Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 42 of 172
Found at i:10955543 original size:40 final size:41
Alignment explanation
Indices: 10955493--10955677 Score: 207
Period size: 41 Copynumber: 4.5 Consensus size: 41
10955483 TTTAACGGCG
*
10955493 TTTTTGAAAAAGCGCCGCTAATGCTTGGGCCTTTAGCGAC-A
1 TTTTTG-AAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACGA
* * * * *
10955534 TTTTTAAAAAAGTGCCGCCAATGCTCGGGCCTTTAGCGGCGT
1 TTTTT-GAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACGA
* *
10955576 TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTT-GCGGCGT
1 TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACGA
* *
10955616 TTTTTGAAAAGCGCCACTAATGCTCGTGCCTTTAGC-A-GCA
1 TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACG-A
*
10955656 TTTTTTGAAAAGTGCCGCTAAT
1 -TTTTTGAAAAGCGCCGCTAAT
10955678 AATAATAAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 38 0.31
41 80 0.65
42 5 0.04
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACGA
Found at i:10955661 original size:81 final size:82
Alignment explanation
Indices: 10955493--10955677 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 82
10955483 TTTAACGGCG
* * *
10955493 TTTTTGAAAAAGCGCCGCTAATGCTTGGGCCTTTAGCGACATTTTTAAAAAAGTGCCGCCAATGC
1 TTTTTG-AAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACATTTTTAAAAAAGCGCCACCAATGC
* *
10955558 TCGGGCCTTTAGCGGCGT
65 TCGGGCCTTTAGCAGCAT
* * ** *
10955576 TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTT-GCGGCGTTTTTTGAAAAGCGCCACTAATGCT
1 TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACATTTTTAAAAAAGCGCCACCAATGCT
*
10955640 CGTGCCTTTAGCAGCAT
66 CGGGCCTTTAGCAGCAT
*
10955657 TTTTTGAAAAGTGCCGCTAAT
1 TTTTTGAAAAGCGCCGCTAAT
10955678 AATAATAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 58 0.64
82 26 0.29
83 6 0.07
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (82 bp):
TTTTTGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACATTTTTAAAAAAGCGCCACCAATGCT
CGGGCCTTTAGCAGCAT
Found at i:10956210 original size:15 final size:15
Alignment explanation
Indices: 10956190--10956226 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10956180 CCATGAACTT
10956190 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
10956205 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
*
10956220 GAATTTT
1 GGATTTT
10956227 TGTGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
GGATTTTCATTCTTG
Found at i:10957947 original size:17 final size:17
Alignment explanation
Indices: 10957925--10957957 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10957915 ATTTTTATTT
10957925 TGTAGCATTAAGTTTTC
1 TGTAGCATTAAGTTTTC
10957942 TGTAGCATTAAGTTTT
1 TGTAGCATTAAGTTTT
10957958 TATTTTGTAT
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:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (17 bp):
TGTAGCATTAAGTTTTC
Found at i:10958396 original size:43 final size:43
Alignment explanation
Indices: 10958329--10958620 Score: 397
Period size: 43 Copynumber: 6.8 Consensus size: 43
10958319 AGTTTATGTT
* ** * * *
10958329 TTTAGCGGCGTTTTTGCTAGAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * * * *
10958372 TATAGCGACGTTTATGATAAAAGCGTCGCTAAATGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
10958415 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAAGTCGTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10958458 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10958501 TTTAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
10958544 TTTAGCGGCGTTTGT-AGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCTTGGTC
*
10958587 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAG
10958621 TTAGCGACGC
Statistics
Matches: 222, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.00
43 221 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:10968879 original size:27 final size:27
Alignment explanation
Indices: 10968852--10968968 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
10968842 TTAAGAAACT
* *
10968852 TTCAGTG-AGCATAGTGATAGTGGCAC
1 TTCAGTGCAACATAGTGATAGTGACAC
10968878 TTCAGTGCAAC-TCAGTGATAGTGACAC
1 TTCAGTGCAACAT-AGTGATAGTGACAC
* *
10968905 TTCTGTGCAACATAGTGATAATGACAC
1 TTCAGTGCAACATAGTGATAGTGACAC
* * *
10968932 TAT-GGTGCAAC-TAAGTTATAGTGGCAC
1 T-TCAGTGCAACAT-AGTGATAGTGACAC
*
10968959 TTCGGTGCAA
1 TTCAGTGCAA
10968969 TTCAGTGACA
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
26 10 0.13
27 65 0.84
28 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (27 bp):
TTCAGTGCAACATAGTGATAGTGACAC
Found at i:10968981 original size:27 final size:27
Alignment explanation
Indices: 10968864--10968983 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
10968854 CAGTGAGCAT
*
10968864 AGTGATAGTGGCACTTCAGTGCAACTC
1 AGTGATAGTGGCACTTCGGTGCAACTC
* *
10968891 AGTGATAGTGACACTTCTGTGCAACAT-
1 AGTGATAGTGGCACTTCGGTGCAAC-TC
* * *
10968918 AGTGATAATGACACTAT-GGTGCAACTA
1 AGTGATAGTGGCACT-TCGGTGCAACTC
* *
10968945 AGTTATAGTGGCACTTCGGTGCAATTC
1 AGTGATAGTGGCACTTCGGTGCAACTC
*
10968972 AGTGACAGTGGC
1 AGTGATAGTGGC
10968984 TCTTTGGAAC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
26 2 0.03
27 74 0.95
28 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (27 bp):
AGTGATAGTGGCACTTCGGTGCAACTC
Found at i:10969824 original size:16 final size:16
Alignment explanation
Indices: 10969800--10969838 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
10969790 GTTAGGTTTT
10969800 CTTTCTCTTTTCCTTTC
1 CTTT-TCTTTTCCTTTC
*
10969817 CTTTTCTTTTTCTTTC
1 CTTTTCTTTTCCTTTC
10969833 CATTTT
1 C-TTTT
10969839 TAGTTTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTTTCTTTTCCTTTC
Found at i:10978114 original size:21 final size:21
Alignment explanation
Indices: 10978088--10978134 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
10978078 CATTCAAAGT
10978088 TCAGTGCCACAACACCCATAC
1 TCAGTGCCACAACACCCATAC
*
10978109 TCAGTGCCACGACACCCATAC
1 TCAGTGCCACAACACCCATAC
10978130 TCAGT
1 TCAGT
10978135 ATCACGACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.40, G:0.13, T:0.17
Consensus pattern (21 bp):
TCAGTGCCACAACACCCATAC
Found at i:10978140 original size:21 final size:21
Alignment explanation
Indices: 10978088--10978145 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
10978078 CATTCAAAGT
* *
10978088 TCAGTGCCACAACACCCATAC
1 TCAGTACCACGACACCCATAC
*
10978109 TCAGTGCCACGACACCCATAC
1 TCAGTACCACGACACCCATAC
*
10978130 TCAGTATCACGACACC
1 TCAGTACCACGACACC
10978146 GAGTCGAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.41, G:0.12, T:0.16
Consensus pattern (21 bp):
TCAGTACCACGACACCCATAC
Found at i:10979119 original size:25 final size:25
Alignment explanation
Indices: 10979085--10979136 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10979075 TTTGTACTCG
10979085 AATATACCTTGTTGTGAATGGTTCT
1 AATATACCTTGTTGTGAATGGTTCT
10979110 AATATACCTTGTTGTGAATGGTTCT
1 AATATACCTTGTTGTGAATGGTTCT
10979135 AA
1 AA
10979137 CATCAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (25 bp):
AATATACCTTGTTGTGAATGGTTCT
Found at i:10988206 original size:20 final size:20
Alignment explanation
Indices: 10988181--10988221 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10988171 TAATGGTTGG
*
10988181 TATCAAGATTTTGGAAAGAT
1 TATCAAGAATTTGGAAAGAT
* *
10988201 TATCAATAATTTGGCAAGAT
1 TATCAAGAATTTGGAAAGAT
10988221 T
1 T
10988222 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
TATCAAGAATTTGGAAAGAT
Found at i:10989127 original size:30 final size:30
Alignment explanation
Indices: 10989073--10989157 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
10989063 CACGTTCTGG
* * *
10989073 CACATGGTTGTGTG-GCATCCCGTGTGCCT
1 CACATGATTGTGTGTCCAGCCCGTGTGCCT
*
10989102 CACATGATTGTGTGTCCAGCCCGTGTGGCT
1 CACATGATTGTGTGTCCAGCCCGTGTGCCT
* *
10989132 CACA-CAGCTGTGTGTCCAGCCCGTGT
1 CACATGA-TTGTGTGTCCAGCCCGTGT
10989158 AGCTCTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.29
30 34 0.71
ACGTcount: A:0.13, C:0.29, G:0.29, T:0.28
Consensus pattern (30 bp):
CACATGATTGTGTGTCCAGCCCGTGTGCCT
Found at i:10999044 original size:29 final size:26
Alignment explanation
Indices: 10998991--10999055 Score: 62
Period size: 29 Copynumber: 2.4 Consensus size: 26
10998981 AATAAATATC
*
10998991 TTTA-ATATTATTAATAATTTGATAAA
1 TTTATATATTATTAATAATTTCAT-AA
*
10999017 CTTTAATATATTATT-ATATTATTCATAA
1 -TTT-ATATATTATTAATAAT-TTCATAA
10999045 TTTATATATTA
1 TTTATATATTA
10999056 ATTTTTATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 8 0.24
27 6 0.18
28 7 0.21
29 12 0.36
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTATATATTATTAATAATTTCATAA
Found at i:11004744 original size:21 final size:22
Alignment explanation
Indices: 11004695--11004745 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
11004685 ATTATTTTTC
*
11004695 TTAAATTCAATACAAACAATTTA
1 TTAAATT-AAAACAAACAATTTA
11004718 TT-AATTAAAACAAATC-ATTT-
1 TTAAATTAAAACAAA-CAATTTA
11004738 TTAAATTA
1 TTAAATTA
11004746 CATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 5 0.20
23 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAATTAAAACAAACAATTTA
Found at i:11006868 original size:44 final size:45
Alignment explanation
Indices: 11006740--11006921 Score: 226
Period size: 45 Copynumber: 4.1 Consensus size: 45
11006730 ATAATAACAT
* * *
11006740 ATACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAATG
1 ATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG
** * * *
11006783 ATACTAGGTGGAATCAGCACATAGCAACCATCTTCATAATCAATG
1 ATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG
* *
11006828 GTACCCGGTGGAATCAACAC-CAGCAACCACCTTTATAATCAATG
1 ATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG
* *
11006872 ATACCCGATGGAATCAGCACACAACAACCACCTTTATAATCAATG
1 ATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG
*
11006917 GTACC
1 ATACC
11006922 TGGTACACGT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
43 9 0.08
44 50 0.43
45 58 0.50
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (45 bp):
ATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATG
Found at i:11006884 original size:89 final size:88
Alignment explanation
Indices: 11006745--11006921 Score: 239
Period size: 89 Copynumber: 2.0 Consensus size: 88
11006735 AACATATACA
* * * * * *
11006745 CGGTGGATCAGCACACAGCACCACCCTTATAGTCAATGATACTAGGTGGAATCAGCACATAGCAA
1 CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCAGATGGAATCAGCACACAACAA
*
11006810 CCATCTTCATAATCAATGGTACC
66 CCACCTTCATAATCAATGGTACC
* *
11006833 CGGTGGAATCAACAC-CAGCAACCACCTTTATAATCAATGATACCCGATGGAATCAGCACACAAC
1 CGGTGG-ATCAACACACAGC-ACCACCCTTATAATCAATGATACCAGATGGAATCAGCACACAAC
*
11006897 AACCACCTTTATAATCAATGGTACC
64 AACCACCTTCATAATCAATGGTACC
11006922 TGGTACACGT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
88 10 0.13
89 67 0.87
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (88 bp):
CGGTGGATCAACACACAGCACCACCCTTATAATCAATGATACCAGATGGAATCAGCACACAACAA
CCACCTTCATAATCAATGGTACC
Found at i:11011669 original size:6 final size:6
Alignment explanation
Indices: 11011658--11011696 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
11011648 TGAATTAAGC
11011658 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
11011697 TAAAAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:11012205 original size:19 final size:18
Alignment explanation
Indices: 11012163--11012207 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
11012153 AACTTAAACT
11012163 ACTAAAAACGAAAAATGA
1 ACTAAAAACGAAAAATGA
*
11012181 AATAAAAACGTATAAAA-GA
1 ACTAAAAACG-A-AAAATGA
11012200 ACTAAAAA
1 ACTAAAAA
11012208 ACAAACTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 10 0.43
20 4 0.17
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (18 bp):
ACTAAAAACGAAAAATGA
Found at i:11014980 original size:12 final size:13
Alignment explanation
Indices: 11014944--11014985 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
11014934 AATTCTTTTA
11014944 TTTTTTCTT-TTC
1 TTTTTTCTTCTTC
*
11014956 TATTTTTCCTCTT-
1 T-TTTTTCTTCTTC
11014969 TTTTTTCTTCTTC
1 TTTTTTCTTCTTC
11014982 TTTT
1 TTTT
11014986 GCAATACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 11 0.44
13 12 0.48
14 2 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:11016826 original size:16 final size:17
Alignment explanation
Indices: 11016805--11016838 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11016795 TATTTTATGC
11016805 TATTTTCTT-AATATTT
1 TATTTTCTTCAATATTT
*
11016821 TATTTTTTTCAATATTT
1 TATTTTCTTCAATATTT
11016838 T
1 T
11016839 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTCTTCAATATTT
Found at i:11036848 original size:28 final size:28
Alignment explanation
Indices: 11036808--11036884 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
11036798 AGTACAATGA
*
11036808 GGGCCTTAGCCCAAT-TCATTAGCAGTGT
1 GGGCCTTAGCCCAATAT-AGTAGCAGTGT
* *
11036836 GGGCCTTGGCCCAATATAGTATCAGTGT
1 GGGCCTTAGCCCAATATAGTAGCAGTGT
*
11036864 GGGCCTTAGCCTAATATAGTA
1 GGGCCTTAGCCCAATATAGTA
11036885 ACCTTACACT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (28 bp):
GGGCCTTAGCCCAATATAGTAGCAGTGT
Found at i:11037287 original size:27 final size:27
Alignment explanation
Indices: 11037257--11037424 Score: 214
Period size: 27 Copynumber: 6.2 Consensus size: 27
11037247 CATATAAAAA
* *
11037257 TCATTTTACCCTAT-GGGGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTCAG
* *
11037284 TCATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
11037311 TCATTTTACCCTTCGAGAGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
11037338 TCATTTTACCCTTCAAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
11037365 TCATTTTACCCTTC-AGGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCAG
**
11037392 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
11037419 TCATTT
1 TCATTT
11037425 ATTGACCTCA
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.02
27 124 0.98
28 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:11037368 original size:81 final size:81
Alignment explanation
Indices: 11037273--11037424 Score: 250
Period size: 81 Copynumber: 1.9 Consensus size: 81
11037263 TACCCTATGG
* *
11037273 GGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTAG
1 GGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTAG
11037338 TCATTTTACCCTTCAA
66 TCATTTTACCCTTCAA
** * *
11037354 GGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGG
1 GGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTAG
11037419 TCATTT
66 TCATTT
11037425 ATTGACCTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (81 bp):
GGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAATCATTTTACCCTTCGAGAGTATTTTAG
TCATTTTACCCTTCAA
Found at i:11038053 original size:27 final size:24
Alignment explanation
Indices: 11038022--11038078 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
11038012 GATGATATAT
11038022 ATCTCTCCACAACAACAACCTCCTCAA
1 ATCTCTCCA-AACAAC--CCTCCTCAA
* *
11038049 ATCTCTCCAAATATCCCTCCTCAA
1 ATCTCTCCAAACAACCCTCCTCAA
11038073 ATCTCT
1 ATCTCT
11038079 TTATGACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
26 4 0.14
27 9 0.32
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (24 bp):
ATCTCTCCAAACAACCCTCCTCAA
Found at i:11044628 original size:14 final size:14
Alignment explanation
Indices: 11044609--11044641 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
11044599 GCCTAAGTCT
11044609 GTTTGAGGATGGTA
1 GTTTGAGGATGGTA
11044623 GTTTGAGGATGGTA
1 GTTTGAGGATGGTA
11044637 GTTTG
1 GTTTG
11044642 TTGGCCCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (14 bp):
GTTTGAGGATGGTA
Found at i:11054831 original size:25 final size:25
Alignment explanation
Indices: 11054803--11054860 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
11054793 TACAGTCTAT
*
11054803 CTATAGTACTCTCAGTATATACTAC
1 CTATAGCACTCTCAGTATATACTAC
* * * *
11054828 CTATAGCAGTTTTAGTATATAGTAC
1 CTATAGCACTCTCAGTATATACTAC
11054853 CTATAGCA
1 CTATAGCA
11054861 GTTTCAAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (25 bp):
CTATAGCACTCTCAGTATATACTAC
Found at i:11054861 original size:25 final size:25
Alignment explanation
Indices: 11054816--11054864 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11054806 TAGTACTCTC
11054816 AGTATATACTACCTATAGCAGTTTT
1 AGTATATACTACCTATAGCAGTTTT
*
11054841 AGTATATAGTACCTATAGCAGTTT
1 AGTATATACTACCTATAGCAGTTT
11054865 CAAGATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (25 bp):
AGTATATACTACCTATAGCAGTTTT
Found at i:11054872 original size:25 final size:25
Alignment explanation
Indices: 11054816--11054876 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
11054806 TAGTACTCTC
*
11054816 AGTATATACTACCTATAGCAGTTTT
1 AGTATATACTACCTATAGCAGTTTA
*
11054841 AGTATATAGTACCTATAGCAGTTTCA
1 AGTATATACTACCTATAGCAGTTT-A
11054867 AG-ATATACTA
1 AGTATATACTA
11054877 TCAAAAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (25 bp):
AGTATATACTACCTATAGCAGTTTA
Found at i:11068246 original size:49 final size:49
Alignment explanation
Indices: 11068114--11068249 Score: 209
Period size: 49 Copynumber: 2.8 Consensus size: 49
11068104 GATAATAACA
* * * * *
11068114 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGATGTTTCCGGTAC
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCCGGTAC
* *
11068163 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGTTGTTTCCTGTAC
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCCGGTAC
11068212 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
11068250 TTCTCATATC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCCGGTAC
Found at i:11068292 original size:50 final size:50
Alignment explanation
Indices: 11068212--11068341 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
11068202 TTTCCTGTAC
* * * **
11068212 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGA
* * * * *
11068262 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGA
* *
11068312 TGCCAACGCCATGTCCCAGACATGATCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
11068342 TGTGAGACCT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGA
Found at i:11068351 original size:50 final size:50
Alignment explanation
Indices: 11068251--11068357 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
11068241 ACATGGGATT
* * * * *
11068251 TCTCATATCGATGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACC
1 TCTCATATCGATGCCAACGCCATGTCCCAGACATGATCTTACGGGAGACC
* * * *
11068301 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGATCTTATGTGAGACC
1 TCTCATATCGATGCCAACGCCATGTCCCAGACATGATCTTACGGGAGACC
11068351 TCTCATA
1 TCTCATA
11068358 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGATGCCAACGCCATGTCCCAGACATGATCTTACGGGAGACC
Found at i:11078399 original size:39 final size:39
Alignment explanation
Indices: 11078356--11078431 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
11078346 ACCCTAATGG
*
11078356 GTAACCAGGCACTATTATTCATTATTCATGTAGGTTTAA
1 GTAACCAGGCACTATTATTCATCATTCATGTAGGTTTAA
*
11078395 GTAACCAGGCACTATTATTCATCATTCGTGTAGGTTT
1 GTAACCAGGCACTATTATTCATCATTCATGTAGGTTT
11078432 TAACCCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (39 bp):
GTAACCAGGCACTATTATTCATCATTCATGTAGGTTTAA
Found at i:11083114 original size:5 final size:5
Alignment explanation
Indices: 11083104--11083141 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
11083094 AATTTAGCCA
*
11083104 TTTAT TTTAT TTTAT TTTAT TTT-T TTTAGT TTAAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
11083142 TACATTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:11088205 original size:94 final size:93
Alignment explanation
Indices: 11088040--11088251 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 93
11088030 ATGTGTTTTT
* * *
11088040 TGACCCACACCACCTGGACACACAGACGTTTCCTAGGCCATGTGCACAATAAGGGGTTTAATAGT
1 TGACCCACACGACCTGGACACAC-GACGTTTCCTAGGCCATGTACACAATAAGGGGTCTAATAGT
11088105 GAGTTACAAAACCTGGCGACATGGCCATA
65 GAGTTACAAAACCTGGCGACATGGCCATA
* * *
11088134 TGACCCACACGACCTGGACACACGAC-TATGTGCC-GGGCCATGTACATAATAAGGGGTCTGATA
1 TGACCCACACGACCTGGACACACGACGT-T-T-CCTAGGCCATGTACACAATAAGGGGTCTAATA
* ** * * * *
11088197 GTGGGTTACACGACCTGGTGACATGTCCTTG
63 GTGAGTTACAAAACCTGGCGACATGGCCATA
* *
11088228 TGACCCACATGGCCTGGACACACG
1 TGACCCACACGACCTGGACACACG
11088252 GGCATGTCCT
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 4 0.04
94 93 0.93
95 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (93 bp):
TGACCCACACGACCTGGACACACGACGTTTCCTAGGCCATGTACACAATAAGGGGTCTAATAGTG
AGTTACAAAACCTGGCGACATGGCCATA
Found at i:11088715 original size:18 final size:18
Alignment explanation
Indices: 11088694--11088736 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11088684 TTTGTTATGC
*
11088694 TATTATTTT-CATTTATTT
1 TATTATTTTACATTT-TAT
*
11088712 TATTTTTTTACATTTTAT
1 TATTATTTTACATTTTAT
11088730 TATTATT
1 TATTATT
11088737 ACCTAGTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTATTTTACATTTTAT
Found at i:11088845 original size:14 final size:15
Alignment explanation
Indices: 11088792--11088846 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
11088782 GTTAAAGTTC
11088792 TATTTTC-TATTATT
1 TATTTTCTTATTATT
*
11088806 TATTTTATTATTATT
1 TATTTTCTTATTATT
*
11088821 TGATTAGTCTTATTA-T
1 T-ATT-TTCTTATTATT
11088837 TATTTTCTTA
1 TATTTTCTTA
11088847 CTGCTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.32
15 11 0.32
16 5 0.15
17 7 0.21
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (15 bp):
TATTTTCTTATTATT
Found at i:11090257 original size:6 final size:6
Alignment explanation
Indices: 11090248--11090292 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
11090238 TATTTTTAAA
11090248 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
11090293 ATGTTTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:11090262 original size:18 final size:18
Alignment explanation
Indices: 11090241--11090280 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11090231 TTATTCATAT
11090241 TTTTAAATTTTCTTTTTC
1 TTTTAAATTTTCTTTTTC
***
11090259 TTTTTCTTTTTCTTTTTC
1 TTTTAAATTTTCTTTTTC
11090277 TTTT
1 TTTT
11090281 TCTTTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTAAATTTTCTTTTTC
Found at i:11091995 original size:77 final size:77
Alignment explanation
Indices: 11091906--11092060 Score: 256
Period size: 77 Copynumber: 2.0 Consensus size: 77
11091896 GTTGTGAAAG
*
11091906 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAGGCAAACGCTTAAGTGTCGGGATATT
1 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTCGGGATATT
*
11091971 TGATAAGCTATA
66 TGACAAGCTATA
* * *
11091983 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGATAAGCAAATGCTTAAGTGTGGGGATATT
1 ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTCGGGATATT
*
11092048 TGACAAGTTATA
66 TGACAAGCTATA
11092060 A
1 A
11092061 AAGTAACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (77 bp):
ATTAATTTTAATGTGAGTTGAGCATGTTGCTTGAGGACAAGCAAACGCTTAAGTGTCGGGATATT
TGACAAGCTATA
Found at i:11099533 original size:15 final size:15
Alignment explanation
Indices: 11099504--11099534 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11099494 AGTTTTTGAG
11099504 TACAAGTTTAATTTT
1 TACAAGTTTAATTTT
11099519 TACAA-TTTAATTTT
1 TACAAGTTTAATTTT
11099533 TA
1 TA
11099535 GATCTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
TACAAGTTTAATTTT
Found at i:11102990 original size:26 final size:26
Alignment explanation
Indices: 11102952--11103009 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11102942 AGGAATATTT
*
11102952 TAAAAATATGT-AAATTACAAAAAAC
1 TAAAAATACGTAAAATTACAAAAAAC
* * *
11102977 ATAAAAATCCGTAAAATTAGAAAAATC
1 -TAAAAATACGTAAAATTACAAAAAAC
11103004 TAAAAA
1 TAAAAA
11103010 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAATACGTAAAATTACAAAAAAC
Found at i:11108628 original size:13 final size:13
Alignment explanation
Indices: 11108610--11108634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11108600 ATTTACATGA
11108610 TTACATAATCAAT
1 TTACATAATCAAT
11108623 TTACATAATCAA
1 TTACATAATCAA
11108635 ATAAAATAAA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:11108963 original size:18 final size:18
Alignment explanation
Indices: 11108940--11108977 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11108930 ACTGGGAAAT
*
11108940 GATTGAA-AATCATATTAG
1 GATTGAATAAT-ATAGTAG
11108958 GATTGAATAATATAGTAG
1 GATTGAATAATATAGTAG
11108976 GA
1 GA
11108978 AAATAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (18 bp):
GATTGAATAATATAGTAG
Found at i:11116060 original size:18 final size:18
Alignment explanation
Indices: 11116037--11116071 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11116027 AATAAATATT
*
11116037 ATTTAATCAATTAATTTA
1 ATTTAATCAAGTAATTTA
*
11116055 ATTTAATTAAGTAATTT
1 ATTTAATCAAGTAATTT
11116072 CTCAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTTAATCAAGTAATTTA
Found at i:11129928 original size:18 final size:18
Alignment explanation
Indices: 11129905--11129964 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
11129895 ATAATAAACA
11129905 ATAAAATAAATTAATGAT
1 ATAAAATAAATTAATGAT
* *
11129923 ATAAAATTAATTAACGA-
1 ATAAAATAAATTAATGAT
* *
11129940 AAATAAATAAATAAATGAT
1 ATA-AAATAAATTAATGAT
11129959 A-AAAAT
1 ATAAAAT
11129965 GAAGAAACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 6 0.18
18 27 0.79
19 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAAAATAAATTAATGAT
Found at i:11146505 original size:25 final size:25
Alignment explanation
Indices: 11146474--11146543 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
11146464 CGTTCTGACC
11146474 CACAGCTCGTGTGAGCATACCAATT
1 CACAGCTCGTGTGAGCATACCAATT
* * * *
11146499 TACAGCTGGTGTGAGCATGCCGATT
1 CACAGCTCGTGTGAGCATACCAATT
*
11146524 CACAACTCGTGTGAGCATAC
1 CACAGCTCGTGTGAGCATAC
11146544 ATGTATAGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACCAATT
Found at i:11151981 original size:9 final size:9
Alignment explanation
Indices: 11151967--11151997 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11151957 GTTGAACGAA
11151967 TCGAGTTAT
1 TCGAGTTAT
*
11151976 TCGAGTTAA
1 TCGAGTTAT
11151985 TCGAGTTAT
1 TCGAGTTAT
11151994 TCGA
1 TCGA
11151998 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11162798 original size:19 final size:18
Alignment explanation
Indices: 11162776--11162819 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11162766 ACCCAATCCA
11162776 AACCCAAGTATCC-AACCCC
1 AACCCAAGTA-CCTAA-CCC
*
11162795 AACCCAATTACCTAACCC
1 AACCCAAGTACCTAACCC
11162813 AACCCAA
1 AACCCAA
11162820 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAAGTACCTAACCC
Found at i:11163800 original size:55 final size:54
Alignment explanation
Indices: 11163622--11163811 Score: 220
Period size: 56 Copynumber: 3.4 Consensus size: 54
11163612 TACTGTTTGC
* * * *
11163622 ATGCTGTCATAAATTGAATTAAACCTGTTGTTTGAATGTTTCAAATTGAGCATTTCC
1 ATGCTGTCTTAAATTAAATT-AAGCTGTTGTTT-AATGTTTCAAATTGAGCATTT-T
* * * *
11163679 ATACTGTCTTAAATTGAATCAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
1 ATGCTGTCTTAAATTAAATTAAGCTGTTG-TTTAATGTTTCAAATTGAGCATTTT
*
11163734 CATGCTGTCTTAAATTAAATTAAGCT-TCTGTTTAATGTTTCAAATTGAGTATTATT
1 -ATGCTGTCTTAAATTAAATTAAGCTGT-TGTTTAATGTTTCAAATTGAGCATT-TT
*
11163790 ATGCTATCTTAAATTAAATTAA
1 ATGCTGTCTTAAATTAAATTAA
11163812 AGTGTTGCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
55 43 0.37
56 54 0.46
57 20 0.17
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (54 bp):
ATGCTGTCTTAAATTAAATTAAGCTGTTGTTTAATGTTTCAAATTGAGCATTTT
Found at i:11163818 original size:111 final size:113
Alignment explanation
Indices: 11163621--11163833 Score: 256
Period size: 111 Copynumber: 1.9 Consensus size: 113
11163611 TTACTGTTTG
* *
11163621 CATGCTGTCATAAATTGAATTAAACCTGTTGTTTGAATGTTTCAAATTGAGCATTTCCATACTGT
1 CATGCTGTCATAAATTAAATTAAACCTGTTGTTTGAATGTTTCAAATTGAGCATTTCCATACTAT
* * * * *
11163686 CTTAAATTGAATCAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
66 CTTAAATTAAATAAAGCTGTTGCTTCAGTGTCTCAAATTGAGCATTTT
* * * * *
11163734 CATGCTGTCTTAAATTAAATT-AAGCT-TCTGTTT-AATGTTTCAAATTGAGTATTAT-TATGCT
1 CATGCTGTCATAAATTAAATTAAACCTGT-TGTTTGAATGTTTCAAATTGAGCATT-TCCATACT
11163795 ATCTTAAATTAAATTAAAG-TGTTGCTTCAGTGTCTCAAA
64 ATCTTAAATTAAA-TAAAGCTGTTGCTTCAGTGTCTCAAA
11163834 GTAAACATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
111 52 0.61
112 14 0.16
113 19 0.22
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (113 bp):
CATGCTGTCATAAATTAAATTAAACCTGTTGTTTGAATGTTTCAAATTGAGCATTTCCATACTAT
CTTAAATTAAATAAAGCTGTTGCTTCAGTGTCTCAAATTGAGCATTTT
Found at i:11166652 original size:27 final size:27
Alignment explanation
Indices: 11166587--11166653 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
11166577 GCAGTGATTC
11166587 AATTTGGTTAATTCGGTTAATTCGAGT
1 AATTTGGTTAATTCGGTTAATTCGAGT
* *
11166614 AATTCAGG-TAATTCGGTTAATTCGGGT
1 AATT-TGGTTAATTCGGTTAATTCGAGT
11166641 AATTTGGTTAATT
1 AATTTGGTTAATT
11166654 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
AATTTGGTTAATTCGGTTAATTCGAGT
Found at i:11166654 original size:9 final size:9
Alignment explanation
Indices: 11166587--11166653 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
11166577 GCAGTGATTC
*
11166587 AATTTGGTT
1 AATTCGGTT
11166596 AATTCGGTT
1 AATTCGGTT
11166605 AATTCGAG-T
1 AATTCG-GTT
11166614 AATTCAGG-T
1 AATTC-GGTT
11166623 AATTCGGTT
1 AATTCGGTT
*
11166632 AATTCGGGT
1 AATTCGGTT
*
11166641 AATTTGGTT
1 AATTCGGTT
11166650 AATT
1 AATT
11166654 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11177688 original size:29 final size:32
Alignment explanation
Indices: 11177655--11177720 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 32
11177645 ATTAGATCTT
11177655 ATTAAAATAAT-AGATAAACA-TTAA-ATTAA
1 ATTAAAATAATAAGATAAACATTTAATATTAA
* *
11177684 ATT-AAATATTAAGATAATCATTTTAATATTAA
1 ATTAAAATAATAAGATAAACA-TTTAATATTAA
11177716 ATTAA
1 ATTAA
11177721 CAAAATACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 6 0.20
29 11 0.37
31 4 0.13
32 8 0.27
33 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
ATTAAAATAATAAGATAAACATTTAATATTAA
Found at i:11178256 original size:17 final size:17
Alignment explanation
Indices: 11178234--11178273 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
11178224 TTACTTTATC
11178234 AAAATTAATTTTTCAAG
1 AAAATTAATTTTTCAAG
11178251 AAAATTAATTTTTCAAG
1 AAAATTAATTTTTCAAG
11178268 AAAATT
1 AAAATT
11178274 CTTTAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (17 bp):
AAAATTAATTTTTCAAG
Found at i:11179929 original size:15 final size:15
Alignment explanation
Indices: 11179909--11179938 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11179899 TTTCACTATA
*
11179909 ATGTCTTTTGTATTT
1 ATGTCTTTTATATTT
11179924 ATGTCTTTTATATTT
1 ATGTCTTTTATATTT
11179939 TGTATGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
ATGTCTTTTATATTT
Found at i:11186951 original size:27 final size:28
Alignment explanation
Indices: 11186921--11186982 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
11186911 AAAACCAGTA
* *
11186921 TAGTCCACT-GGGATAGTAAACATGGGG
1 TAGTCCACTCGGGATAATAAACATGAGG
*
11186948 TAGTCTA-TCGGGATAATAAACATGAGG
1 TAGTCCACTCGGGATAATAAACATGAGG
*
11186975 TAATCCAC
1 TAGTCCAC
11186983 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (28 bp):
TAGTCCACTCGGGATAATAAACATGAGG
Found at i:11191311 original size:30 final size:30
Alignment explanation
Indices: 11191254--11191311 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11191244 TGTAATTGAA
* *
11191254 AATGATTACAAGGTATGGTATATAAATATG
1 AATGATTACAAGGTATGATATACAAATATG
*
11191284 AATGATTACAGGGT-TGAATATACAAATA
1 AATGATTACAAGGTATG-ATATACAAATA
11191312 AGTACAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (30 bp):
AATGATTACAAGGTATGATATACAAATATG
Found at i:11206078 original size:5 final size:5
Alignment explanation
Indices: 11206064--11206112 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
11206054 GTGTTCTAAC
* *
11206064 TTTTA -TTTA ATTTA ATTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11206113 GAATTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:11210796 original size:21 final size:21
Alignment explanation
Indices: 11210772--11210813 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11210762 CACAAGACGC
*
11210772 ACCCTGTGTTAAGCCATAGCA
1 ACCCTATGTTAAGCCATAGCA
* *
11210793 ACCCTATGTTGAGTCATAGCA
1 ACCCTATGTTAAGCCATAGCA
11210814 TGAACGTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (21 bp):
ACCCTATGTTAAGCCATAGCA
Found at i:11214412 original size:50 final size:50
Alignment explanation
Indices: 11214312--11214413 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
11214302 GATGTATTTT
* * * * *
11214312 TTAAAATATATATTTTAAGGGTGGAGGGAGAGAGGTGGGCGGCACCAGTA
1 TTAAAAAATATATTTTAAGAGTGGAGGGAGAGAGATAGGCAGCACCAGTA
* * * *
11214362 TTAAAAAATATTTTTTAAGAGTGGATGGAGGGAGATAGGCAGCACTAGTA
1 TTAAAAAATATATTTTAAGAGTGGAGGGAGAGAGATAGGCAGCACCAGTA
11214412 TT
1 TT
11214414 TTCTAGTGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.27
Consensus pattern (50 bp):
TTAAAAAATATATTTTAAGAGTGGAGGGAGAGAGATAGGCAGCACCAGTA
Found at i:11217284 original size:23 final size:23
Alignment explanation
Indices: 11217257--11217378 Score: 185
Period size: 23 Copynumber: 5.3 Consensus size: 23
11217247 AGTGTTATTG
11217257 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
11217279 ATTCAGTGGTAGCTAT-GGCTACAT
1 A-TCAGTGGTAGCT-TCGGCTACAT
11217303 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
11217326 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11217349 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11217372 ATCAGTG
1 ATCAGTG
11217379 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
22 2 0.02
23 86 0.96
24 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11225315 original size:18 final size:18
Alignment explanation
Indices: 11225292--11225328 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11225282 ATTTTTGAAT
11225292 TTTAATTAAATAATAAAA
1 TTTAATTAAATAATAAAA
* *
11225310 TTTAATTATATATTAAAA
1 TTTAATTAAATAATAAAA
11225328 T
1 T
11225329 GATATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATTAAATAATAAAA
Found at i:11233184 original size:6 final size:6
Alignment explanation
Indices: 11233173--11233202 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11233163 CACCCGAACG
11233173 ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA
1 ACTCGA ACTCGA ACTCGA ACTCGA ACTCGA
11233203 GCTGAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (6 bp):
ACTCGA
Found at i:11240414 original size:16 final size:16
Alignment explanation
Indices: 11240382--11240414 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11240372 ATTTTAGATT
11240382 TTATTATATAAATTTA
1 TTATTATATAAATTTA
11240398 TTATT-TATAAATATTA
1 TTATTATATAAAT-TTA
11240414 T
1 T
11240415 ATATAAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATATAAATTTA
Found at i:11246763 original size:113 final size:113
Alignment explanation
Indices: 11246560--11246785 Score: 258
Period size: 113 Copynumber: 2.0 Consensus size: 113
11246550 TTCACTGTTG
* * * ** *
11246560 ATAGCTTTGTGCTTTAGCTTAGCTATCTATATTTGAAATGCATTTGACCATAAAGTTGAGAGAGT
1 ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCATAAAGTAAAAAGAGT
* * * *
11246625 AAAAAGCTATACTGCGAGATCTAAAAGGGTTGTTGAGTGCTGACACTT
66 AAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
* * * * *
11246673 ATAGTTTTGTGCATTAACTTAGCTATCTATATTTGAAATACGTTTGTCCTTATAGGTAAAAAG-G
1 ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCATA-AAGTAAAAAGAG
* * *
11246737 TTGAAAA-CTATATTGTGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
65 -TAAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
11246786 TTTAGTCATA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
113 82 0.88
114 11 0.12
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (113 bp):
ATAGCTTTGTGCATTAACTTAGCTATCTATATTTGAAATACATTTGACCATAAAGTAAAAAGAGT
AAAAAGCTATACTGCGAGATCTAAAAGGATAGTTGAATGCTGAAACTT
Found at i:11254683 original size:3 final size:3
Alignment explanation
Indices: 11254675--11254710 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11254665 TTTATCAATT
11254675 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11254711 CAATCCAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11259696 original size:21 final size:21
Alignment explanation
Indices: 11259678--11259720 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11259668 AGTAACTTGT
*
11259678 TCTTCTTCAGCAACAACTTCC
1 TCTTCTGCAGCAACAACTTCC
*
11259699 TCTTCTGCAGCAGCAACTTCC
1 TCTTCTGCAGCAACAACTTCC
11259720 T
1 T
11259721 TCTTATCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.37, G:0.09, T:0.33
Consensus pattern (21 bp):
TCTTCTGCAGCAACAACTTCC
Found at i:11266758 original size:320 final size:320
Alignment explanation
Indices: 11266175--11266762 Score: 980
Period size: 320 Copynumber: 1.8 Consensus size: 320
11266165 TGATAATGAT
11266175 AATCTTCAGTAAAATACTAACTGCTCACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAA
1 AATCTTCAGTAAAATACTAACTGCTCACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAA
* *
11266240 ATTCAATTTATATCTTACCAAGCGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAA
66 ATTCAATGTATATCTTACCAAACGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAA
* * * *
11266305 CCTCACCTTCCGATGATGGCAATGTGAAACTATTAAGAACAAGTGGACTAAATTCCTTTAATCCT
131 CCTCACCTTCCGAAGATGGCAATATGAAACTATTAAGAACAAATGGACTAAATTCCTCTAATCCT
* *
11266370 CACTCAACTTCCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCCAGTGTCAGTGACT
196 CACTAAACTTCCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCCAGTGTCAGTAACT
11266435 GCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACCGGGATCCCTAAGATG
261 GCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACCGGGATCCCTAAGATG
* * *
11266495 AATCTTCAGTAAAATACTAAGTGCTCACAAGGTATAAAAGGATAGGTGATTGTCGAGGTAATAAA
1 AATCTTCAGTAAAATACTAACTGCTCACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAA
* * *
11266560 ATTCAATGTATATCTTACCAAATGTCACTCCTCTATTCAATCTGAGACTTAAACATGCTTACTAA
66 ATTCAATGTATATCTTACCAAACGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAA
* * *
11266625 CCTCACCTTCCGAAGATGGCAATAT-AGCACTATTAAGAACAAATTGACTAAATTTCTCTAATCC
131 CCTCACCTTCCGAAGATGGCAATATGA-AACTATTAAGAACAAATGGACTAAATTCCTCTAATCC
* * *
11266689 TTACTAAACTTTCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCTAGTGTCAGTAAC
195 TCACTAAACTTCCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCCAGTGTCAGTAAC
11266754 TGCAATAAC
260 TGCAATAAC
11266763 ACTTCCGTGT
Statistics
Matches: 247, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
319 1 0.00
320 246 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (320 bp):
AATCTTCAGTAAAATACTAACTGCTCACAAGGTATAAAAGGATAGGTGATTGTCAAGGCAATAAA
ATTCAATGTATATCTTACCAAACGTCACTCCTCTATTCAATCTAAGACTTAAACATGCATACTAA
CCTCACCTTCCGAAGATGGCAATATGAAACTATTAAGAACAAATGGACTAAATTCCTCTAATCCT
CACTAAACTTCCATTGTAATGCTTGTTGGCTCAAACTGTCACTGCACTTTCCAGTGTCAGTAACT
GCAATAACTTGAAAACAATAAAATAAAATATGATAATGATAAACCGGGATCCCTAAGATG
Found at i:11273620 original size:18 final size:18
Alignment explanation
Indices: 11273593--11273629 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11273583 TATTGTAAGA
*
11273593 GTTAAGAGCATGGTGAGT
1 GTTAAAAGCATGGTGAGT
*
11273611 GTTAAAAGCATTGTGAGT
1 GTTAAAAGCATGGTGAGT
11273629 G
1 G
11273630 AAAAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (18 bp):
GTTAAAAGCATGGTGAGT
Found at i:11276867 original size:79 final size:79
Alignment explanation
Indices: 11276736--11276891 Score: 276
Period size: 79 Copynumber: 2.0 Consensus size: 79
11276726 CATGAACTTG
* *
11276736 CACATTTGACATGTTAATTGCATAGCATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
1 CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
11276801 TTTTGCTTTTCTAT
66 TTTTGCTTTTCTAT
*
11276815 CACATTTGACATGTTACTTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
1 CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
*
11276880 TTTTTCTTTTCT
66 TTTTGCTTTTCT
11276892 GTTTGGATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.47
Consensus pattern (79 bp):
CACATTTGACATGTTAATTGAATAACATCATCTAATTTTAACTTGAGCATTTTAAATGTATTATG
TTTTGCTTTTCTAT
Found at i:11280958 original size:15 final size:15
Alignment explanation
Indices: 11280935--11280964 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11280925 CTAGGACTTA
*
11280935 TTTACTATCCTTTAG
1 TTTAATATCCTTTAG
11280950 TTTAATATCCTTTAG
1 TTTAATATCCTTTAG
11280965 CTTTGATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTAATATCCTTTAG
Found at i:11286102 original size:27 final size:27
Alignment explanation
Indices: 11286062--11286137 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
11286052 GGGTGTTACA
11286062 TAGTCTGTCAGGACAGTAAACACAGGG
1 TAGTCTGTCAGGACAGTAAACACAGGG
* * *
11286089 TAGTCCGTCGGGACAATAAACACAGGG
1 TAGTCTGTCAGGACAGTAAACACAGGG
*
11286116 TAGTTTGTCAGGACAGTAAACA
1 TAGTCTGTCAGGACAGTAAACA
11286138 ATGAGTTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (27 bp):
TAGTCTGTCAGGACAGTAAACACAGGG
Found at i:11288002 original size:58 final size:60
Alignment explanation
Indices: 11287878--11288009 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 60
11287868 ATTATCTTAG
* * * *
11287878 TATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTCTATTAATTTAATAGATTTAA
1 TATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATA-ATTAAA
* *
11287939 TATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATGTTAATTTAAT-ATTAAA
1 TATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTAAA
*
11287995 GTGATTAAGTTTAAT
1 -T-ATTAAATTTAAT
11288010 TATAGTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 31 0.50
59 1 0.02
60 1 0.02
61 23 0.37
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (60 bp):
TATTAAATTTAATCTAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTAAA
Found at i:11291331 original size:17 final size:18
Alignment explanation
Indices: 11291309--11291343 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11291299 CAGACCCCTA
11291309 TTTGTCC-TCTTCGTTAT
1 TTTGTCCTTCTTCGTTAT
*
11291326 TTTGTCCTTCTTTGTTAT
1 TTTGTCCTTCTTCGTTAT
11291344 AAACCCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.20, G:0.11, T:0.63
Consensus pattern (18 bp):
TTTGTCCTTCTTCGTTAT
Found at i:11298670 original size:21 final size:23
Alignment explanation
Indices: 11298646--11298693 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
11298636 TAATTGGATA
11298646 AATTAAATTAATATTTT-T-TAT
1 AATTAAATTAATATTTTGTCTAT
11298667 AATTAAATTAATATTTTGTCTAT
1 AATTAAATTAATATTTTGTCTAT
11298690 AATT
1 AATT
11298694 TGATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.68
22 1 0.04
23 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTAAATTAATATTTTGTCTAT
Found at i:11300359 original size:25 final size:24
Alignment explanation
Indices: 11300331--11300377 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11300321 AAGCGTAATA
11300331 GGGAAAAGGAGATTCGATTTGTTGG
1 GGGAAAAGGAG-TTCGATTTGTTGG
* * *
11300356 GGGACAATGAGTTTGATTTGTT
1 GGGAAAAGGAGTTCGATTTGTT
11300378 AATTTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.26, C:0.04, G:0.36, T:0.34
Consensus pattern (24 bp):
GGGAAAAGGAGTTCGATTTGTTGG
Found at i:11308118 original size:17 final size:18
Alignment explanation
Indices: 11308084--11308121 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11308074 TCTTGTATCC
11308084 TTTAAAAGTATTTATTTT
1 TTTAAAAGTATTTATTTT
11308102 TTTAAAA-TA-TTAGTTTT
1 TTTAAAAGTATTTA-TTTT
11308119 TTT
1 TTT
11308122 GTTCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAAAAGTATTTATTTT
Found at i:11308767 original size:21 final size:21
Alignment explanation
Indices: 11308743--11308791 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11308733 TTAAAATTTG
**
11308743 AAAAAGAA-TTAAGTTTTTTTT
1 AAAAAGAATTTAAG-TAGTTTT
*
11308764 AAAAAAAATTTAAGTAGTTTT
1 AAAAAGAATTTAAGTAGTTTT
11308785 AAAAAGA
1 AAAAAGA
11308792 TAATGACCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAAGAATTTAAGTAGTTTT
Found at i:11315406 original size:16 final size:17
Alignment explanation
Indices: 11315385--11315421 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11315375 TTTGCTTCGC
11315385 TGTATT-GGATTAGAGG
1 TGTATTGGGATTAGAGG
11315401 TGTATTGGGATTAGAGG
1 TGTATTGGGATTAGAGG
11315418 TGTA
1 TGTA
11315422 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (17 bp):
TGTATTGGGATTAGAGG
Found at i:11315678 original size:18 final size:17
Alignment explanation
Indices: 11315657--11315691 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11315647 TTATTATTAA
*
11315657 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11315675 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11315692 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11315853 original size:120 final size:120
Alignment explanation
Indices: 11315640--11316599 Score: 1660
Period size: 120 Copynumber: 8.2 Consensus size: 120
11315630 ATCATATTTA
11315640 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11315705 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11315760 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11315825 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
11315880 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11315945 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11316000 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
11316065 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11316120 AACATAATTATTATTAAATATATTTTAATTAAACTATATAA-TT--T-AAA-----AA-AATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11316175 TGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11316230 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11316294 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11316349 AACATAATTATTATTAAATATATTTTAATTAAACTATATAA-TT--T--AA-----AA-AATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
11316403 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
11316458 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11316522 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
11316577 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
11316600 AACTTGAAAA
Statistics
Matches: 809, Mismatches: 9, Indels: 45
0.94 0.01 0.05
Matches are distributed among these distances:
109 101 0.12
110 105 0.13
111 4 0.00
113 5 0.01
115 2 0.00
116 3 0.00
117 1 0.00
118 6 0.01
119 185 0.23
120 397 0.49
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:11315918 original size:18 final size:17
Alignment explanation
Indices: 11315897--11315931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11315887 TTATTATTAA
*
11315897 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11315915 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11315932 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11316428 original size:109 final size:112
Alignment explanation
Indices: 11316055--11316599 Score: 893
Period size: 119 Copynumber: 4.8 Consensus size: 112
11316045 ATGAAATTCT
*
11316055 TAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
1 TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11316120 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAA
66 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAA
* *
11316167 -AA-AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
1 TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11316230 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAA
66 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT---AAA
11316280 TTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
1 ----TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
11316345 AATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AA
62 AATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAA
*
11316395 -AA-AATTAATGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
1 TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11316458 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAA
66 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT---AAA
11316508 TTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
1 ----TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATA
11316573 AATTAACATAATTATTATTAAATATAT
62 AATTAACATAATTATTATTAAATATAT
11316600 AACTTGAAAA
Statistics
Matches: 409, Mismatches: 5, Indels: 31
0.92 0.01 0.07
Matches are distributed among these distances:
109 104 0.25
110 106 0.26
111 2 0.00
113 5 0.01
115 2 0.00
118 4 0.01
119 186 0.45
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (112 bp):
TAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAA
Found at i:11316514 original size:228 final size:229
Alignment explanation
Indices: 11315939--11316599 Score: 1261
Period size: 228 Copynumber: 2.9 Consensus size: 229
11315929 AATTCTTAAT
*
11315939 AATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
1 AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
* *
11316004 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATT
66 TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAATATT
*
11316069 CTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTAT
130 CTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTAT
11316134 TAAATATATTTTAATTAAACTATATAATTTAAAAA
195 TAAATATATTTTAATTAAACTATATAATTTAAAAA
11316169 AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
1 AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
11316234 TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTC
66 TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTC
11316299 TTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
131 TTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
11316364 AAATATATTTTAATTAAACTATATAATTT-AAAA
196 AAATATATTTTAATTAAACTATATAATTTAAAAA
*
11316397 AATTAATGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACA
1 AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
11316462 TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTC
66 TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTC
11316527 TTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
131 TTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
11316592 AAATATAT
196 AAATATAT
11316600 AACTTGAAAA
Statistics
Matches: 426, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
228 206 0.48
229 115 0.27
230 105 0.25
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (229 bp):
AATTAATGTTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACA
TAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTC
TTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
AAATATATTTTAATTAAACTATATAATTTAAAAA
Found at i:11321783 original size:22 final size:22
Alignment explanation
Indices: 11321758--11321799 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11321748 TTTGCTGCAC
* *
11321758 TAAATAGGAACACATTCAAATT
1 TAAATAAGAACACATCCAAATT
11321780 TAAATAAGAACACATCCAAA
1 TAAATAAGAACACATCCAAA
11321800 CGCAAGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (22 bp):
TAAATAAGAACACATCCAAATT
Found at i:11322009 original size:24 final size:25
Alignment explanation
Indices: 11321981--11322041 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
11321971 ATTCAAACCA
11321981 GAATTGCAACTATAAAA-ACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
11322005 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
*
11322030 AAATTGCAACTA
1 GAATTGCAACTA
11322042 AAGTTTTAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (25 bp):
GAATTGCAACTATAAAATACCTCTT
Found at i:11325139 original size:28 final size:29
Alignment explanation
Indices: 11325086--11325155 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
11325076 TTTTAGATTT
11325086 TTAAATA-TAAAGTA--ATGAAAATTTTA
1 TTAAATATTAAAGTATTATGAAAATTTTA
11325112 GTTAAATATTAAAGTATTAT-AAAA-TTTA
1 -TTAAATATTAAAGTATTATGAAAATTTTA
11325140 -TAAA-ATTAAAGATATT
1 TTAAATATTAAAG-TATT
11325156 TTATTTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
25 7 0.18
26 8 0.21
27 7 0.18
28 11 0.28
29 4 0.10
30 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (29 bp):
TTAAATATTAAAGTATTATGAAAATTTTA
Found at i:11325667 original size:17 final size:19
Alignment explanation
Indices: 11325626--11325669 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
11325616 TTATGACTGT
*
11325626 AATTATAAACTTAATATAA
1 AATTATATACTTAATATAA
*
11325645 ACTTATATA-TTAAT-TAA
1 AATTATATACTTAATATAA
11325662 AATTATAT
1 AATTATAT
11325670 TGTATTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 5 0.23
19 7 0.32
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTATATACTTAATATAA
Found at i:11326363 original size:22 final size:22
Alignment explanation
Indices: 11326321--11326363 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11326311 TACAGCAAAA
* * *
11326321 TAGACTTTTAGCGGTGTTTTTT
1 TAGACCTTTAGCGGCGCTTTTT
11326343 TAGACCTTTAGCGGCGCTTTT
1 TAGACCTTTAGCGGCGCTTTT
11326364 AAGCGCCACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (22 bp):
TAGACCTTTAGCGGCGCTTTTT
Found at i:11326485 original size:43 final size:43
Alignment explanation
Indices: 11326437--11326573 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 43
11326427 TTATGTGAAG
** * *
11326437 AAACGCCACTAAAGGCCATGACCTTTAGCGGCGCTTCTGTCAC
1 AAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTATCAC
* * *
11326480 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAT
1 AAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTATCAC
* * * ** *
11326523 AAATGCCACTAAAAAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTATCAC
11326565 AAACGCCAC
1 AAACGCCAC
11326574 AAAAAATATA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.35
43 51 0.65
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (43 bp):
AAACGCCACTAAAGAACATGACCTTTAGCGACGCTTCTATCAC
Found at i:11326552 original size:42 final size:43
Alignment explanation
Indices: 11326437--11326590 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
11326427 TTATGTGAAG
*** * * *
11326437 AAACGCCACTAAAGGCCATGACCTTTAGCGGCGCTTCTGTCAC
1 AAACGCCACTAAAAAACATAACCTTTAGCGACGCTTCTATCAC
* * * * *
11326480 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAT
1 AAACGCCACTAAAAAACATAACCTTTAGCGACGCTTCTATCAC
* ** *
11326523 AAATGCCACTAAAAAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCACTAAAAAACATAACCTTTAGCGACGCTTCTATCAC
* *
11326565 AAACGCCAC-AAAAAATATAACATTTA
1 AAACGCCACTAAAAAACATAACCTTTA
11326591 AAAAATTTAT
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 7 0.08
42 34 0.37
43 51 0.55
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.21
Consensus pattern (43 bp):
AAACGCCACTAAAAAACATAACCTTTAGCGACGCTTCTATCAC
Found at i:11330881 original size:38 final size:38
Alignment explanation
Indices: 11330838--11330919 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
11330828 TAAAACAATT
* * * *
11330838 GATAAACCAAACTTTGTGAGATAAACATGTAAAAAGCA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
*
11330876 GATAAAAGAAAATTTGTGAGATAAACATATAAAAAACA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
11330914 GATAAA
1 GATAAA
11330920 GTTTGTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (38 bp):
GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
Found at i:11331738 original size:39 final size:39
Alignment explanation
Indices: 11331689--11331773 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
11331679 TGGGCCTAGG
* *
11331689 TTTTTTGCGGCGCTTTTCTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
* * * * *
11331728 TTTTTAGCGGCGTTTTTCGAAAAGCGCCGCTGATGCTTA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
11331767 TTTTTAG
1 TTTTTAG
11331774 TGGGAGACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
Found at i:11332365 original size:7 final size:7
Alignment explanation
Indices: 11332315--11332384 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
11332305 ACTAACTCTC
*
11332315 AACCTCT
1 AACCCCT
*
11332322 AACCCTT
1 AACCCCT
*
11332329 AACCCCA
1 AACCCCT
11332336 AACCCCT
1 AACCCCT
*
11332343 AACACCT
1 AACCCCT
**
11332350 AACTACT
1 AACCCCT
*
11332357 ATCCCCT
1 AACCCCT
* *
11332364 ATCCCTT
1 AACCCCT
11332371 AACCCCT
1 AACCCCT
11332378 AACCCCT
1 AACCCCT
11332385 TTTTTACAAT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCCT
Found at i:11332383 original size:21 final size:21
Alignment explanation
Indices: 11332315--11332384 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
11332305 ACTAACTCTC
* *
11332315 AACCTCTAACCCTTAACCCCA
1 AACCCCTAACCCTTAACCCCT
**
11332336 AACCCCTAACACC-TAACTACT
1 AACCCCTAAC-CCTTAACCCCT
* *
11332357 ATCCCCTATCCCTTAACCCCT
1 AACCCCTAACCCTTAACCCCT
11332378 AACCCCT
1 AACCCCT
11332385 TTTTTACAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCCCTAACCCTTAACCCCT
Found at i:11332392 original size:183 final size:184
Alignment explanation
Indices: 11332190--11332548 Score: 639
Period size: 183 Copynumber: 2.0 Consensus size: 184
11332180 AAACCCCTAT
11332190 CCCCTAACCCATCTTTTACAATTATATAAGAACTTAATTAATATATAAATTAAAAAATACTAATT
1 CCCCTAACCCATCTTTTACAATTATATAAGAACTTAATTAATATATAAATTAAAAAATACTAATT
*
11332255 AATTTAAACCTTAAACCCTAACCCGACCCCAAATCTCTAAACC-TTAAATCACTAACTCTCAACC
66 AATTTAAACCTTAAACCCTAACCAGACCCCAAATCTCTAAACCTTTAAATCACTAACTCTCAACC
* *
11332319 TCTAACCCTTAACCCCAAACCCCTAACACCTAACTACTATCCCCTATCCCTTAA
131 TCTAACCCCTAACCCCAAACCCCTAACACCTAACTACTAACCCCTATCCCTTAA
* *
11332373 CCCCTAACCCCTTTTTTACAATTATATAAGAACTTAATTAATATATAAATTAAAAAATACTAATT
1 CCCCTAACCCATCTTTTACAATTATATAAGAACTTAATTAATATATAAATTAAAAAATACTAATT
* *
11332438 AATTTAAACCTTAAACCCTAACCAGACCCCGAATCTCTAAACCTTTAAATCACTAACTCTTAACC
66 AATTTAAACCTTAAACCCTAACCAGACCCCAAATCTCTAAACCTTTAAATCACTAACTCTCAACC
*
11332503 TCTAACCCCTAACCCCAAACCCCTAACCCCTAACTACTAACCCCTA
131 TCTAACCCCTAACCCCAAACCCCTAACACCTAACTACTAACCCCTA
11332549 AACCTTATTT
Statistics
Matches: 167, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
183 104 0.62
184 63 0.38
ACGTcount: A:0.39, C:0.31, G:0.01, T:0.28
Consensus pattern (184 bp):
CCCCTAACCCATCTTTTACAATTATATAAGAACTTAATTAATATATAAATTAAAAAATACTAATT
AATTTAAACCTTAAACCCTAACCAGACCCCAAATCTCTAAACCTTTAAATCACTAACTCTCAACC
TCTAACCCCTAACCCCAAACCCCTAACACCTAACTACTAACCCCTATCCCTTAA
Found at i:11332508 original size:7 final size:7
Alignment explanation
Indices: 11332498--11332549 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
11332488 CACTAACTCT
*
11332498 TAACCTC
1 TAACCCC
11332505 TAACCCC
1 TAACCCC
11332512 TAACCCC
1 TAACCCC
*
11332519 AAACCCC
1 TAACCCC
11332526 TAACCCC
1 TAACCCC
**
11332533 TAACTAC
1 TAACCCC
11332540 TAACCCC
1 TAACCCC
11332547 TAA
1 TAA
11332550 ACCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:11332544 original size:21 final size:20
Alignment explanation
Indices: 11332490--11332549 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
11332480 CTTTAAATCA
*
11332490 CTAACTCTTAACCTCTAACCC
1 CTAACTC-TAACCCCTAACCC
* *
11332511 CTAACCCCAAACCCCTAACCC
1 CTAA-CTCTAACCCCTAACCC
11332532 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
11332550 ACCTTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:11332664 original size:14 final size:15
Alignment explanation
Indices: 11332645--11332677 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11332635 CTTAAACCAG
11332645 AATCCCT-ATTCCAT
1 AATCCCTGATTCCAT
*
11332659 AATCCCTGATTCTAT
1 AATCCCTGATTCCAT
11332674 AATC
1 AATC
11332678 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.36
Consensus pattern (15 bp):
AATCCCTGATTCCAT
Found at i:11333041 original size:81 final size:80
Alignment explanation
Indices: 11332948--11333174 Score: 294
Period size: 81 Copynumber: 2.8 Consensus size: 80
11332938 TGTTTTTGCT
11332948 GCGCTTTTTCAAAAACGCCGCTAAAAGCTAGAGCATTAGCGGCGCTTCTTT-AAAAACGCCGCTA
1 GCGC-TTTTCAAAAACGCCGCTAAAAGCT-GAGCATTAGCGGCGCTT-TTTCAAAAACGCCGCTA
* *
11333012 AAAGCATGAGCAATAGCG
63 AAAGCATAAGCAATAGCA
* * * *
11333030 GCGCTTTTCAAAAACGCCGCTAAAAGCTTGAGCAATAGCGGTGCTTTTTCAAAAATGTCGCTAAA
1 GCGCTTTTCAAAAACGCCGCTAAAAGC-TGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
* * * *
11333095 AGCCTAAGTATTAGTA
65 AGCATAAGCAATAGCA
* *
11333111 GCGTTTTTGAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTTTTCAAAAACGCCGCTAAAAG-CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
11333175 TGCCCCGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
80 3 0.02
81 117 0.93
82 6 0.05
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (80 bp):
GCGCTTTTCAAAAACGCCGCTAAAAGCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAA
GCATAAGCAATAGCA
Found at i:11333054 original size:40 final size:41
Alignment explanation
Indices: 11332948--11333174 Score: 300
Period size: 41 Copynumber: 5.6 Consensus size: 41
11332938 TGTTTTTGCT
11332948 GCGCTTTTTCAAAAACGCCGCTAAAAG-CTAGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCT-GAGCATTAGCG
* *
11332989 GCGCTTCTTT-AAAAACGCCGCTAAAAGCATGAGCAATAGCG
1 GCGCTT-TTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
* *
11333030 GCGC-TTTTCAAAAACGCCGCTAAAAGCTTGAGCAATAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
* * * * * **
11333070 GTGCTTTTTCAAAAATGTCGCTAAAAGCCTAAGTATTAGTA
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
*
11333111 GCG-TTTTTGAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
1 GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
11333151 GCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTTTTTCAAAAACGCCGCTAA
11333175 TGCCCCGAAA
Statistics
Matches: 160, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 67 0.42
41 86 0.54
42 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCG
Found at i:11337108 original size:72 final size:72
Alignment explanation
Indices: 11336986--11337155 Score: 256
Period size: 72 Copynumber: 2.4 Consensus size: 72
11336976 AAATCATATT
** * *
11336986 TAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAGA
1 TAAACAACTATTGATAAAACTAGATTTAACATAAATAAATAGAACATAAATTCAATATCCAAAAA
11337050 CCAAACA
66 CCAAACA
*
11337057 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAA
1 TAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAATAGAACATAAATTCAATATCCAAAA
11337121 ACCAAACA
65 ACCAAACA
*
11337129 TAAATAACTATTGATAAAACTAG-TTTA
1 TAAACAACTATTGATAAAACTAGATTTA
11337156 GCGTTGTTGT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 24 0.27
72 65 0.73
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (72 bp):
TAAACAACTATTGATAAAACTAGATTTAACATAAATAAATAGAACATAAATTCAATATCCAAAAA
CCAAACA
Found at i:11337601 original size:18 final size:18
Alignment explanation
Indices: 11337580--11337645 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
11337570 CCCATCAATT
11337580 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
11337598 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
** *
11337616 TGAACATCATTCAAAATA
1 TGAACATCATTTGAAATG
11337634 TGAACATCATTT
1 TGAACATCATTT
11337646 CTCATATACT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:11340627 original size:19 final size:19
Alignment explanation
Indices: 11340582--11340629 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
11340572 ACAGCTTCAT
* *
11340582 AATATTAAACAGAAGAGGA
1 AATATAAAACAGAAGAAGA
*
11340601 ACTAATAAAACAGAAGAAGA
1 AAT-ATAAAACAGAAGAAGA
11340621 AATATAAAA
1 AATATAAAA
11340630 GAAACTCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.65, C:0.06, G:0.15, T:0.15
Consensus pattern (19 bp):
AATATAAAACAGAAGAAGA
Found at i:11353998 original size:30 final size:30
Alignment explanation
Indices: 11353964--11354039 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
11353954 TGATTGATGC
* *
11353964 ATCCCTTTTCGTAATTCAATAACCGAAGTT
1 ATCCCTTTTCATAATTCAACAACCGAAGTT
* *
11353994 ATCCCTTTTCATAGTTCGACAACCGAAGTT
1 ATCCCTTTTCATAATTCAACAACCGAAGTT
11354024 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
11354040 TGATGGTCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAACAACCGAAGTT
Found at i:11354058 original size:30 final size:30
Alignment explanation
Indices: 11354024--11354221 Score: 181
Period size: 30 Copynumber: 6.7 Consensus size: 30
11354014 AACCGAAGTT
11354024 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** * *
11354054 ATCCCTTTTCATTGTTCGATGGTCGTCGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * ** *
11354084 ATCCCTTTTCATAATTTGATAGCCGAAACT
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ***
11354114 ATCCCTTTTCATAGA-TTGATAG-CCAAAGCC
1 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
* *
11354144 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
11354174 ATCCCTTTTCAT--TGCTGATGGTCGTCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
*
11354203 AT-CATTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
11354222 AGCCAAAGCT
Statistics
Matches: 136, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
28 9 0.07
29 23 0.17
30 101 0.74
31 3 0.02
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:11354058 original size:60 final size:60
Alignment explanation
Indices: 11353994--11354185 Score: 215
Period size: 60 Copynumber: 3.2 Consensus size: 60
11353984 AACCGAAGTT
* * **
11353994 ATCCCTTTTCATAGTTCGACAACCGAAGTTATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
* * * ** * * ** *
11354054 ATCCCTTTTCATTGTTCGATGGTCGTCGCCATCCCTTTTCATAATTTGATAGCCGAAACT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
11354114 ATCCCTTTTCATAGATT-GATAGCCAAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAG-TTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
11354174 ATCCCTTTTCAT
1 ATCCCTTTTCAT
11354186 TGCTGATGGT
Statistics
Matches: 104, Mismatches: 27, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
60 102 0.98
61 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.37
Consensus pattern (60 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:11354092 original size:90 final size:90
Alignment explanation
Indices: 11353994--11354185 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 90
11353984 AACCGAAGTT
* ** * ***
11353994 ATCCCTTTTCATAGTTCGACAACCGAAGTTATCCCTTTTCATA-ATTTGATGGTCGTCA-CCATC
1 ATCCCTTTTCATAATTCGACAACCGAAACTATCCCTTTTCATAGA-TTGATAG-CCAAAGCCATC
* *
11354057 CCTTTTCATTGTTCGATGGTCGTCGCC
64 CCTTTTCATAGTTCGATGGTCGTCACC
* * *
11354084 ATCCCTTTTCATAATTTGATAGCCGAAACTATCCCTTTTCATAGATTGATAGCCAAAGCCATCCC
1 ATCCCTTTTCATAATTCGACAACCGAAACTATCCCTTTTCATAGATTGATAGCCAAAGCCATCCC
11354149 TTTTCATAGTTCGATGGTCGTCACC
66 TTTTCATAGTTCGATGGTCGTCACC
11354174 ATCCCTTTTCAT
1 ATCCCTTTTCAT
11354186 TGCTGATGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 2 0.02
90 85 0.97
91 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.37
Consensus pattern (90 bp):
ATCCCTTTTCATAATTCGACAACCGAAACTATCCCTTTTCATAGATTGATAGCCAAAGCCATCCC
TTTTCATAGTTCGATGGTCGTCACC
Found at i:11355967 original size:19 final size:19
Alignment explanation
Indices: 11355932--11355971 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11355922 TAGTGGAGAA
*
11355932 TTCACCATCTTCCCCATTT
1 TTCACCATCGTCCCCATTT
11355951 TTCA-CATCGTCCACCATTT
1 TTCACCATCGTCC-CCATTT
11355970 TT
1 TT
11355972 TTAGAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.17, C:0.38, G:0.03, T:0.42
Consensus pattern (19 bp):
TTCACCATCGTCCCCATTT
Found at i:11357495 original size:33 final size:33
Alignment explanation
Indices: 11357426--11357523 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
11357416 CTATACCCAT
* * *
11357426 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
11357463 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
11357496 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
11357524 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:11357783 original size:41 final size:41
Alignment explanation
Indices: 11357738--11357893 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
11357728 ACCGGCTCTT
*
11357738 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11357779 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
11357820 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11357861 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11357894 TAACGATAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 97 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11364655 original size:33 final size:33
Alignment explanation
Indices: 11364586--11364683 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
11364576 CTATACCCAT
* * *
11364586 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
11364623 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
11364656 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
11364684 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:11364943 original size:41 final size:41
Alignment explanation
Indices: 11364898--11365053 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
11364888 ACCGGCTCTT
*
11364898 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11364939 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11364980 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11365021 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11365054 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11367099 original size:20 final size:21
Alignment explanation
Indices: 11367059--11367100 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11367049 ATTTGATAAA
**
11367059 TTTTTTATAACAAATTTAAGT
1 TTTTTTATAACAAATAAAAGT
11367080 TTTTTTATAA-AAATAAAAGT
1 TTTTTTATAACAAATAAAAGT
11367100 T
1 T
11367101 AAAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTTTATAACAAATAAAAGT
Found at i:11367233 original size:20 final size:20
Alignment explanation
Indices: 11367208--11367247 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11367198 ACTTTAAAAT
11367208 CAAGTTAAAATGT-TTTTAAC
1 CAAGTTAAAA-GTCTTTTAAC
11367228 CAAGTTAAAAGTCTTTTAAC
1 CAAGTTAAAAGTCTTTTAAC
11367248 AAATCAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
CAAGTTAAAAGTCTTTTAAC
Found at i:11389865 original size:19 final size:18
Alignment explanation
Indices: 11389820--11389924 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 18
11389810 GTGAATTTTG
11389820 TAAAGG-TTAAAAGTTAAAT
1 TAAAGGATTAAAA-TT-AAT
*
11389839 TATA-GATTAAAATTAAT
1 TAAAGGATTAAAATTAAT
**
11389856 TAAAGGGATT-AAA-TCGT
1 TAAA-GGATTAAAATTAAT
11389873 GTAAAGG-TTAAAAGTTAAAT
1 -TAAAGGATTAAAA-TT-AAT
*
11389893 TATA-GATTAAAATTAAT
1 TAAAGGATTAAAATTAAT
11389910 TAAAGAGATTAAAAT
1 TAAAG-GATTAAAAT
11389925 AGAAAATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
16 2 0.03
17 19 0.28
18 13 0.19
19 32 0.48
20 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.33
Consensus pattern (18 bp):
TAAAGGATTAAAATTAAT
Found at i:11389877 original size:54 final size:54
Alignment explanation
Indices: 11389818--11389922 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
11389808 AAGTGAATTT
*
11389818 TGTAAAGGTTAAAAGTTAAATTATAGATTAAAATTAATTAAAGGGATTAAATCG
1 TGTAAAGGTTAAAAGTTAAATTATAGATTAAAATTAATTAAAGAGATTAAATCG
11389872 TGTAAAGGTTAAAAGTTAAATTATAGATTAAAATTAATTAAAGAGATTAAA
1 TGTAAAGGTTAAAAGTTAAATTATAGATTAAAATTAATTAAAGAGATTAAA
11389923 ATAGAAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.50, C:0.01, G:0.15, T:0.33
Consensus pattern (54 bp):
TGTAAAGGTTAAAAGTTAAATTATAGATTAAAATTAATTAAAGAGATTAAATCG
Found at i:11390295 original size:30 final size:30
Alignment explanation
Indices: 11390261--11390326 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
11390251 GTGACTTGGT
* *
11390261 CGTGTGAGACACACGGCTTGATGACACGGC
1 CGTGTGAGACACACGGCTTGACGACACAGC
* *
11390291 CGTGTGAGATACACGGCTTGACGACACAGT
1 CGTGTGAGACACACGGCTTGACGACACAGC
11390321 CGTGTG
1 CGTGTG
11390327 TCATCTGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.20
Consensus pattern (30 bp):
CGTGTGAGACACACGGCTTGACGACACAGC
Found at i:11391815 original size:35 final size:35
Alignment explanation
Indices: 11391772--11391900 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 35
11391762 TTTGGTTGGA
* *
11391772 AAATGATCTACTGGCTCTACAGAGCAGCATTATGG
1 AAATGATCTACTAGCTCTACGGAGCAGCATTATGG
* * * * *
11391807 AAATGATCTAGTAGTTCTATGGAG-TG-ATACCATGG
1 AAATGATCTACTAGCTCTACGGAGCAGCAT--TATGG
*
11391842 AAATGGTCTACTAGCTCTACGGAGCAGCATTATGG
1 AAATGATCTACTAGCTCTACGGAGCAGCATTATGG
*
11391877 AAATGATCTACTGGCTCTACGGAG
1 AAATGATCTACTAGCTCTACGGAG
11391901 TGACACCATG
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
33 2 0.03
34 1 0.01
35 69 0.92
36 1 0.01
37 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (35 bp):
AAATGATCTACTAGCTCTACGGAGCAGCATTATGG
Done.