCTTTTT
41037423 TTTTTAATTTTCTTTTT
1 TTTTT-ATTTTCTTTTT
41037440 GAAATTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 13 0.32
17 18 0.45
18 3 0.08
19 3 0.08
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTCTTTTT
Found at i:41039058 original size:27 final size:26
Alignment explanation
Indices: 41039027--41039081 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
41039017 TATATATCTT
*
41039027 ATAAAC-ATACTAAAATTAATTTAATAA
1 ATAAACTATAC-AAAATTAAATTAA-AA
*
41039054 ATAAACTATACAATATTAAATTAAAA
1 ATAAACTATACAAAATTAAATTAAAA
41039080 AT
1 AT
41039082 TATAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAACTATACAAAATTAAATTAAAA
Found at i:41041991 original size:25 final size:25
Alignment explanation
Indices: 41041961--41042011 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
41041951 CAAAAACAAG
*
41041961 TTAACTCATATTCAAATGCTTGGGC
1 TTAACTCACATTCAAATGCTTGGGC
41041986 TTAACTCACATTCAAATGCTTGGGC
1 TTAACTCACATTCAAATGCTTGGGC
41042011 T
1 T
41042012 CTAAGCAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (25 bp):
TTAACTCACATTCAAATGCTTGGGC
Found at i:41050471 original size:20 final size:20
Alignment explanation
Indices: 41050446--41050485 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
41050436 TCACATACGA
41050446 CTAATTCTCAACCTTTAAAC
1 CTAATTCTCAACCTTTAAAC
41050466 CTAATTCTCAACCTTTAAAC
1 CTAATTCTCAACCTTTAAAC
41050486 TACTTAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (20 bp):
CTAATTCTCAACCTTTAAAC
Found at i:41051462 original size:23 final size:24
Alignment explanation
Indices: 41051431--41051477 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
41051421 AGTTAAAAAT
41051431 TATTGTATTAATATTTTACTTAGA
1 TATTGTATTAATATTTTACTTAGA
* *
41051455 TATT-TATTATTATTTTATTTAGA
1 TATTGTATTAATATTTTACTTAGA
41051478 AAATGGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTGTATTAATATTTTACTTAGA
Found at i:41054538 original size:13 final size:13
Alignment explanation
Indices: 41054520--41054544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41054510 GTGACAATTC
41054520 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
41054533 TTTTGAAAAGTG
1 TTTTGAAAAGTG
41054545 CTGTGGAATA
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:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:41054587 original size:13 final size:13
Alignment explanation
Indices: 41054554--41054589 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
41054544 GCTGTGGAAT
*
41054554 AGTGCTCTTGGGA
1 AGTGCTTTTGGGA
41054567 AGTGCTTTTGGGA
1 AGTGCTTTTGGGA
*
41054580 AGTTCTTTTG
1 AGTGCTTTTG
41054590 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.33, T:0.42
Consensus pattern (13 bp):
AGTGCTTTTGGGA
Found at i:41064006 original size:46 final size:44
Alignment explanation
Indices: 41063939--41064052 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 44
41063929 CTCTATCTGG
*
41063939 GACATGTCTAGGACATGCATCGGTCT-CGAGATGTAGGCCAGTGTAA
1 GACATGTCTAGGACATGCATCGGT-TACGAGATGT--GCCAGCGTAA
* *
41063985 GACATGTCTAGGACATGCATCGGTTACTAGATGTGTCAGCGTAA
1 GACATGTCTAGGACATGCATCGGTTACGAGATGTGCCAGCGTAA
*
41064029 GACCATGTCTGGGACATGGCATCG
1 GA-CATGTCTAGGACAT-GCATCG
41064053 ACACGTATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 10 0.16
45 14 0.23
46 37 0.61
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (44 bp):
GACATGTCTAGGACATGCATCGGTTACGAGATGTGCCAGCGTAA
Found at i:41064079 original size:48 final size:46
Alignment explanation
Indices: 41063977--41064144 Score: 150
Period size: 48 Copynumber: 3.6 Consensus size: 46
41063967 AGATGTAGGC
* *
41063977 CAGTGTAAGA-CATGTCTAGGACAT-GCATCG--GTTACTAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCAG-TA-TAGAGGTGT
*
41064021 CAGCGTAAGACCATGTCTGGGACATGGCATCGACACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG-CA-GTATAGAGGTGT
* * *
41064069 CAGTGTAAGACCATTTCTGGGACATGGCATCGGCA-TAGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GCAGT--ATA-GAG-GTGT
41064118 CTAGTGTAAGACCATGTCTGGGACATG
1 C-AGTGTAAGACCATGTCTGGGACATG
41064145 ACGTCTGCCT
Statistics
Matches: 104, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
44 9 0.09
45 13 0.12
46 7 0.07
48 42 0.40
49 6 0.06
50 27 0.26
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCAGTATAGAGGTGT
Found at i:41064182 original size:49 final size:50
Alignment explanation
Indices: 41064019--41064198 Score: 147
Period size: 50 Copynumber: 3.7 Consensus size: 50
41064009 TACTAGATGT
* * * * * *
41064019 GTCAGCGTAAGACCATGTCTGGGACATGGCATC-G-ACACGTAT-AGAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATACATATGTGA-GA
* * *
41064067 GTCAGTGTAAGACCATTTCTGGGACATGGCATCGGCATAGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATACATATGTGAGA
* * * *
41064117 G-CTAGTGTAAGACCATGTCTGGGACATGACGTCTGCCT-CA-ATGTCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGACATCGGCATACATATGT-GAGA
* * *
41064166 GTCAGTGTAAGACCATGTCAGAGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGACATC
41064199 AACTTGATGG
Statistics
Matches: 108, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
48 35 0.32
49 33 0.31
50 38 0.35
51 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATACATATGTGAGA
Found at i:41070794 original size:9 final size:9
Alignment explanation
Indices: 41070780--41070805 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41070770 AAAAGTCAAA
41070780 GTTTGGTGG
1 GTTTGGTGG
41070789 GTTTGGTGG
1 GTTTGGTGG
41070798 GTTTGGTG
1 GTTTGGTG
41070806 ACTAGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (9 bp):
GTTTGGTGG
Found at i:41071060 original size:22 final size:22
Alignment explanation
Indices: 41071032--41071077 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
41071022 ATTTTGCAAA
41071032 ATGGTTGATAGTCTAGGGATTT
1 ATGGTTGATAGTCTAGGGATTT
*
41071054 ATGGTTGATATTCTAGGGATTT
1 ATGGTTGATAGTCTAGGGATTT
41071076 AT
1 AT
41071078 CATGGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.43
Consensus pattern (22 bp):
ATGGTTGATAGTCTAGGGATTT
Found at i:41071850 original size:46 final size:49
Alignment explanation
Indices: 41071707--41072064 Score: 241
Period size: 46 Copynumber: 7.6 Consensus size: 49
41071697 TTGTGTACTT
* * *
41071707 GTGTAAGA-CATGTCTGGGACAT-GCATTGGCCAC-ATTATG-AGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCCA
* * ** * * *
41071753 GTGTAAGACCTTTTCTGGGACATGGCATCTACTTTGAGATG-AGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCCA
*
41071801 GTGTAAGA-CATGTCCGGGACAT-GCATCGGCCTCGAGATGTA-AGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCCA
* * *
41071847 GTGTAAGA-CATATCTGGGACAT-GCATCAG-CTACGAGATGT---GTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCCA
* * * *
41071891 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGAGCCA
* * * * **
41071941 GTGTAAGATCATGTCTGGGACATGGCGTCGGCCTC-A-ATTTTGATAGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA-TGT-AGAGCCA
** * * ** * *
41071990 GTGTAAGATTATCTCTAGGACATGGCATC-AACT--TGATGGATGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-GAGCCA
41072037 GTGTAAGACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
41072065 TGGCATTATA
Statistics
Matches: 245, Mismatches: 52, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
44 11 0.04
45 15 0.06
46 72 0.29
47 53 0.22
48 26 0.11
49 35 0.14
50 33 0.13
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (49 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCCA
Found at i:41071944 original size:94 final size:94
Alignment explanation
Indices: 41071707--41071964 Score: 262
Period size: 94 Copynumber: 2.8 Consensus size: 94
41071697 TTGTGTACTT
* * * * *
41071707 GTGTAAGACATGTCTGGGACATGCATTGGCCA-CAT-TATGAGAGCCAGTGTAAGACCTTTTCTG
1 GTGTAAGACATGTCTGGGACATGCATCGG-CATGATATGTGAGAGCCAGTGTAAGACCATATCTG
**
41071770 GGACATGGCATCTACTTTGAGATGAGAGCTA
65 GGACAT-GCATCTACTACGAGATGAGAGCTA
* * *
41071801 GTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGATGT-A-AGCCAGTGTAAGA-CATATCTG
1 GTGTAAGACATGTCTGGGACATGCATCGGCAT-GATATGTGAGAGCCAGTGTAAGACCATATCTG
* *
41071863 GGACATGCATC-AGCTACGAGATGTG-TC-A
65 GGACATGCATCTA-CTACGAGATGAGAGCTA
* * *
41071891 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAGTGTAAGATCATGTC
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT-GATATGTGAGAGCCAGTGTAAGACCATATC
41071956 TGGGACATG
63 TGGGACATG
41071965 GCGTCGGCCT
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
90 9 0.07
91 15 0.11
92 29 0.21
93 14 0.10
94 52 0.38
95 16 0.12
96 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCATGATATGTGAGAGCCAGTGTAAGACCATATCTGG
GACATGCATCTACTACGAGATGAGAGCTA
Found at i:41072051 original size:146 final size:138
Alignment explanation
Indices: 41071747--41072070 Score: 348
Period size: 146 Copynumber: 2.3 Consensus size: 138
41071737 CACATTATGA
* * ** * *
41071747 GAGCCAGTGTAAGACCTTTTCTGGGACATGGCATCTACTTTGAGATGAGAGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGATGAGAGCTAGTGTAAGACAT
* *
41071812 GTCCGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATATCTGGGACATGCATCAGC
66 GTCCGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATATCTAGGACATGCATCAAC
41071877 TACGAGAT
131 TACGAGAT
* * *
41071885 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAGTGTAAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGA--TGAGAGCTAGTGTAAGA-
* * * ** * *
41071950 CATGTCTGGGACATGGCGTCGGCCTC-A-ATTTTGATAGTTAGTGTAAGATTATCTCTAGGACAT
63 CATGTCCGGGACAT-GCATCGGCCTCGAGA-TGT-A-AGCCAGTGTAAGA-CATATCTAGGACAT
*
41072013 GGCATCAACT-TGATGGAT
123 -GCATCAACTACGA--GAT
*
41072031 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
41072071 TATACCCTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
138 36 0.24
140 18 0.12
141 16 0.10
142 11 0.07
143 11 0.07
144 13 0.08
145 8 0.05
146 40 0.26
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (138 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGATGAGAGCTAGTGTAAGACAT
GTCCGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATATCTAGGACATGCATCAAC
TACGAGAT
Found at i:41083643 original size:15 final size:15
Alignment explanation
Indices: 41083623--41083652 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41083613 TCTTTATTCT
41083623 TAGGCTAGATAATAA
1 TAGGCTAGATAATAA
41083638 TAGGCTAGATAATAA
1 TAGGCTAGATAATAA
41083653 AGAGATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
TAGGCTAGATAATAA
Found at i:41087179 original size:16 final size:16
Alignment explanation
Indices: 41087158--41087197 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
41087148 TTCATTAAGT
41087158 TTTTTTTTAAGATTCA
1 TTTTTTTTAAGATTCA
41087174 TTTTTTTTAAGATTCA
1 TTTTTTTTAAGATTCA
41087190 TTTGTTTT
1 TTT-TTTT
41087198 CCTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTTTTTTAAGATTCA
Found at i:41092346 original size:131 final size:131
Alignment explanation
Indices: 41092112--41092437 Score: 634
Period size: 131 Copynumber: 2.5 Consensus size: 131
41092102 AATTTAGGGC
41092112 TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAATA
1 TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAATA
41092177 GTCAAAGTATTAGGTGGATGATGTCATGATTTGGTGATAAAACAATGCCTAAAAGCCTAGCTATC
66 GTCAAAGTATTAGGTGGATGATGTCATGATTTGGTGATAAAACAATGCCTAAAAGCCTAGCTATC
41092242 A
131 A
41092243 TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAATA
1 TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAATA
41092308 GTCAAAGTATTAGGTGGATGATGTCATGATTTGGTGATAAAACAATGCCTAAAAGCCTAGCTATC
66 GTCAAAGTATTAGGTGGATGATGTCATGATTTGGTGATAAAACAATGCCTAAAAGCCTAGCTATC
41092373 A
131 A
* *
41092374 TTTTAAAGGGCAACTACACCCTTTTAATAGTGTTGGCCGGCAATGTGATGAATTTTAAACAAAT
1 TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAAT
41092438 GGGTGTTTCC
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 193 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (131 bp):
TTTTAAAGGGCAATTACACCCTTTTAATAGTGTTGGCCGGCCATGTGATGAATTTTAAACAAATA
GTCAAAGTATTAGGTGGATGATGTCATGATTTGGTGATAAAACAATGCCTAAAAGCCTAGCTATC
A
Found at i:41098030 original size:12 final size:12
Alignment explanation
Indices: 41098013--41098037 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41098003 ATGTAAGTGA
41098013 TCTTGATGATTT
1 TCTTGATGATTT
41098025 TCTTGATGATTT
1 TCTTGATGATTT
41098037 T
1 T
41098038 TACATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:41098914 original size:46 final size:45
Alignment explanation
Indices: 41098752--41098919 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
41098742 TGATTTGTGC
* *
41098752 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAATGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGA
* * * * * *
41098798 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-AACGAGG
1 GCCAATGTAAGA-CATGTCTGGGACAT-GCTTCGCCAT--ATTATGAGA
* * * *
41098846 GCTACTGTAAGACATGTTTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAATGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGA
*
41098892 GCCAAAGTAAGACATGTCTGGGACATGC
1 GCCAATGTAAGACATGTCTGGGACATGC
41098920 ATCGGCCTCG
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 44 0.45
47 34 0.35
48 18 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (45 bp):
GCCAATGTAAGACATGTCTGGGACATGCTTCGCCATATTATGAGA
Found at i:41099013 original size:44 final size:46
Alignment explanation
Indices: 41098755--41099013 Score: 117
Period size: 47 Copynumber: 5.6 Consensus size: 46
41098745 TTTGTGCGCC
* * * *
41098755 AGTGTAAGACATGTCTGGGACATGCTTCGG-C-CACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCACA-GA-GATAGCA
* ** *
41098801 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATC-CAAACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGAC-TCACAGA-GATAGCA
* * * * * *
41098849 ACTGTAAGACATGTTTGGGACATGCTTCAG-C-CATATTATGAGT-GCCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCACA-GA-GA-TAG-CA
* * *
41098896 A-AGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTC-ACAGAGATAGCA
* * * * * *
41098942 AGTGTAAGACGTGTCTGAGATACGCATC-GACT-A-AGAGTTGTGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCACAGAGAT-AGCA
*
41098986 AGTGTAAGATATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
41099014 AGCACGCATA
Statistics
Matches: 164, Mismatches: 35, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
43 5 0.03
44 27 0.16
45 1 0.01
46 49 0.30
47 54 0.33
48 23 0.14
49 4 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTCACAGAGATAGCA
Found at i:41107102 original size:218 final size:218
Alignment explanation
Indices: 41106724--41107122 Score: 735
Period size: 218 Copynumber: 1.8 Consensus size: 218
41106714 TTGGTTGTTA
*
41106724 AGCTCAAGAGCTTAGAGGATCAAAGTCGGATAGGGGAAAAGAGAAAGTAAACGAATAGCCGTGGA
1 AGCTCAAGAGCTTAGAGGATCAAAGTCGGATAAGGGAAAAGAGAAAGTAAACGAATAGCCGTGGA
*
41106789 TATCTAATCGTCGACCACTTCCGAGGTAAGTTTTAAGTGATTAAACGTTGAGTAAATTCAATTAT
66 TATCTAATCGTCGACCACTTCCGAGGTAAGTTTTAAGTGATTAAACGTTGAGTAAATTCAATCAT
*
41106854 AATAGGACATGATGAGTTGATTTAATAAGATATGATGTGGCCATGATATGTGTGATTGTGTTTGA
131 AATAGGACATAATGAGTTGATTTAATAAGATATGATGTGGCCATGATATGTGTGATTGTGTTTGA
41106919 TTGGGAAGTAAATTGTTTGATTT
196 TTGGGAAGTAAATTGTTTGATTT
* *
41106942 AGCTCAAGAGCTTAGAGGATCAAAGTCGGATAAGGGAAAAGCGAAAGTAAATGAATAGCCGTGGA
1 AGCTCAAGAGCTTAGAGGATCAAAGTCGGATAAGGGAAAAGAGAAAGTAAACGAATAGCCGTGGA
* *
41107007 TATCTAGTCGTCGACCACTTCTGAGGTAAGTTTTAAGTGATTAAACGTTGAGTAAATTCAATCAT
66 TATCTAATCGTCGACCACTTCCGAGGTAAGTTTTAAGTGATTAAACGTTGAGTAAATTCAATCAT
41107072 AATAGGACATAATGAGTTGATTTAATAAGATATGATGTGGCCATGATATGT
131 AATAGGACATAATGAGTTGATTTAATAAGATATGATGTGGCCATGATATGT
41107123 CTTAAACTCA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
218 174 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (218 bp):
AGCTCAAGAGCTTAGAGGATCAAAGTCGGATAAGGGAAAAGAGAAAGTAAACGAATAGCCGTGGA
TATCTAATCGTCGACCACTTCCGAGGTAAGTTTTAAGTGATTAAACGTTGAGTAAATTCAATCAT
AATAGGACATAATGAGTTGATTTAATAAGATATGATGTGGCCATGATATGTGTGATTGTGTTTGA
TTGGGAAGTAAATTGTTTGATTT
Found at i:41108205 original size:46 final size:46
Alignment explanation
Indices: 41108150--41108240 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
41108140 GAACATGTAT
* * *
41108150 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
41108196 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
41108241 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:41122274 original size:12 final size:12
Alignment explanation
Indices: 41122254--41122284 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41122244 CTTCCTCGAT
*
41122254 CACACGGCCTAC
1 CACATGGCCTAC
41122266 CACATGGCCTAC
1 CACATGGCCTAC
41122278 CACATGG
1 CACATGG
41122285 TCGTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.42, G:0.19, T:0.13
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:41124840 original size:27 final size:28
Alignment explanation
Indices: 41124810--41124883 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
41124800 CATCCATAGA
*
41124810 GGTAAGTCCGCTAGGACAATAAACAC-G
1 GGTAAGTCCACTAGGACAATAAACACGG
* * *
41124837 GGTAAGTCCACCAGAACAGTAAACACGG
1 GGTAAGTCCACTAGGACAATAAACACGG
* *
41124865 GGTAGGTCCATTAGGACAA
1 GGTAAGTCCACTAGGACAA
41124884 GGGAAATGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (28 bp):
GGTAAGTCCACTAGGACAATAAACACGG
Found at i:41135657 original size:95 final size:93
Alignment explanation
Indices: 41135496--41135688 Score: 350
Period size: 95 Copynumber: 2.1 Consensus size: 93
41135486 TGTGTGTGTA
41135496 ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
1 ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
*
41135561 ATGATTTATGATATTATCTAATCTTTCC
66 ATGATTTATGATAGTATCTAATCTTTCC
41135589 ATTTAAATAGTGAGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGT
1 ATTTAAATAGT--GAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGT
*
41135654 TTATGATTTATGATAGTATCTGATCTTTCC
64 TTATGATTTATGATAGTATCTAATCTTTCC
41135684 ATTTA
1 ATTTA
41135689 TATTATCTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
93 11 0.11
95 85 0.89
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (93 bp):
ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
ATGATTTATGATAGTATCTAATCTTTCC
Found at i:41142234 original size:11 final size:11
Alignment explanation
Indices: 41142218--41142242 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41142208 GTATTCTTTA
41142218 TTTTTTTTATT
1 TTTTTTTTATT
41142229 TTTTTTTTATT
1 TTTTTTTTATT
41142240 TTT
1 TTT
41142243 CACATGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:41145791 original size:35 final size:35
Alignment explanation
Indices: 41145752--41145822 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
41145742 GTTAATTAAT
41145752 TTAAATTAATTTGTCAAATTAATTATTCGATTCAC
1 TTAAATTAATTTGTCAAATTAATTATTCGATTCAC
41145787 TTAAATTAATTTGTCAAATTAATTATTCGATTCAC
1 TTAAATTAATTTGTCAAATTAATTATTCGATTCAC
41145822 T
1 T
41145823 GCTTATAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (35 bp):
TTAAATTAATTTGTCAAATTAATTATTCGATTCAC
Found at i:41152369 original size:13 final size:13
Alignment explanation
Indices: 41152351--41152375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41152341 GAGTATAAAT
41152351 GTAAATAAAATAA
1 GTAAATAAAATAA
41152364 GTAAATAAAATA
1 GTAAATAAAATA
41152376 CTAAAGAAAT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
GTAAATAAAATAA
Found at i:41153390 original size:15 final size:15
Alignment explanation
Indices: 41153370--41153403 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
41153360 CCGTTGCAAC
41153370 TTTAGGAAGATAAGG
1 TTTAGGAAGATAAGG
41153385 TTTAGGAAGATAAGG
1 TTTAGGAAGATAAGG
41153400 TTTA
1 TTTA
41153404 TGACTTTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (15 bp):
TTTAGGAAGATAAGG
Found at i:41153665 original size:45 final size:44
Alignment explanation
Indices: 41153600--41153999 Score: 156
Period size: 45 Copynumber: 8.6 Consensus size: 44
41153590 ATAATTTGTA
* * * * *
41153600 GCTTTAATCTATTCCACTGCAACATCAGGGAAATAATATTCGTTG
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATT-GGTG
* * * * *
41153645 TCTTCAATCTACTCCGCTGCAAGTTCAGGGAGATAAGGTTGGTG
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTGGTG
* * *
41153689 GCTTCAATCTACTCCATTGCAACTTCA-GGAAGATAAAATCCGCCACAATTTGTA
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAA-AT--AA---G-----ATTGGTG
** * * * *
41153743 GCTTCAATCTGTTCCATTGCAACTTCAGGGAAATGAGATTCGCTA
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATT-GGTG
* * * * * **
41153788 TCTTCAGTCTGCTCCACTGCAACTCCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTGGTG
* * * * * * *
41153832 GCGTCAATCTGCTCCATTGCAACTTTAGGAAGATAAGATTCACCATAATTTGTA
1 GCTTCAATCTACTCCACTGCAACTTCAGG--G--AA-A-T-A--A-GATTGGTG
** * *
41153886 GCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATT-GGTG
* * * * * **
41153931 TCTT-AAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTG
1 GCTTCAA-TCTACTCCACTGCAACTTCAGGGAAATAAGATTGGTG
*
41153975 GCTTCAATCTGCTCCACTGCAACTT
1 GCTTCAATCTACTCCACTGCAACTT
41154000 TAGAAAGATA
Statistics
Matches: 263, Mismatches: 66, Indels: 53
0.69 0.17 0.14
Matches are distributed among these distances:
43 3 0.01
44 84 0.32
45 97 0.37
46 3 0.01
47 1 0.00
48 2 0.01
49 4 0.02
50 3 0.01
51 1 0.00
52 2 0.01
53 1 0.00
54 58 0.22
55 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTGGTG
Found at i:41153678 original size:143 final size:143
Alignment explanation
Indices: 41153414--41154299 Score: 924
Period size: 143 Copynumber: 6.2 Consensus size: 143
41153404 TGACTTTGGC
* * * * * * *
41153414 CTGCTCTACTGCTACTTCA-GAGAGATAAGA--T-CCGTAACTTGTAGCTTTAATTTGCTCCACT
1 CTGCTCCACTGCAACTTCAGGA-AGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACT
* * * * * * * * * * * *
41153475 GCAACTTTAGAGAAATGAGATTCACTATATTCAGTTTGCTCCACTACAACTCCAAGGAGATAAGG
65 GCAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGG
41153540 CTGATGGCTTCAAT
130 CTGATGGCTTCAAT
* * *
41153554 CTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATAATTTGTAGCTTTAATCTATTCCACTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * * *
41153619 CAACATCAGGGAAATAATATTCGTTGTCTTCAATCTACTCCGCTGCAAGTTCAGGGAGATAAGGT
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
*
41153684 TGGTGGCTTCAAT
131 TGATGGCTTCAAT
* * * * * *
41153697 CTACTCCATTGCAACTTCAGGAAGATAAAATCCGCCACAATTTGTAGCTTCAATCTGTTCCATTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * *
41153762 CAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTCCAGGGAGATAAGGC
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
* *
41153827 TGGTGGCGTCAAT
131 TGATGGCTTCAAT
* * *
41153840 CTGCTCCATTGCAACTTTAGGAAGATAAGAT-TCACCATAATTTGTAGCTTCAATCTGTTCCACT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCT-GCCATAATTTGTAGCTTCAATCTGTTCCACT
* *
41153904 ACAACTTCAGGGAAATAAGATTCGCTGTCTT-AAGTCTGCTCCGCTGCAACTTCAAGGAGATAAG
65 GCAACTTCAGGGAAATAAGATTCGCTGTCTTCAA-TCTGCTCCGCTGCAACTTCAGGGAGATAAG
*
41153968 GCTGGTGGCTTCAAT
129 GCTGATGGCTTCAAT
* * * * * * * *
41153983 CTGCTCCACTGCAACTTTAGAAAGATAAGATCTACCTTAATTTATAACTTCAATTTGTTCCACTA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * * * *
41154048 CAACTTCAGAGAAATAAGATTCACTATCTTCAGTCTTCTCGGCTGCAACTTTAGGGAGATAAGGC
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
41154113 T-AGTGGCTTCAAT
131 TGA-TGGCTTCAAT
* * *
41154126 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGATTTAATCTGTTTCACTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * * * * * ** *
41154191 TAACATCAGGGAAGTAAGATTCACTGTCTTCGATCTGCTACACTGTAACTTCAATGAGATAAGAT
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAG-G
**
41154256 CT-ATAACTTCAAT
130 CTGATGGCTTCAAT
* * * *
41154269 CTGCTTCACTGCTACTTCAGGGAGATGAGAT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGAT
41154300 TTATGACTTC
Statistics
Matches: 626, Mismatches: 110, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
140 25 0.04
141 2 0.00
142 2 0.00
143 592 0.95
144 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (143 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGCTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
TGATGGCTTCAAT
Found at i:41153965 original size:286 final size:286
Alignment explanation
Indices: 41153452--41154253 Score: 1052
Period size: 286 Copynumber: 2.8 Consensus size: 286
41153442 GATCCGTAAC
* * * * *
41153452 TTGTAGCTTTAATTTGCTCCACTGCAACTTTAGAGAAATGAGATTCACTATATTCAGTTTGCTCC
1 TTGTAGCTTCAATTTGTTCCACTGCAACTTCAGAGAAATGAGATTCACTATCTTCAGTCTGCTCC
* * *
41153517 ACTACAACTCCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
66 ACTGCAACTCCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
* * * *
41153582 GATTTGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACATCAGGGAAATAATATTCGTTGTC
131 GATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGTC
* * * * *
41153647 TTCAA-TCTACTCCGCTGCAAGTTCAGGGAGATAAGGTTGGTGGCTTCAATCTACTCCATTGCAA
196 TT-AAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAA
* *
41153711 CTTCAGGAAGATAAAATCCGCCACAAT
260 CTTCAGAAAGATAAAATCCACCACAAT
* * * *
41153738 TTGTAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
1 TTGTAGCTTCAATTTGTTCCACTGCAACTTCAGAGAAATGAGATTCACTATCTTCAGTCTGCTCC
* * *
41153803 ACTGCAACTCCAGGGAGATAAGGCTGGTGGCGTCAATCTGCTCCATTGCAACTTTAGGAAGATAA
66 ACTGCAACTCCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
* * * *
41153868 GATTCACCATAATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGTC
131 GATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGTC
*
41153933 TTAAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAAC
196 TTAAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAAC
* * * **
41153998 TTTAGAAAGATAAGATCTACCTTAAT
261 TTCAGAAAGATAAAATCCACCACAAT
* * * * * *
41154024 TTATAACTTCAATTTGTTCCACTACAACTTCAGAGAAATAAGATTCACTATCTTCAGTCTTCTCG
1 TTGTAGCTTCAATTTGTTCCACTGCAACTTCAGAGAAATGAGATTCACTATCTTCAGTCTGCTCC
* ** *
41154089 GCTGCAACTTTAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
66 ACTGCAACTCCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
* * * * *
41154154 GA-TCTGCCATAATTTGTAGATTTAATCTGTTTCACTGTAACATCAGGGAAGTAAGATTCACTGT
131 GATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGT
* * * * *
41154218 CTT-CGATCTGCTACACTGTAACTTCAATGAGATAAG
195 CTTAAG-TCTGCTCCGCTGCAACTTCAAGGAGATAAG
41154254 ATCTATAACT
Statistics
Matches: 446, Mismatches: 67, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
285 5 0.01
286 441 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (286 bp):
TTGTAGCTTCAATTTGTTCCACTGCAACTTCAGAGAAATGAGATTCACTATCTTCAGTCTGCTCC
ACTGCAACTCCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
GATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTGTC
TTAAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAAC
TTCAGAAAGATAAAATCCACCACAAT
Found at i:41154252 original size:429 final size:429
Alignment explanation
Indices: 41153452--41154253 Score: 1048
Period size: 429 Copynumber: 1.9 Consensus size: 429
41153442 GATCCGTAAC
* * * * * * *
41153452 TTGTAGCTTTAATTTGCTCCACTGCAACTTTAGAGAAATGAGATTCACTATATTCAGTTTGCTCC
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATATTAAGTCTGCTCC
*
41153517 ACTACAACTCCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
66 ACTACAACTCCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
* * * * * * * * ** *
41153582 GATTTGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACATCAGGGAAATAATATTCGTTGTC
131 GATCTACCATAATTTATAACTTCAATCTATTCCACTACAACATCAGAGAAATAAGATTCACTATC
* * * *
41153647 TTCAATCTACTCCGCTGCAAGTTCAGGGAGATAAGGTTGGTGGCTTCAATCTACTCCATTGCAAC
196 TTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAAC
* * *
41153712 TTCAGGAAGATAAAATCCGCCACAATTTGTAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAAT
261 TTCAGGAAGATAAAATCCGCCACAATTTGTAGATTCAATCTGTTCCACTGCAACATCAGGGAAAT
* * * *
41153777 GAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTCCAGGGAGATAAGGCTGGTGGCGTCAATCT
326 AAGATTCACTATCTTCAGTCTGCTACACTGCAACTCCAAGGAGATAAGGCTGGTGGCGTCAATCT
41153842 GCTCCATTGCAACTTTAGGAAGATAAGATTCACCATAAT
391 GCTCCATTGCAACTTTAGGAAGATAAGATTCACCATAAT
* * * * *
41153881 TTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGTCTTAAGTCTGCTCC
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATATTAAGTCTGCTCC
* * * * *
41153946 GCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGAAAGATAA
66 ACTACAACTCCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
* * * *
41154011 GATCTACCTTAATTTATAACTTCAATTTGTTCCACTACAACTTCAGAGAAATAAGATTCACTATC
131 GATCTACCATAATTTATAACTTCAATCTATTCCACTACAACATCAGAGAAATAAGATTCACTATC
* * * * *
41154076 TTCAGTCTTCTCGGCTGCAACTTTAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAAC
196 TTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAAC
* * * * * * *
41154141 TTCAGGAAGATAAGATCTGCCATAATTTGTAGATTTAATCTGTTTCACTGTAACATCAGGGAAGT
261 TTCAGGAAGATAAAATCCGCCACAATTTGTAGATTCAATCTGTTCCACTGCAACATCAGGGAAAT
* * * *
41154206 AAGATTCACTGTCTTC-GATCTGCTACACTGTAACTTCAATGAGATAAG
326 AAGATTCACTATCTTCAG-TCTGCTACACTGCAACTCCAAGGAGATAAG
41154254 ATCTATAACT
Statistics
Matches: 312, Mismatches: 60, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
428 1 0.00
429 311 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (429 bp):
TTGTAGCTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATATTAAGTCTGCTCC
ACTACAACTCCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
GATCTACCATAATTTATAACTTCAATCTATTCCACTACAACATCAGAGAAATAAGATTCACTATC
TTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAAC
TTCAGGAAGATAAAATCCGCCACAATTTGTAGATTCAATCTGTTCCACTGCAACATCAGGGAAAT
AAGATTCACTATCTTCAGTCTGCTACACTGCAACTCCAAGGAGATAAGGCTGGTGGCGTCAATCT
GCTCCATTGCAACTTTAGGAAGATAAGATTCACCATAAT
Found at i:41154286 original size:44 final size:44
Alignment explanation
Indices: 41154218--41154331 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
41154208 GATTCACTGT
* * *
41154218 CTTCGATCTGCTACACTG-TAACTTCAATGAGATAAGATCTATAA
1 CTTCAATCTGCTTCACTGCT-ACTTCAAGGAGATAAGATCTATAA
* * * *
41154262 CTTCAATCTGCTTCACTGCTACTTCAGGGAGATGAGATTTATGA
1 CTTCAATCTGCTTCACTGCTACTTCAAGGAGATAAGATCTATAA
* *
41154306 CTTCAATCTAC-TCTATTGCTACTTCA
1 CTTCAATCTGCTTC-ACTGCTACTTCA
41154332 GAGGGATGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.03
44 56 0.95
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (44 bp):
CTTCAATCTGCTTCACTGCTACTTCAAGGAGATAAGATCTATAA
Found at i:41154332 original size:44 final size:45
Alignment explanation
Indices: 41154238--41154348 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 45
41154228 CTACACTGTA
* * * * *
41154238 ACTTCA-ATGAGATAAGATCTATAACTTCAATCTGCTTCACTGCT
1 ACTTCAGAGGAGATGAGATTTATGACTTCAATCTACTTCACTGCT
*
41154282 ACTTCAG-GGAGATGAGATTTATGACTTCAATCTAC-TCTATTGCT
1 ACTTCAGAGGAGATGAGATTTATGACTTCAATCTACTTC-ACTGCT
41154326 ACTTCAGAGG-GATGAGATTTATG
1 ACTTCAGAGGAGATGAGATTTATG
41154349 GATTCATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.03
44 54 0.93
45 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (45 bp):
ACTTCAGAGGAGATGAGATTTATGACTTCAATCTACTTCACTGCT
Found at i:41158686 original size:20 final size:20
Alignment explanation
Indices: 41158661--41158711 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
41158651 TCCTTTTGTG
*
41158661 AAATGCAATGCATATG-ATAA
1 AAATGCAATGCAGATGCAT-A
41158681 AAATGCAATGCAGATGCATA
1 AAATGCAATGCAGATGCATA
41158701 AAATG-AATGCA
1 AAATGCAATGCA
41158712 AAAAGAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (20 bp):
AAATGCAATGCAGATGCATA
Found at i:41168604 original size:639 final size:639
Alignment explanation
Indices: 41167386--41168606 Score: 2316
Period size: 639 Copynumber: 1.9 Consensus size: 639
41167376 TCATTTATTG
41167386 TGCTTAAAACACCTCGAGTGATTTAGTGAATCTTTAGTGAGGATGTGAAACTCTGTGATATTTCG
1 TGCTTAAAACACCTCGAGTGATTTAGTGAATCTTTAGTGAGGATGTGAAACTCTGTGATATTTCG
41167451 AATCAAAGGTAATTACTTAAATGATGAGAGACACCTGTGTTTTAAGGAGAAAATGCTCAACTTGG
66 AATCAAAGGTAATTACTTAAATGATGAGAGACACCTGTGTTTTAAGGAGAAAATGCTCAACTTGG
41167516 AATGTTTGAAACTTTTATGTTTTCTTTTAGTTGAATTCTCAATGTATGATTACCTATGAATTATT
131 AATGTTTGAAACTTTTATGTTTTCTTTTAGTTGAATTCTCAATGTATGATTACCTATGAATTATT
41167581 TTGAGATATTATCGATAGAAATTATAAGTTGAGAAAAATTTATTTTTGATTATGAGTTGAGAATT
196 TTGAGATATTATCGATAGAAATTATAAGTTGAGAAAAATTTATTTTTGATTATGAGTTGAGAATT
41167646 TTGCTTGAGGACAAGTAAATGCTTAAGTGTGGGGGTATTTGATAAACCATAATTTATACATATTT
261 TTGCTTGAGGACAAGTAAATGCTTAAGTGTGGGGGTATTTGATAAACCATAATTTATACATATTT
*
41167711 TTACCCCATGTTTAATGCATTTTATGGATGATTTCCTATTAGAATTGGTGAATTCGATACTCCTA
326 TTACCCCATGTTTAACGCATTTTATGGATGATTTCCTATTAGAATTGGTGAATTCGATACTCCTA
* *
41167776 ATGCTTTAATTTCATGTTTTATACTTAGGAGAGTATAAGAGAGCGAAAGGAACAAGAAACGGGGC
391 ATGCTTTAATTTCATGTTTTATACTTAGGAGAGCATAAGAGAGCGAAAGGAACAAGAAACGGGCC
* * * *
41167841 AAAATCGGAGAAATTGGGCTAAAGTACGAAATCAACATGGCCTGGACCTCCTCACACGGGCAGAC
456 AAAAACGGAGAAAATGGGCCAAAGTACGAAATCAACACGGCCTGGACCTCCTCACACGGGCAGAC
* *
41167906 CACACGGTCGTGTCAATTTGGCAGGCTCGAGCACGACTTGAAGTAATCGCACACGGGCGTGTTAT
521 CACACGGCCGTGTCAATTTGGCAGGCTCGAGCACGACCTGAAGTAATCGCACACGGGCGTGTTAT
41167971 ACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCGAAAAAGGCTAATTT
586 ACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCGAAAAAGGCTAATTT
41168025 TGCTTAAAACACCTCGAGTGATTTAGTGAATCTTTAGTGAGGATGTGAAACTCTGTGATATTTCG
1 TGCTTAAAACACCTCGAGTGATTTAGTGAATCTTTAGTGAGGATGTGAAACTCTGTGATATTTCG
41168090 AATCAAAGGTAATTACTTAAATGATGAGAGACACCTGTGTTTTAAGGAGAAAATGCTCAACTTGG
66 AATCAAAGGTAATTACTTAAATGATGAGAGACACCTGTGTTTTAAGGAGAAAATGCTCAACTTGG
41168155 AATGTTTGAAACTTTTATGTTTTCTTTTAGTTGAATTCTCAATGTATGATTACCTATGAATTATT
131 AATGTTTGAAACTTTTATGTTTTCTTTTAGTTGAATTCTCAATGTATGATTACCTATGAATTATT
*
41168220 TTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTTGATTATGAGTTGAGAATT
196 TTGAGATATTATCGATAGAAATTATAAGTTGAGAAAAATTTATTTTTGATTATGAGTTGAGAATT
41168285 TTGCTTGAGGACAAGTAAATGCTTAAGTGTGGGGGTATTTGATAAACCATAATTTATACATATTT
261 TTGCTTGAGGACAAGTAAATGCTTAAGTGTGGGGGTATTTGATAAACCATAATTTATACATATTT
*
41168350 TTACCCCATGTTTAACGCATTTTATGGATGATTTCCTATTAGAATTGGTGAATTCGATGCTCCTA
326 TTACCCCATGTTTAACGCATTTTATGGATGATTTCCTATTAGAATTGGTGAATTCGATACTCCTA
* *
41168415 ATGCTTTAATTTCATGTTTTATACTTAGGAGAGCATAGGAGAGCGAAAGGAACGAGAAACGGGCC
391 ATGCTTTAATTTCATGTTTTATACTTAGGAGAGCATAAGAGAGCGAAAGGAACAAGAAACGGGCC
41168480 AAAAACGGAGAAAATGGGCCAAAGTACGAAATCAACACGGCCTGGACCTCCTCACACGGGCAGAC
456 AAAAACGGAGAAAATGGGCCAAAGTACGAAATCAACACGGCCTGGACCTCCTCACACGGGCAGAC
*
41168545 CACACGGCCGTGTCAATTTGGCAGGCTCGAGCACGGCCTGAAGTAATCGCACACGGGCGTGT
521 CACACGGCCGTGTCAATTTGGCAGGCTCGAGCACGACCTGAAGTAATCGCACACGGGCGTGT
41168607 CCCTGCCGAG
Statistics
Matches: 568, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
639 568 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (639 bp):
TGCTTAAAACACCTCGAGTGATTTAGTGAATCTTTAGTGAGGATGTGAAACTCTGTGATATTTCG
AATCAAAGGTAATTACTTAAATGATGAGAGACACCTGTGTTTTAAGGAGAAAATGCTCAACTTGG
AATGTTTGAAACTTTTATGTTTTCTTTTAGTTGAATTCTCAATGTATGATTACCTATGAATTATT
TTGAGATATTATCGATAGAAATTATAAGTTGAGAAAAATTTATTTTTGATTATGAGTTGAGAATT
TTGCTTGAGGACAAGTAAATGCTTAAGTGTGGGGGTATTTGATAAACCATAATTTATACATATTT
TTACCCCATGTTTAACGCATTTTATGGATGATTTCCTATTAGAATTGGTGAATTCGATACTCCTA
ATGCTTTAATTTCATGTTTTATACTTAGGAGAGCATAAGAGAGCGAAAGGAACAAGAAACGGGCC
AAAAACGGAGAAAATGGGCCAAAGTACGAAATCAACACGGCCTGGACCTCCTCACACGGGCAGAC
CACACGGCCGTGTCAATTTGGCAGGCTCGAGCACGACCTGAAGTAATCGCACACGGGCGTGTTAT
ACGGGCGTGTCCCTACCGAGCCCAAGTTGAGTCCAATTCGAAAAAGGCTAATTT
Found at i:41173428 original size:13 final size:13
Alignment explanation
Indices: 41173410--41173435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41173400 CAGGTACGAA
41173410 TGGCGACGTGGAG
1 TGGCGACGTGGAG
41173423 TGGCGACGTGGAG
1 TGGCGACGTGGAG
41173436 CGTACAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.54, T:0.15
Consensus pattern (13 bp):
TGGCGACGTGGAG
Found at i:41179015 original size:19 final size:19
Alignment explanation
Indices: 41178991--41179029 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41178981 CCTTTGAGAA
41178991 GGTGGATGAATGTTAGAGT
1 GGTGGATGAATGTTAGAGT
41179010 GGTGGATGAATGTTAGAGT
1 GGTGGATGAATGTTAGAGT
41179029 G
1 G
41179030 AAGAGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.31
Consensus pattern (19 bp):
GGTGGATGAATGTTAGAGT
Found at i:41181445 original size:15 final size:15
Alignment explanation
Indices: 41181425--41181463 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
41181415 AATAAGAATA
41181425 ATTAATTTAAAA-ATT
1 ATTAA-TTAAAATATT
41181440 ATTAATTAAAATATT
1 ATTAATTAAAATATT
41181455 ATT-ATTAAA
1 ATTAATTAAA
41181464 TCTTCAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATTAAAATATT
Found at i:41187372 original size:16 final size:18
Alignment explanation
Indices: 41187351--41187383 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
41187341 TCAAAGCGAA
41187351 AAATAA-AGT-CCAAAAC
1 AAATAACAGTCCCAAAAC
41187367 AAATAACAGTCCCAAAA
1 AAATAACAGTCCCAAAA
41187384 TGTCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.61, C:0.21, G:0.06, T:0.12
Consensus pattern (18 bp):
AAATAACAGTCCCAAAAC
Found at i:41193612 original size:8 final size:9
Alignment explanation
Indices: 41193591--41193616 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
41193581 TGGTGTTAGT
41193591 TTTTTGATG
1 TTTTTGATG
41193600 TTTTTGATG
1 TTTTTGATG
41193609 TTTTTGAT
1 TTTTTGAT
41193617 ATCCTTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (9 bp):
TTTTTGATG
Found at i:41194416 original size:42 final size:42
Alignment explanation
Indices: 41194335--41194498 Score: 132
Period size: 42 Copynumber: 3.9 Consensus size: 42
41194325 GATATGGAAT
* * * *
41194335 TGGCATCGTTATGTG-TTATCATGTAAGACCATATTTGGGATA
1 TGGCATCGATATGAGATT-TCATGTAAGACCACATCTGGGATA
* * * *
41194377 TGGCGTTGATATGAGATTTCATGTAAGACCACGTCTGGGACA
1 TGGCATCGATATGAGATTTCATGTAAGACCACATCTGGGATA
* * * * * *
41194419 TAGCATCGAAATGAGATTTTCGTATAAGACCATATCTAGGATA
1 TGGCATCGATATGAGA-TTTCATGTAAGACCACATCTGGGATA
* ** * *
41194462 TGGCATCGATGTGAGATCCCATGCAAGACCACGTCTG
1 TGGCATCGATATGAGATTTCATGTAAGACCACATCTG
41194499 AGACATAGCA
Statistics
Matches: 91, Mismatches: 29, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
42 56 0.62
43 35 0.38
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGATTTCATGTAAGACCACATCTGGGATA
Found at i:41194477 original size:43 final size:43
Alignment explanation
Indices: 41194308--41194478 Score: 130
Period size: 42 Copynumber: 3.9 Consensus size: 43
41194298 TGAGATCCCG
* * *
41194308 TATAAGACCATATCTGGGATATGGAATTGGCATCGTTATGTG-TTATCA
1 TATAAGACCATATCTGGG--AT---A-TGGCATCGATATGAGATTTTCA
* * * *
41194356 TGTAAGACCATATTTGGGATATGGCGTTGATATGAGA-TTTCA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
* ** * * * *
41194398 TGTAAGACCACGTCTGGGACATAGCATCGAAATGAGATTTTCG
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
* *
41194441 TATAAGACCATATCTAGGATATGGCATCGATGTGAGAT
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAT
41194479 CCCATGCAAG
Statistics
Matches: 97, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
42 44 0.45
43 35 0.36
46 2 0.02
48 16 0.16
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (43 bp):
TATAAGACCATATCTGGGATATGGCATCGATATGAGATTTTCA
Found at i:41203455 original size:42 final size:43
Alignment explanation
Indices: 41203396--41203495 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
41203386 TGTGTTATCA
* * * ** *
41203396 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGA-TTTCG
1 TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
*
41203438 TGTAAGACCACGTCTGGGACATGGCATCAAAATGAGATTTTCG
1 TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
* *
41203481 TATAAGACCATATCT
1 TGTAAGACCACATCT
41203496 AGGATATGAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 30 0.64
43 17 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATGGCATCAAAATGAGATTTTCG
Found at i:41206581 original size:15 final size:15
Alignment explanation
Indices: 41206561--41206592 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41206551 CATTTCACTA
*
41206561 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
41206576 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
41206591 TT
1 TT
41206593 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:41215568 original size:10 final size:10
Alignment explanation
Indices: 41215555--41215584 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
41215545 ATTATTTTTT
*
41215555 TATTTTTAAA
1 TATTATTAAA
41215565 TATTATTAAA
1 TATTATTAAA
41215575 TATTATTAAA
1 TATTATTAAA
41215585 ATATCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATTAAA
Found at i:41215789 original size:20 final size:20
Alignment explanation
Indices: 41215766--41215815 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
41215756 ATTACTTATT
*
41215766 TATAAAATTTATTTTAAATA
1 TATAAAATATATTTTAAATA
*
41215786 TATAAACTATATTTTAAATA
1 TATAAAATATATTTTAAATA
*
41215806 T-TTAAATATA
1 TATAAAATATA
41215816 ACCATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAAAATATATTTTAAATA
Found at i:41216343 original size:21 final size:23
Alignment explanation
Indices: 41216319--41216369 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
41216309 TAACAATAAT
41216319 TCTATAAAAT-TAAAAAT-TATA
1 TCTATAAAATATAAAAATATATA
41216340 TCTA-AAAATATAAAAATATATA
1 TCTATAAAATATAAAAATATATA
*
41216362 TCTTTAAA
1 TCTATAAA
41216370 GTCATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 11 0.42
22 7 0.27
23 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TCTATAAAATATAAAAATATATA
Found at i:41216908 original size:37 final size:37
Alignment explanation
Indices: 41216858--41216934 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
41216848 AAACTGCTTC
41216858 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
1 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
*
41216895 TAAATATCACAAGAAAGCAATTTTACACGAAAGAAAT
1 TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
41216932 TAA
1 TAA
41216935 CTTCAGAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (37 bp):
TAAATATCACAAGAAAGCAATCTTACACGAAAGAAAT
Found at i:41216916 original size:21 final size:21
Alignment explanation
Indices: 41216858--41216916 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
41216848 AAACTGCTTC
41216858 TAAATATCACAAGAAAGCAAT
1 TAAATATCACAAGAAAGCAAT
*
41216879 CT---TA-CAC--GAAAGAAAT
1 -TAAATATCACAAGAAAGCAAT
41216895 TAAATATCACAAGAAAGCAAT
1 TAAATATCACAAGAAAGCAAT
41216916 T
1 T
41216917 TTACACGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 13
0.66 0.05 0.30
Matches are distributed among these distances:
15 1 0.03
16 8 0.28
18 5 0.17
19 5 0.17
21 9 0.31
22 1 0.03
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.20
Consensus pattern (21 bp):
TAAATATCACAAGAAAGCAAT
Found at i:41220579 original size:12 final size:13
Alignment explanation
Indices: 41220564--41220595 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
41220554 ATAACACATT
41220564 TCAAAAC-ATGCA
1 TCAAAACTATGCA
41220576 TCAAAACTATGCA
1 TCAAAACTATGCA
41220589 -CAAAACT
1 TCAAAACT
41220596 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:41222317 original size:18 final size:18
Alignment explanation
Indices: 41222295--41222348 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
41222285 CAATTCTTTT
41222295 TTCTTCTTCTTTTCTC-C
1 TTCTTCTTCTTTTCTCTC
*
41222312 TCTCTTCATCTATTT-TCTC
1 T-TCTTCTTCT-TTTCTCTC
41222331 TTCTTCTTCTTTTC-CTC
1 TTCTTCTTCTTTTCTCTC
41222348 T
1 T
41222349 ATAGCCGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 8 0.26
18 18 0.58
19 5 0.16
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCTTCTTCTTTTCTCTC
Found at i:41223612 original size:28 final size:28
Alignment explanation
Indices: 41223572--41223659 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
41223562 GGAGGAAGCG
41223572 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
41223600 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
41223628 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
41223654 TTCTGG
1 TTCTGG
41223660 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.09
27 8 0.14
28 43 0.77
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:41224693 original size:42 final size:42
Alignment explanation
Indices: 41224568--41224949 Score: 254
Period size: 43 Copynumber: 9.0 Consensus size: 42
41224558 TACAGTTTTA
* *
41224568 TACGAAAACAAATACGATGCCGATTGTCCCAGACATGGTCTTA
1 TACGAAAACAGATACGATGCCGA-TGTCCCAGACATGGTCTTT
* ** * ** *
41224611 CACGTAATTCAG-TATCGTTGCCTCTGTCCCAGACAGGGTCTTT
1 TACG-AAAACAGATA-CGATGCCGATGTCCCAGACATGGTCTTT
* * *
41224654 TATGAAAACAGATACAATGCCGATGTCCCAGACATGGTCTTA
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTT
* ** * ** *
41224696 CACGTAATTCA-ATACCGTTGCCTCTGTCCCAGACAGGGTCTTT
1 TACG-AAAACAGATA-CGATGCCGATGTCCCAGACATGGTCTTT
** * *
41224739 TACGAAAACAGATACGATGTTGATGTCCCAAACATGGTCTTA
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTT
* ** **
41224781 CACGTAATTCAG-TATC-ATTGCCTCTGTCCCAGACA-GAGTCTTT
1 TACG-AAAACAGATA-CGA-TGCCGATGTCCCAGACATG-GTCTTT
*
41224824 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTA
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTT
* ** * ** * * *
41224866 CACGTAATTCAG-TATCGTTGCCTCTATCCCAAACAGGGTCTTT
1 TACG-AAAACAGATA-CGATGCCGATGTCCCAGACATGGTCTTT
* * *
41224909 TACGAAAACAGATACGATGCCGATGCCCCAGGCATAGTCTT
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTT
41224950 ACATGTAATT
Statistics
Matches: 246, Mismatches: 77, Indels: 33
0.69 0.22 0.09
Matches are distributed among these distances:
42 117 0.48
43 119 0.48
44 10 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTT
Found at i:41224715 original size:85 final size:85
Alignment explanation
Indices: 41224568--41224959 Score: 631
Period size: 85 Copynumber: 4.6 Consensus size: 85
41224558 TACAGTTTTA
*
41224568 TACGAAAACAAATACGATGCCGATTGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCC
1 TACGAAAACAGATACGATGCCGA-TGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCC
41224633 TCTGTCCCAGACAGGGTCTTT
65 TCTGTCCCAGACAGGGTCTTT
* * * *
41224654 TATGAAAACAGATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATACCGTTGCCT
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCT
41224719 CTGTCCCAGACAGGGTCTTT
66 CTGTCCCAGACAGGGTCTTT
** * *
41224739 TACGAAAACAGATACGATGTTGATGTCCCAAACATGGTCTTACACGTAATTCAGTATCATTGCCT
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCT
*
41224804 CTGTCCCAGACAGAGTCTTT
66 CTGTCCCAGACAGGGTCTTT
41224824 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCT
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCT
* *
41224889 CTATCCCAAACAGGGTCTTT
66 CTGTCCCAGACAGGGTCTTT
* * * *
41224909 TACGAAAACAGATACGATGCCGATGCCCCAGGCATAGTCTTACATGTAATT
1 TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATT
41224960 TAGATCATTA
Statistics
Matches: 281, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
85 261 0.93
86 20 0.07
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (85 bp):
TACGAAAACAGATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAGTATCGTTGCCT
CTGTCCCAGACAGGGTCTTT
Found at i:41227339 original size:31 final size:31
Alignment explanation
Indices: 41227304--41227363 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
41227294 TATAAAACCT
41227304 TTGGCCAACCCATGTGGCCCACACAGCCTAC
1 TTGGCCAACCCATGTGGCCCACACAGCCTAC
41227335 TTGGCCAACCCATGTGGCCCACACAGCCT
1 TTGGCCAACCCATGTGGCCCACACAGCCT
41227364 TACACATGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.17
Consensus pattern (31 bp):
TTGGCCAACCCATGTGGCCCACACAGCCTAC
Found at i:41230563 original size:32 final size:32
Alignment explanation
Indices: 41230522--41230584 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
41230512 TACGCAACAA
41230522 CTTAGTTAGATGAATTGTGATAAGTGAAAATG
1 CTTAGTTAGATGAATTGTGATAAGTGAAAATG
41230554 CTTAGTTAGATGAATTGTGATAAGTGAAAAT
1 CTTAGTTAGATGAATTGTGATAAGTGAAAAT
41230585 CCCTAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (32 bp):
CTTAGTTAGATGAATTGTGATAAGTGAAAATG
Found at i:41230881 original size:25 final size:25
Alignment explanation
Indices: 41230847--41230896 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
41230837 TCTTAAAGTA
41230847 TACCAAAATGTTGTTGATGAATACC
1 TACCAAAATGTTGTTGATGAATACC
41230872 TACCAAAATGTTGTTGATGAATACC
1 TACCAAAATGTTGTTGATGAATACC
41230897 ACGATGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
TACCAAAATGTTGTTGATGAATACC
Found at i:41234250 original size:21 final size:21
Alignment explanation
Indices: 41234206--41234250 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
41234196 TAATAGATAT
* *
41234206 AGATCATACACAATATTTTTC
1 AGATCATACACAATATATTAC
* *
41234227 AGATCATACATAGTATATTAC
1 AGATCATACACAATATATTAC
41234248 AGA
1 AGA
41234251 ATTTACTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (21 bp):
AGATCATACACAATATATTAC
Found at i:41235193 original size:19 final size:19
Alignment explanation
Indices: 41235165--41235213 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
41235155 AATAAAATAA
* *
41235165 AATAAAATAATAGTATTTT
1 AATAAAATAACACTATTTT
*
41235184 AATAATATAACACTATTTT
1 AATAAAATAACACTATTTT
*
41235203 ATTTAAAATAA
1 A-ATAAAATAA
41235214 AATCAAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAAAATAACACTATTTT
Found at i:41235868 original size:7 final size:7
Alignment explanation
Indices: 41235853--41235883 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
41235843 CCACATAAAC
*
41235853 ATTAACA
1 ATTACCA
41235860 ATTACCA
1 ATTACCA
41235867 ATTACCA
1 ATTACCA
41235874 ATTACCA
1 ATTACCA
41235881 ATT
1 ATT
41235884 TTCTCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (7 bp):
ATTACCA
Found at i:41240716 original size:18 final size:18
Alignment explanation
Indices: 41240695--41240732 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41240685 ATAAAGTAAT
41240695 TAAAAATAATAC-TATATA
1 TAAAAAT-ATACTTATATA
*
41240713 TAAATATATACTTATATA
1 TAAAAATATACTTATATA
41240731 TA
1 TA
41240733 CATATATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAATATACTTATATA
Found at i:41240799 original size:252 final size:252
Alignment explanation
Indices: 41240534--41241049 Score: 797
Period size: 252 Copynumber: 2.0 Consensus size: 252
41240524 ACATAATAAC
* * *
41240534 AATATTAAAATAAAGTAATTAGAAATAATACTATGTATAAATATATA-TACATATATACCTATAT
1 AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACT-CATATATACATATAT
** * * * *
41240598 AGTAAAAACT-TACACTAATAATAATAATAATAATAATACTAGCAATAATAATGAAATACAAAAA
65 AACAAAAA-TATACACTAACAATAATAATAATAATAATAATAGCAATAATAATAAAATAAAAAAA
* *
41240662 CCAAATATAATA-ATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACT-
129 CCAAATATAATATA-AATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATA-TA
* *
41240725 TATATATACATATATAACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAAT
192 TACATATACACATATAACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAAT
*
41240786 AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATATATA
1 AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTCATATATACATATATA
* * * * *
41240851 ACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAATAATATTAAAATAAAAAAAGC
66 ACAAAAATATACACTAACAATAATAATAATAATAATAATAGCAATAATAATAAAATAAAAAAACC
41240916 AAATATAATATAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATATATACA
131 AAATATAATATAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATATATACA
41240981 TATACACATATAACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAAT
196 TATACACATATAACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAAT
41241038 AATATTAAAATA
1 AATATTAAAATA
41241050 CAAAAAGCAA
Statistics
Matches: 241, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
251 2 0.01
252 237 0.98
253 2 0.01
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.32
Consensus pattern (252 bp):
AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTCATATATACATATATA
ACAAAAATATACACTAACAATAATAATAATAATAATAATAGCAATAATAATAAAATAAAAAAACC
AAATATAATATAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATATATACA
TATACACATATAACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAAT
Found at i:41240826 original size:18 final size:18
Alignment explanation
Indices: 41240805--41240842 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41240795 ATAAAGTAAT
41240805 TAAAAATAATAC-TATATA
1 TAAAAAT-ATACTTATATA
*
41240823 TAAATATATACTTATATA
1 TAAAAATATACTTATATA
41240841 TA
1 TA
41240843 CATATATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAATATACTTATATA
Found at i:41240925 original size:110 final size:110
Alignment explanation
Indices: 41240672--41240909 Score: 476
Period size: 110 Copynumber: 2.2 Consensus size: 110
41240662 CCAAATATAA
41240672 TAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATA
1 TAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATA
41240737 TATAACAAAAATATACACTAACATTAATAATAATAATGATAATAG
66 TATAACAAAAATATACACTAACATTAATAATAATAATGATAATAG
41240782 TAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATA
1 TAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATA
41240847 TATAACAAAAATATACACTAACATTAATAATAATAATGATAATAG
66 TATAACAAAAATATACACTAACATTAATAATAATAATGATAATAG
41240892 TAATAATATTAAAATAAA
1 TAATAATATTAAAATAAA
41240910 AAAAGCAAAT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 128 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.34
Consensus pattern (110 bp):
TAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATA
TATAACAAAAATATACACTAACATTAATAATAATAATGATAATAG
Found at i:41240938 original size:142 final size:139
Alignment explanation
Indices: 41240786--41241314 Score: 725
Period size: 142 Copynumber: 3.8 Consensus size: 139
41240776 TAATAGTAAT
* *
41240786 AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATATATA
1 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATA--TACATATACATATATA
*
41240851 ACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAATAATATTAAAATAAAAAAAGC
64 ACAAAAATATACACT-ACATTAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGC
41240916 AAATATAATATA
128 AAATATAATATA
* *
41240928 AATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATATATACATATACACATATA
1 AATATTAAAATAAAGTAATAAAAAATAATACTATATAT-AA-ATATATATACATATACATATATA
41240993 ACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGC
64 ACAAAAATATACACT-ACATTAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGC
41241058 AAATATAATATA
128 AAATATAATATA
* * *
41241070 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAACATATATACATATACGTATATAAT
1 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATACATATACATATATAAC
* * * *
41241135 AAAAGTGTACACTA-A-T-AT-ATAAT-A--ATAATAATAATAATATTGAAATACAAAAAGCAAA
66 AAAAATATACACTACATTAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAA
*
41241193 TATAATAAA
131 TATAATATA
* *
41241202 AATATTAAAATAAAGTAATTAAAAAATAATACTGTGTATAAATATGA-ATACATATACATATATA
1 AATATTAAAATAAAGTAA-TAAAAAATAATACTATATATAAATAT-ATATACATATACATATATA
* * * *
41241266 ATAAAAAATATATACTACTACTAATAATAATAATAATAAT-GATAATAAT
64 A-CAAAAATATACACTAC-ATTAATAATAATAATGATAATAG-TAATAAT
41241315 GATAATGGTG
Statistics
Matches: 349, Mismatches: 24, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
132 58 0.17
133 40 0.11
134 13 0.04
135 5 0.01
136 3 0.01
137 2 0.01
138 3 0.01
139 6 0.02
140 33 0.09
141 2 0.01
142 175 0.50
143 2 0.01
144 7 0.02
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (139 bp):
AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATACATATACATATATAAC
AAAAATATACACTACATTAATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAA
TATAATATA
Found at i:41240956 original size:32 final size:32
Alignment explanation
Indices: 41240872--41241099 Score: 111
Period size: 32 Copynumber: 6.5 Consensus size: 32
41240862 CACTAACATT
41240872 AATAATAATAATGATAATAGTAATAATATTAAAATAA
1 AATAATAA-AAT-ATAATA-T-A-AATATTAAAATAA
* **
41240909 AAAAAGCAAATATAATATAAATATTAAAATAA
1 AATAATAAAATATAATATAAATATTAAAATAA
* *
41240941 AATAATAAAAAATAATACTATATA-TAAATATATA
1 AATAATAAAATATAATA-TAAATATTAAA-ATA-A
* * * * *
41240975 TATACATATACACATATAACAAAAATA-TACACTAACATT
1 AATA-ATA-A-A-ATATAATATAAATATTA-A--AATA-A
41241014 AATAATAATAATGATAATAGTAATAATATTAAAATACA
1 AATAATAA-AAT-ATAATA-T-A-AATATTAAAATA-A
**
41241052 AA-AAGCAAATATAATATAAATATTAAAATAA
1 AATAATAAAATATAATATAAATATTAAAATAA
* *
41241083 AGTAATAAAAAATAATA
1 AATAATAAAATATAATA
41241100 CTATATATAA
Statistics
Matches: 147, Mismatches: 28, Indels: 37
0.69 0.13 0.17
Matches are distributed among these distances:
31 2 0.01
32 53 0.36
33 10 0.07
34 6 0.04
35 15 0.10
36 9 0.06
37 22 0.15
38 15 0.10
39 7 0.05
40 6 0.04
41 2 0.01
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (32 bp):
AATAATAAAATATAATATAAATATTAAAATAA
Found at i:41241265 original size:133 final size:132
Alignment explanation
Indices: 41240480--41241305 Score: 670
Period size: 142 Copynumber: 6.2 Consensus size: 132
41240470 GATGATAAGG
* ** * *
41240480 ATAATAATACTAGCAATAATAATGAAATACAAAAAGCAAATATAACATAATAACAATATTAAAAT
1 ATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATAT-A-AT-A-AA-AATATTAAAAT
* * * * * * *
41240545 AAAGTAATTAGAAATAATACTATGTATAAATATATATACATATATACCTATATAGTAAAAACT-T
61 AAAGTAATAAAAAATAATACTATATATAAACATATATAC--ATATACATATATAATAAAAAATAT
41240609 ACACTAATA
124 ACACTAATA
* * *
41240618 ATAATAATAATAATAATACTAGCAATAATAATGAAATACAAAAACCAAATATAATAATAATATTA
1 ATAATAATAATAAT-A-A-T---AAT-AT--TAAAATACAAAAAGCAAATATAATAAAAATATTA
* * * *
41240683 AAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATATATAA-CAAAA
57 AAATAAAGTAATAAAAAATAATACTATATATAAACATATA--TACATATACATATATAATAAAAA
*
41240747 ATATACACTAACA
120 ATATACACTAATA
* * * ** * * * * *
41240760 TTAATAATAATAATGATAATAGTAATAATATTAAAA-TAAAGTA-ATTAAAAATA--ATACTATA
1 ATAATAATAATAATAATAATATTAA-AATACAAAAAGCAAA-TATAATAAAAATATTAAAATAAA
* * * * * * *
41240821 -T-AT-AAATAT-ATACT-TATATATACATATATAACA-A-AAATATACACT-AACATTAATA-A
64 GTAATAAAAAATAATACTATATATAAACATATAT-ACATATACATATATAATAAAAAAT-ATACA
41240877 -TAATA
127 CTAATA
* * * * *
41240882 ATGATAATAGTAAT-A--ATATTAAAATAAAAAAAGCAAATATAATATAAATATTAAAATAAAAT
1 ATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAGT
* * *
41240944 AATAAAAAATAATACTATATATAAATATATATATACATATACACATATAA-CAAAAATATACACT
66 AATAAAAAATAATACTATATAT-AA-ACATATATACATATACATATATAATAAAAAATATACACT
41241008 AACATTA
129 -A-A-TA
*
41241015 ATAATAATAATGATAATAGTAATAATATTAAAATACAAAAAGCAAATATAATATAAATATTAAAA
1 ATAATAAT-A--AT-A-A-TAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAAAA
* * *
41241080 TAAAGTAATAAAAAATAATACTATATATAAACATATATACATATACGTATATAAT-AAAAGTGTA
60 TAAAGTAATAAAAAATAATACTATATATAAACATATATACATATACATATATAATAAAAAATATA
41241144 CACTAATA
125 CACTAATA
*
41241152 TATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAG
1 -ATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAG
* * * *
41241217 TAATTAAAAAATAATACTGTGTATAAATATGA-ATACATATACATATATAATAAAAAATATATAC
65 TAA-TAAAAAATAATACTATATATAAACAT-ATATACATATACATATATAATAAAAAATATACAC
*
41241281 TACTA
128 TAATA
*
41241286 CTAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
41241306 GATAATAATG
Statistics
Matches: 561, Mismatches: 77, Indels: 105
0.76 0.10 0.14
Matches are distributed among these distances:
118 10 0.02
119 17 0.03
121 6 0.01
122 16 0.03
123 14 0.02
124 10 0.02
125 7 0.01
126 17 0.03
127 9 0.02
128 16 0.03
129 13 0.02
130 2 0.00
131 6 0.01
132 53 0.09
133 83 0.15
134 26 0.05
135 3 0.01
136 4 0.01
137 4 0.01
138 21 0.04
139 4 0.01
140 35 0.06
141 8 0.01
142 146 0.26
143 1 0.00
144 6 0.01
145 3 0.01
146 1 0.00
147 20 0.04
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.31
Consensus pattern (132 bp):
ATAATAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAGT
AATAAAAAATAATACTATATATAAACATATATACATATACATATATAATAAAAAATATACACTAA
TA
Found at i:41241275 original size:274 final size:282
Alignment explanation
Indices: 41240786--41241314 Score: 740
Period size: 274 Copynumber: 1.9 Consensus size: 282
41240776 TAATAGTAAT
* * *
41240786 AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATACTTATATATACATATATA
1 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAACATATAC-TACATATACATATATA
*
41240851 ACAAAAATATACACTAACATTAATAATAATAATGATAATAGTAATAATATTAAAATAAAAAAAGC
65 ACAAAAATATACACTAACATTAATAATAATAA-GATAATAATAATAATATTAAAATAAAAAAAGC
* *
41240916 AAATATAATATAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATATATATACA
129 AAATATAATAAAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATAGATATACA
* * *
41240981 TATACACATATAACAAAAATATACACTAAC-ATTAATAATAATAATGATAAT-AGTAATAATATT
194 TATACACATATAAAAAAAATATACACT-ACTACTAATAATAATAATAATAATGA-TAATAATATT
41241044 AAAATACAAAAAGCAAATATAATATA
257 AAAATACAAAAAGCAAATATAATATA
*
41241070 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAACATATA-TACATATACGTATATAA
1 AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAACATATACTACATATACATATATAA
* * * * *
41241134 TAAAAGTGTACACT-A-A-T-AT-ATAAT-A-ATAATAATAATAATATTGAAATACAAAAAGCAA
66 CAAAAATATACACTAACATTAATAATAATAAGATAATAATAATAATATTAAAATAAAAAAAGCAA
* * *
41241192 ATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTGTGTATAAATAT-GA-ATACAT
131 ATATAATAAAAATATTAAAATAAAATAA-TAAAAAATAATACTATATATAAATATAGATATACAT
* *
41241255 ATACATATATAATAAAAAATATATACTACTACTAATAATAATAATAATAATGATAATAAT
195 ATACACATATAA-AAAAAATATACACTACTACTAATAATAATAATAATAATGATAATAAT
41241315 GATAATGGTG
Statistics
Matches: 221, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
273 19 0.09
274 95 0.43
275 25 0.11
276 1 0.00
277 5 0.02
278 2 0.01
279 1 0.00
280 1 0.00
281 1 0.00
282 26 0.12
284 45 0.20
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (282 bp):
AATATTAAAATAAAGTAATAAAAAATAATACTATATATAAACATATACTACATATACATATATAA
CAAAAATATACACTAACATTAATAATAATAAGATAATAATAATAATATTAAAATAAAAAAAGCAA
ATATAATAAAAATATTAAAATAAAATAATAAAAAATAATACTATATATAAATATAGATATACATA
TACACATATAAAAAAAATATACACTACTACTAATAATAATAATAATAATGATAATAATATTAAAA
TACAAAAAGCAAATATAATATA
Found at i:41241293 original size:3 final size:3
Alignment explanation
Indices: 41241287--41241481 Score: 127
Period size: 3 Copynumber: 66.7 Consensus size: 3
41241277 ATACTACTAC
* * ** * *
41241287 TAA TAA TAA TAA TAA TAA TGA TAA TAA TGA TAA TGG TGA TAGA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * * * *
41241333 TAA -AA AAA TAA TAA T-A TAA TAA TAG CAA TAG CAA TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
41241379 TAA TAG TAA TAA TAA GGA TAA TAG TAA TAA TAA CAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41241426 T-A TACA T-A TGAA TAA TAA TAA TAA TAA TAA T-A TAA -AA -AA TAA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
41241468 AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TA
41241482 GTGTTAGACA
Statistics
Matches: 145, Mismatches: 37, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
2 16 0.11
3 123 0.85
4 6 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:41247728 original size:17 final size:17
Alignment explanation
Indices: 41247706--41247739 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41247696 TCACGTGGCC
41247706 CCGACCACCGTCTACGG
1 CCGACCACCGTCTACGG
*
41247723 CCGACCCCCGTCTACGG
1 CCGACCACCGTCTACGG
41247740 TGGAAACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.50, G:0.24, T:0.12
Consensus pattern (17 bp):
CCGACCACCGTCTACGG
Done.