Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 32 of 218
Found at i:10030339 original size:17 final size:18
Alignment explanation
Indices: 10030317--10030354 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10030307 AAGAAAAATG
10030317 TAAAAA-TAT-AATATTTA
1 TAAAAATTATAAAT-TTTA
10030334 TAAAAATTATAAATTTTA
1 TAAAAATTATAAATTTTA
10030352 TAA
1 TAA
10030355 TTATTTCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 10 0.53
19 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTATAAATTTTA
Found at i:10044791 original size:16 final size:16
Alignment explanation
Indices: 10044768--10044807 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
10044758 CGTTTGGTTC
10044768 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
10044784 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
10044800 GCTGTAAT
1 GCTGTAAT
10044808 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:10044853 original size:45 final size:44
Alignment explanation
Indices: 10044789--10044881 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
10044779 ATAGAGGTGT
* *
10044789 AATGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATT-AATGTGTTTAGTTGAATGG
*
10044834 AATGGAATAGAACTGTAATAGTATTATTGTGTTTAGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTAGTTGAATGG
10044878 AATG
1 AATG
10044882 ATGTTATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.05
44 21 0.48
45 21 0.48
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTAGTTGAATGG
Found at i:10045054 original size:24 final size:21
Alignment explanation
Indices: 10044977--10045089 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
10044967 GTTATTAAAT
10044977 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* * *
10044999 -ATAATAAATAATTTAATCATAT
1 TTTAATAAATTA-TTAAT-ATAA
10045021 TTTAACATAATTATTATTAAATATAA
1 TTT-A-ATAA--ATTATT-AATATAA
*
10045047 TTTAATAAA-AATT-ATATAA
1 TTTAATAAATTATTAATATAA
10045066 TTTAATAAAATTATTAATATAA
1 TTTAAT-AAATTATTAATATAA
10045088 TT
1 TT
10045090 ATTCTTATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 17 0.24
22 12 0.17
23 1 0.01
24 5 0.07
25 5 0.07
26 8 0.11
27 6 0.08
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:10045065 original size:19 final size:18
Alignment explanation
Indices: 10045041--10045088 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
10045031 TTATTATTAA
10045041 ATATAATTTAATAAAAATT
1 ATATAATTTAAT-AAAATT
10045060 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
*
10045078 AT-TAATATAAT
1 ATATAATTTAAT
10045089 TATTCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:10045105 original size:56 final size:55
Alignment explanation
Indices: 10045006--10045112 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 55
10044996 TAAATAATAA
* *
10045006 ATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATTAT
1 ATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATAAAAATTAT
* * *
10045062 ATAATTTAATAAAATTATTAATATAATTATTCTT-ATATGAATTTACTAAAA
1 ATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATAAAA
10045113 TCATAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 4 0.09
56 25 0.57
57 15 0.34
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.46
Consensus pattern (55 bp):
ATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATAAAAATTAT
Found at i:10045378 original size:23 final size:23
Alignment explanation
Indices: 10045351--10045396 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
10045341 TCATAATATC
*
10045351 CAAACATAATTTTCATATATTAA
1 CAAACATAATATTCATATATTAA
10045374 CAAACATAATATTCATATATTAA
1 CAAACATAATATTCATATATTAA
10045397 TAAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CAAACATAATATTCATATATTAA
Found at i:10046788 original size:43 final size:44
Alignment explanation
Indices: 10046724--10046988 Score: 319
Period size: 43 Copynumber: 6.2 Consensus size: 44
10046714 GCGTCGCTAA
* * *
10046724 CTTTAGTGGCGCTTTT-CCCACAAACACCGCTAAAGACCATTAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
* *
10046767 CTTTAGCGGCGCTTTT-TCCACAAACACCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
* * *
10046810 CTTTAGCGACG-TTTTCCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
* * *
10046853 CTTTAGCAGCACTTTT-CCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
* * * *
10046896 ATTTAGCGACGCTTTTA-TCACAAACGCCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
* * *
10046939 CTTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAAGAACA-AAC
1 CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
10046981 CTTTAGCG
1 CTTTAGCG
10046989 ACACTTCTAG
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
42 14 0.07
43 179 0.91
44 4 0.02
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.23
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTACCCACAAACGCCGCTAAAGACCATGAC
Found at i:10046885 original size:129 final size:128
Alignment explanation
Indices: 10046735--10047012 Score: 366
Period size: 129 Copynumber: 2.2 Consensus size: 128
10046725 TTTAGTGGCG
* ** * *
10046735 CTTTTCCCACAAACACCGCTAAAGACCATTACCTTTAGCGGCGCTTTT-TCCACAAACACCGCTA
1 CTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTAT-CACAAACACCGCTA
* *
10046799 AAGACCATGACCTTTAGCGACG-TTTTCCCCACAAACGCCGCTAAAGACCAAGACCTTTAGC-AG
65 AAGACCATGACCTTTAGCGACGCTTTT-ACCACAAACGCCGCTAAAGAACAA-ACCTTTAGCGA-
10046862 CA
127 CA
* *
10046864 CTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAAACGCCGCTAT
1 CTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAAACACCGCTAA
* *
10046929 AGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACAAACCTTTAGCGACA
66 AGACCATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACAAACCTTTAGCGACA
* **
10046992 CTTCTAGCA-AAACGCCGCTAA
1 CTTTTCCCACAAACGCCGCTAA
10047013 GAACATAATC
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
127 12 0.09
128 17 0.13
129 98 0.74
130 5 0.04
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (128 bp):
CTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAAACACCGCTAA
AGACCATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACAAACCTTTAGCGACA
Found at i:10047026 original size:41 final size:42
Alignment explanation
Indices: 10046724--10047026 Score: 224
Period size: 43 Copynumber: 7.1 Consensus size: 42
10046714 GCGTCGCTAA
* * ** * * *
10046724 CTTTAGTGGCGCTTTTCCCACAAACACCGCTAAAGACCATTAC
1 CTTTAGCGACGCTTTTATCACAAACGCCGCT-AAGAACATAAC
* * * *
10046767 CTTTAGCGGCGCTTTT-TCCACAAACACCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTAT-CACAAACGCCGCT-AAGAACATAAC
** *
10046810 CTTTAGCGACG-TTTTCCCCACAAACGCCGCTAAAGACCA-AGAC
1 CTTTAGCGACGCTTTT-ATCACAAACGCCGCT-AAGAACATA-AC
* ** *
10046853 CTTTAGC-AGCACTTTTCCCACAAACGCCGCTAAAGACCA-AGAC
1 CTTTAGCGA-CGCTTTTATCACAAACGCCGCT-AAGAACATA-AC
* * *
10046896 ATTTAGCGACGCTTTTATCACAAACGCCGCTATAGACCATGAC
1 CTTTAGCGACGCTTTTATCACAAACGCCGCTA-AGAACATAAC
*
10046939 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACA-AAC
1 CTTTAGCGACGCTTTTATCACAAACGCCGCT-AAGAACATAAC
* * * *
10046981 CTTTAGCGACACTTCTAGCA-AAACGCCGCTAAGAACATAAT
1 CTTTAGCGACGCTTTTATCACAAACGCCGCTAAGAACATAAC
10047022 CTTTA
1 CTTTA
10047027 AAAAAATTTA
Statistics
Matches: 227, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
40 7 0.03
41 17 0.07
42 24 0.11
43 173 0.76
44 6 0.03
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (42 bp):
CTTTAGCGACGCTTTTATCACAAACGCCGCTAAGAACATAAC
Found at i:10051379 original size:22 final size:22
Alignment explanation
Indices: 10051323--10051381 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
10051313 GTATGTTTGT
* * *
10051323 AAAGTTGGGGGTTTCAAGGGGGG
1 AAAGTTGGGGATTT-TAGGCGGG
*
10051346 AAA-TTAGGGATTTTAGGCGGG
1 AAAGTTGGGGATTTTAGGCGGG
10051367 AAAGTTGGGGATTTT
1 AAAGTTGGGGATTTT
10051382 GGGGGAGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.30
22 18 0.60
23 3 0.10
ACGTcount: A:0.25, C:0.03, G:0.42, T:0.29
Consensus pattern (22 bp):
AAAGTTGGGGATTTTAGGCGGG
Found at i:10052276 original size:82 final size:82
Alignment explanation
Indices: 10052207--10052365 Score: 228
Period size: 82 Copynumber: 1.9 Consensus size: 82
10052197 TTACACCTTG
*
10052207 TTTAATATATAAATTAAAAAACACCAATTAATCTAAATCATAAACCCTAACCCGACCCCGAATCC
1 TTTAATATATAAATTAAAAAACACCAATTAATCTAAACCATAAACCCTAACCCGACCCCGAATCC
10052272 CTAACCCCTAAACATTA
66 CTAACCCCTAAACATTA
* * * * ** *
10052289 TTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAACCCCTAACCTAACACCGAATCC
1 TTTAATATATAAATTAAAAAACACCAATTAATCTAAACCATAAACCCTAACCCGACCCCGAATCC
* *
10052354 ATAAACCCTAAA
66 CTAACCCCTAAA
10052366 TCCCTAACTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (82 bp):
TTTAATATATAAATTAAAAAACACCAATTAATCTAAACCATAAACCCTAACCCGACCCCGAATCC
CTAACCCCTAAACATTA
Found at i:10053000 original size:42 final size:41
Alignment explanation
Indices: 10052852--10053004 Score: 227
Period size: 41 Copynumber: 3.7 Consensus size: 41
10052842 AAATGTTTTT
* *
10052852 GCGGCGCTTTTTTAAAAACGCCGCTAAAG-TCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGAT-CTGAGCATTA
** *
10052893 GCGGCGCTTTCCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
10052934 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
10052975 GCGGCGCTTTTTTTAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAG
10053005 CCCCGAAAGG
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 79 0.78
42 22 0.22
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:10053089 original size:41 final size:41
Alignment explanation
Indices: 10053043--10053155 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 41
10053033 TGCTTAGGTT
**
10053043 TTTAGCGGCGTTTTTTGGAAAAACGCCGCTAATGCTTGATC
1 TTTAGCGGCGTTTTTTGGAAAAACGCCGCTAATGCTCCATC
** * * *
10053084 TTTAGCGGCG-TTTTACGTAAAGCGCCGCTAATGCTCCATT
1 TTTAGCGGCGTTTTTTGGAAAAACGCCGCTAATGCTCCATC
* ***
10053124 TTTAGTGGCGTTTTTTGTCCAAACGCCGCTAA
1 TTTAGCGGCGTTTTTTGGAAAAACGCCGCTAA
10053156 AAACGCTGCT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 32 0.56
41 25 0.44
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTGGAAAAACGCCGCTAATGCTCCATC
Found at i:10055701 original size:50 final size:51
Alignment explanation
Indices: 10055586--10055725 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 51
10055576 GATAATAACA
* * * **
10055586 TGCCAAAACCATGTCCCAGCCATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGG
* * * * *
10055637 TGCCCATACCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTTGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGG
* * *
10055687 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATC
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGATC
10055726 TCTTTACCCA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 40 0.55
51 33 0.45
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (51 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATATCGG
Found at i:10058464 original size:23 final size:20
Alignment explanation
Indices: 10058432--10058472 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
10058422 GGATGGAAAA
10058432 TATTTTTTAAATTATATATTAT
1 TATTTTTT-AA-TATATATTAT
10058454 TATTTATTTAATATATATT
1 TATTT-TTTAATATATATT
10058473 TCTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 7 0.39
23 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTTTTAATATATATTAT
Found at i:10059157 original size:25 final size:26
Alignment explanation
Indices: 10059115--10059167 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
10059105 GATTCGACTC
* *
10059115 AAATTTCAATTCATTTAAT-TAAAAA
1 AAATTTAAATTCAATTAATATAAAAA
* *
10059140 AAATTTAAATTGAATTAATATAATAA
1 AAATTTAAATTCAATTAATATAAAAA
10059166 AA
1 AA
10059168 TAAAAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (26 bp):
AAATTTAAATTCAATTAATATAAAAA
Found at i:10059389 original size:16 final size:15
Alignment explanation
Indices: 10059364--10059402 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
10059354 ACCGTAAAAA
10059364 ATAT-TATAATTTAT
1 ATATATATAATTTAT
*
10059378 TTATAATATAATTTAT
1 ATAT-ATATAATTTAT
10059394 ATATATATA
1 ATATATATA
10059403 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 5 0.24
16 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATATATAATTTAT
Found at i:10059406 original size:13 final size:12
Alignment explanation
Indices: 10059364--10059429 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
10059354 ACCGTAAAAA
*
10059364 ATATTATAATTT
1 ATATTATAATAT
10059376 AT-TTATAATAT
1 ATATTATAATAT
10059387 A-ATTTATATATAT
1 ATA-TTATA-ATAT
*
10059400 ATATTATAAAAAT
1 ATATTAT-AATAT
*
10059413 ATATTCATAAAAT
1 ATATT-ATAATAT
10059426 ATAT
1 ATAT
10059430 ATAGTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
11 9 0.20
12 7 0.15
13 26 0.57
14 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:10066903 original size:31 final size:31
Alignment explanation
Indices: 10066865--10066938 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
10066855 AATTCCCTTT
10066865 TATCATTATATTAAAATATTTAAATATAATC
1 TATCATTATATTAAAATATTTAAATATAATC
* * * *
10066896 TATCATTATAATAAATTATTTAAATATTATT
1 TATCATTATATTAAAATATTTAAATATAATC
*
10066927 TATTATTATATT
1 TATCATTATATT
10066939 TAAGTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (31 bp):
TATCATTATATTAAAATATTTAAATATAATC
Found at i:10066949 original size:31 final size:31
Alignment explanation
Indices: 10066863--10066955 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
10066853 AAAATTCCCT
* * *
10066863 TTTATCATTATATTAAAATATTTAAATATAA
1 TTTATCATTATATTTAAATTTTTAAATATTA
* *
10066894 TCTATCATTATA-ATAAATTATTTAAATATTA
1 TTTATCATTATATTTAAATT-TTTAAATATTA
* *
10066925 TTTATTATTATATTTAAGTTTTTAAAATATT
1 TTTATCATTATATTTAAATTTTT-AAATATT
10066956 TTATGTATTG
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 4 0.08
31 34 0.68
32 12 0.24
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (31 bp):
TTTATCATTATATTTAAATTTTTAAATATTA
Found at i:10069986 original size:17 final size:17
Alignment explanation
Indices: 10069964--10069996 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10069954 ATATTTTTTA
10069964 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
10069981 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
10069997 TATTAAATAT
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:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:10072076 original size:2 final size:2
Alignment explanation
Indices: 10072033--10072058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10072023 ATTTTTTCCC
10072033 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
10072059 TGACAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10077543 original size:3 final size:3
Alignment explanation
Indices: 10077535--10077588 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
10077525 TGCCAAATGC
**
10077535 ATT ATT ATT ATT ATT -TT -TT GACA ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
10077579 ATT ATT ATT A
1 ATT ATT ATT A
10077589 AGAAGAGGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10079521 original size:26 final size:27
Alignment explanation
Indices: 10079469--10079521 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10079459 AAAATATATG
10079469 AATAATATAATATATAAAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
10079496 AATAATATAATATAT-AAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
10079522 TCTTAACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (27 bp):
AATAATATAATATATAAAAAAACACTA
Found at i:10085529 original size:28 final size:30
Alignment explanation
Indices: 10085464--10085531 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
10085454 TATTTTATTA
* *
10085464 TGGTACATGTACTTTCATAAAATGTCCAATG
1 TGGTACTTGTACTTT-AGAAAATGTCCAATG
**
10085495 TAATACTTGTACTTT-GAAAATGT-CAATG
1 TGGTACTTGTACTTTAGAAAATGTCCAATG
10085523 TGGTACTTG
1 TGGTACTTG
10085532 AACTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
31 12 0.39
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (30 bp):
TGGTACTTGTACTTTAGAAAATGTCCAATG
Found at i:10100195 original size:2 final size:2
Alignment explanation
Indices: 10100188--10100213 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10100178 TCAAAGAAAA
10100188 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
10100214 CGCGTGGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10104244 original size:27 final size:26
Alignment explanation
Indices: 10104214--10104264 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10104204 ACTAAAGCAT
* *
10104214 ATTGACGATAAAGTTAAAAATAAATAA
1 ATTGA-GAGAAAGTTAAAAAAAAATAA
*
10104241 ATTGAGAGAAATTTAAAAAAAAAT
1 ATTGAGAGAAAGTTAAAAAAAAAT
10104265 TAGAGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (26 bp):
ATTGAGAGAAAGTTAAAAAAAAATAA
Found at i:10104793 original size:23 final size:24
Alignment explanation
Indices: 10104765--10104812 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10104755 GTTTTGGTGC
*
10104765 TGTTATTTTT-CTGCTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
*
10104788 TGTTATTTTTGCTATTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
10104812 T
1 T
10104813 ATTTGTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.71
Consensus pattern (24 bp):
TGTTATTTTTGCTACTGTTTTTGT
Found at i:10104811 original size:21 final size:22
Alignment explanation
Indices: 10104765--10104816 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
10104755 GTTTTGGTGC
*
10104765 TGTTATTTTTCTGCTGTTTTTGT
1 TGTTA-TTTTCTGCTATTTTTGT
10104788 TGTTATTTT-TGCTATTGTTT-T
1 TGTTATTTTCTGCTATT-TTTGT
10104809 TGTTATTT
1 TGTTATTT
10104817 GTACTGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 15 0.56
22 7 0.26
23 5 0.19
ACGTcount: A:0.08, C:0.06, G:0.15, T:0.71
Consensus pattern (22 bp):
TGTTATTTTCTGCTATTTTTGT
Found at i:10106105 original size:98 final size:99
Alignment explanation
Indices: 10105922--10106118 Score: 254
Period size: 98 Copynumber: 2.0 Consensus size: 99
10105912 TATTCATTGA
* *
10105922 TTAACTCCGATTGCGTCATTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAG
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
*
10105987 ATTGGAGTATTGATTAATTACTTTATAATTCAAT
66 ATCGGAGTATTGATTAATTACTTTATAATTCAAT
* * * * * * * *
10106021 TTAATTCCGATTGCGTCACTGTTTTGGTTCAGTT-AGAAAATGTGAGAGTT-TGGATTTCTTTAA
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGG-TTACTTTAA
* *
10106084 CATCGGATTATTTATTAATTACTTTATAATTCAAT
65 CATCGGAGTATTGATTAATTACTTTATAATTCAAT
10106119 AGGTATTTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
97 2 0.02
98 52 0.62
99 30 0.36
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (99 bp):
TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
ATCGGAGTATTGATTAATTACTTTATAATTCAAT
Found at i:10110573 original size:15 final size:15
Alignment explanation
Indices: 10110550--10110589 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10110540 TGAGCAATCA
* *
10110550 AATTGGTTCGAGATT
1 AATTTGTTCAAGATT
10110565 AATTTGTTCAAGATT
1 AATTTGTTCAAGATT
10110580 AATTTGTTCA
1 AATTTGTTCA
10110590 GTTTGGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (15 bp):
AATTTGTTCAAGATT
Found at i:10124722 original size:42 final size:42
Alignment explanation
Indices: 10124603--10124730 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
10124593 TTTTGCGAAC
* * * * *
10124603 TTTCGTGTTAACTCATATGAGTTTCAGTTTAACCCTATT-AGT
1 TTTCGT-TCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
*
10124645 TTTCGTTCAGCTCTCT-TGAGCTTCAGTTTAACCCTTTTGGGT
1 TTTCGTTCAACTCT-TATGAGCTTCAGTTTAACCCTTTTGGGT
* * *
10124687 TTTCGTTCAACTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
10124729 TT
1 TT
10124731 CTGTTTAGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 26 0.36
42 47 0.64
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
Found at i:10124745 original size:42 final size:42
Alignment explanation
Indices: 10124618--10124752 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
10124608 TGTTAACTCA
* * ** * *
10124618 TATGAGTTTCAGTTTAACCC-TATTAGTTTTCGTTCAGCTCT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTTCGTTCAACACT
* * *
10124659 CT-TGAGCTTCAGTTTAACCCTTTTGGGTTTTCGTTCAACTCT
1 -TATGAGCTTCAGTTCAACCCTTATGGGTTTTCGTTCAACACT
* * *
10124701 TATGAGCTTCCGTTCAACCCTTATGGG-TTTCTGTTTAGCACT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTTC-GTTCAACACT
*
10124743 TATGTGCTTC
1 TATGAGCTTC
10124753 TATGCTACCT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 22 0.28
42 56 0.72
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTCAACCCTTATGGGTTTTCGTTCAACACT
Found at i:10132288 original size:42 final size:42
Alignment explanation
Indices: 10132208--10132321 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
10132198 TGTTAACTCA
* *
10132208 TATGAGTTTCAGTTTAACCC-TATTGGTTTCCATTCAGCTC-
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
*
10132248 TATTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TA-TGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
* *
10132291 TATGAGCTTCCGTTCAACCCTTATGGGTTTC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTC
10132322 TGTTTAGCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.03
41 17 0.26
42 45 0.68
43 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCT
Found at i:10132294 original size:21 final size:21
Alignment explanation
Indices: 10132268--10132336 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
10132258 CAGTTTAACC
*
10132268 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCA
* * * *
10132289 CTTATGAGCTTCCGTTCAACC
1 CTTATGGGTTTCCGTTCAGCA
* *
10132310 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGTTTCCGTTCAGCA
10132331 CTTATG
1 CTTATG
10132337 TGCTTCTGTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.42
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAGCA
Found at i:10132335 original size:42 final size:42
Alignment explanation
Indices: 10132208--10132342 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 42
10132198 TGTTAACTCA
* * * * *
10132208 TATGAGTTTCAGTTTAACCC-TATTGGTTTCCATTCAGCTC-
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCACT
* *
10132248 TATTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TA-TGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCACT
* * *
10132291 TATGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCACT
*
10132333 TATGTGCTTC
1 TATGAGCTTC
10132343 TGTGCAGCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 17 0.20
42 62 0.75
43 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCACT
Found at i:10145794 original size:25 final size:24
Alignment explanation
Indices: 10145744--10145795 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
10145734 TTGTCTTGAC
** * *
10145744 TATGTATTTGGTTTATGTTTGGGT
1 TATGTATTTGGACTATGTTAGCGT
10145768 TATGTAATTTGGACTATGTTAGCGT
1 TATGT-ATTTGGACTATGTTAGCGT
10145793 TAT
1 TAT
10145796 ATTTGACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATTTGGACTATGTTAGCGT
Found at i:10150526 original size:24 final size:24
Alignment explanation
Indices: 10150499--10150581 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
10150489 GCCATTAACA
* *
10150499 GGAAGCTCATGTGAGCCAATATCT-
1 GGAAGCTCAAGCGAGCCAATAT-TG
* *
10150523 GGAAGGTTAAGCGAGCCAATATTG
1 GGAAGCTCAAGCGAGCCAATATTG
* * *
10150547 GGAAGCTCTAGAGAGCCAATTAATTA
1 GGAAGCTCAAGCGAGCCAA-T-ATTG
10150573 GGAAGCTCA
1 GGAAGCTCA
10150582 TGAAAAAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 33 0.72
25 1 0.02
26 11 0.24
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (24 bp):
GGAAGCTCAAGCGAGCCAATATTG
Found at i:10153010 original size:20 final size:19
Alignment explanation
Indices: 10152987--10153094 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 19
10152977 AGCATGGATA
10152987 TGCTATCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
* * *
10153007 TGCTAACAAGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
*
10153027 TGCTATCAAGAGCATTGTAG
1 TGCTATCAAGAGCA-CGTAG
* * * *
10153047 TGCTATTAGGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
* *
10153067 TACTGTCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
10153087 TGCTATCA
1 TGCTATCA
10153095 GGAATACGAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 58 0.91
21 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (19 bp):
TGCTATCAAGAGCACGTAG
Found at i:10153172 original size:40 final size:40
Alignment explanation
Indices: 10152992--10153178 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
10152982 GGATATGCTA
* * * *
10152992 TCAAGAGCACCGTAGTGCTAACAAGAGTACGAAAGTGCTA
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
** *
10153032 TCAAGAGCATTGTAGTGCTATTAGGAGTACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
10153072 TCAAGAGCACCGTAGTGCTATCAGGAATACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
10153112 TCAAGAGCACCATTA-TGCTATCAGGAGTACGAAAGTACTG
1 TCAAGAGCACC-GTAGTGCTATCAGGAGTACGAAAGTACTG
* * * *
10153152 TTAGGAGCACCATAGTGCTATTAGGAG
1 TCAAGAGCACCGTAGTGCTATCAGGAG
10153179 CACTTATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.97
41 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (40 bp):
TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
Found at i:10153175 original size:20 final size:20
Alignment explanation
Indices: 10153116--10153181 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
10153106 GTACTGTCAA
*
10153116 GAGCACCATTA-TGCTATCAG
1 GAGCACCA-TAGTGCTATTAG
* * * * *
10153136 GAGTACGAAAGTACTGTTAG
1 GAGCACCATAGTGCTATTAG
10153156 GAGCACCATAGTGCTATTAG
1 GAGCACCATAGTGCTATTAG
10153176 GAGCAC
1 GAGCAC
10153182 TTATTTAAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (20 bp):
GAGCACCATAGTGCTATTAG
Found at i:10169990 original size:39 final size:39
Alignment explanation
Indices: 10169936--10170014 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
10169926 CAACCTTAGC
10169936 TCGATACCCGAATTTGAATATCTTAATACTTACCTCAAA
1 TCGATACCCGAATTTGAATATCTTAATACTTACCTCAAA
10169975 TCGATACCCGAATTTGAATATCTTAATACTTACCTCAAA
1 TCGATACCCGAATTTGAATATCTTAATACTTACCTCAAA
10170014 T
1 T
10170015 AGCTCGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (39 bp):
TCGATACCCGAATTTGAATATCTTAATACTTACCTCAAA
Found at i:10180470 original size:18 final size:18
Alignment explanation
Indices: 10180437--10180489 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
10180427 ATTCACCTAA
*
10180437 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
10180456 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
10180474 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
10180490 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:10180616 original size:18 final size:18
Alignment explanation
Indices: 10180593--10180659 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
10180583 GTAGTGATTC
*
10180593 AATTCGGTTAATTTGGGT
1 AATTCGGTTAATTCGGGT
10180611 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
10180629 AATCCGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
*
10180647 AATTCGATTAATT
1 AATTCGGTTAATT
10180660 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:10180657 original size:9 final size:9
Alignment explanation
Indices: 10180593--10180659 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
10180583 GTAGTGATTC
10180593 AATTCGGTT
1 AATTCGGTT
* *
10180602 AATTTGGGT
1 AATTCGGTT
10180611 AATTCGGTT
1 AATTCGGTT
*
10180620 AATTCGGGT
1 AATTCGGTT
*
10180629 AATCCGGTT
1 AATTCGGTT
10180638 AATTCGGTT
1 AATTCGGTT
*
10180647 AATTCGATT
1 AATTCGGTT
10180656 AATT
1 AATT
10180660 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10181359 original size:18 final size:18
Alignment explanation
Indices: 10181336--10181378 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10181326 ACCCAATCTA
**
10181336 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
10181354 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
10181372 AACCCAA
1 AACCCAA
10181379 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:10181501 original size:9 final size:9
Alignment explanation
Indices: 10181487--10181553 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
10181477 GTAGTGATTC
*
10181487 AATTTGGTT
1 AATTCGGTT
*
10181496 AATTTGGTT
1 AATTCGGTT
*
10181505 AATTCGGGT
1 AATTCGGTT
10181514 AATTCGGTT
1 AATTCGGTT
*
10181523 AATTCGGGT
1 AATTCGGTT
10181532 AATTCGGTT
1 AATTCGGTT
10181541 AATTCGGTT
1 AATTCGGTT
10181550 AATT
1 AATT
10181554 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10182123 original size:5 final size:5
Alignment explanation
Indices: 10182113--10182151 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10182103 CCTTGACCCC
* *
10182113 CTTTT CTTTT CTTTT CTTTT CTTTT -TTTC CCTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
10182152 TCACATTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:10182133 original size:15 final size:14
Alignment explanation
Indices: 10182112--10182188 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 14
10182102 GCCTTGACCC
10182112 CCTTTTCTTTTCTTT
1 CCTTTTCTTTT-TTT
*
10182127 TCTTTTCTTTTTTT
1 CCTTTTCTTTTTTT
*
10182141 CCCTTTCTTTTTCACATT
1 CCTTTTCTTTTT----TT
*
10182159 CCTTTT-TTTTGTT
1 CCTTTTCTTTTTTT
10182172 CTCTTTCTCTTTTTTT
1 C-CTTT-TCTTTTTTT
10182188 C
1 C
10182189 TTTCTCCCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 3 0.06
14 17 0.35
15 11 0.22
16 7 0.14
17 4 0.08
18 7 0.14
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.71
Consensus pattern (14 bp):
CCTTTTCTTTTTTT
Found at i:10186546 original size:17 final size:17
Alignment explanation
Indices: 10186501--10186552 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
10186491 ACAGGTATTC
*
10186501 TATAAAATATAGTAAA-A
1 TATAAAATA-AATAAATA
10186518 TATTAAAA-AAATAAATA
1 TA-TAAAATAAATAAATA
10186535 TATAAAATAAATAGAATA
1 TATAAAATAAATA-AATA
10186553 CATTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.33
17 11 0.37
18 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (17 bp):
TATAAAATAAATAAATA
Found at i:10190764 original size:59 final size:59
Alignment explanation
Indices: 10190697--10190814 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
10190687 ATCAAACTCC
*
10190697 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAATATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
**
10190756 TTACCTCTCAACCAAATGAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
10190815 GTAACTAACT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (59 bp):
TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
Found at i:10202685 original size:20 final size:20
Alignment explanation
Indices: 10202660--10202701 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10202650 GATTTTAGCA
10202660 CTTAATCCTTCAATTCACTT
1 CTTAATCCTTCAATTCACTT
10202680 CTTAATCCTTCAATTCACTT
1 CTTAATCCTTCAATTCACTT
10202700 CT
1 CT
10202702 AACCAATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTAATCCTTCAATTCACTT
Found at i:10217507 original size:26 final size:26
Alignment explanation
Indices: 10217478--10217529 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10217468 TATAACTTTT
10217478 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
10217504 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
10217530 ACCAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTATTTACCAAAATATATAAAAAAA
Found at i:10217728 original size:11 final size:11
Alignment explanation
Indices: 10217712--10217748 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10217702 GTTGGCGCAG
10217712 AAAAGAAGAGA
1 AAAAGAAGAGA
10217723 AAAAG-AGAGA
1 AAAAGAAGAGA
*
10217733 AAAAGAGGAGA
1 AAAAGAAGAGA
10217744 AAAAG
1 AAAAG
10217749 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:10217813 original size:19 final size:21
Alignment explanation
Indices: 10217775--10217813 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
10217765 AATAATTGAT
*
10217775 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
10217796 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
10217814 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:10217884 original size:3 final size:3
Alignment explanation
Indices: 10217878--10217909 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10217868 AGTATTATTA
10217878 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
10217910 ATTAGTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:10217928 original size:17 final size:19
Alignment explanation
Indices: 10217906--10217944 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10217896 TTGTTGTTGT
10217906 TGTTATT-A-GTATTAAGA
1 TGTTATTAATGTATTAAGA
10217923 TGTTATTAATGTATTAAGA
1 TGTTATTAATGTATTAAGA
10217942 TGT
1 TGT
10217945 AACTTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (19 bp):
TGTTATTAATGTATTAAGA
Found at i:10218116 original size:36 final size:36
Alignment explanation
Indices: 10218072--10218207 Score: 184
Period size: 36 Copynumber: 4.1 Consensus size: 36
10218062 ATTATTTTTA
10218072 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
10218108 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
*
10218144 ATAAAA-T--T-A--TTA----ATATTATTTTGAGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
*
10218170 ATAAAATTAATAATTTTAGTGTGTATTATTTTGTGT
1 ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
10218206 AT
1 AT
10218208 TATTTTGAGT
Statistics
Matches: 87, Mismatches: 3, Indels: 20
0.79 0.03 0.18
Matches are distributed among these distances:
26 19 0.22
27 1 0.01
29 1 0.01
30 4 0.05
32 4 0.05
33 1 0.01
35 1 0.01
36 56 0.64
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (36 bp):
ATAAAATTAATAATTTTAGTGTGTATTATTTTGAGT
Found at i:10218160 original size:26 final size:26
Alignment explanation
Indices: 10218131--10218183 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
10218121 TTTTAGTGTG
*
10218131 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
10218157 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
10218183 T
1 T
10218184 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:10218206 original size:12 final size:12
Alignment explanation
Indices: 10218189--10218219 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10218179 ATAATTTTAG
10218189 TGTGTATTATTT
1 TGTGTATTATTT
10218201 TGTGTATTATTT
1 TGTGTATTATTT
*
10218213 TGAGTAT
1 TGTGTAT
10218220 AAATTTTTTT
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:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:10220986 original size:29 final size:29
Alignment explanation
Indices: 10220920--10221070 Score: 74
Period size: 27 Copynumber: 5.4 Consensus size: 29
10220910 AATAAAATTA
* *
10220920 CCTTTTT-TTTCTTTTTT-TCCT-TCCTTC
1 CCTTTTTCTTT-TTTTTTCTCTTCTCCTTT
10220947 CCTCTTCTTCTTTTTTTTTCTCTTCTCCTTT
1 CCT-TT-TTCTTTTTTTTTCTCTTCTCCTTT
*
10220978 CCTTTTTCTTTCCTTCTTTCT-TTCT--TTT
1 CCTTTTTCTTT--TTTTTTCTCTTCTCCTTT
* ** *
10221006 --TTCTTCTCTTTTCCTTCTCTTCTTC-TT
1 CCTTTTTCT-TTTTTTTTCTCTTCTCCTTT
*
10221033 -CTTTCTT-TCTTTTTTTCTCTTCTCCTTT
1 CCTTT-TTCTTTTTTTTTCTCTTCTCCTTT
*
10221061 CC-CTTTCTTT
1 CCTTTTTCTTT
10221071 CCTTCTTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
25 7 0.07
26 10 0.10
27 22 0.23
28 13 0.14
29 17 0.18
30 12 0.12
31 15 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (29 bp):
CCTTTTTCTTTTTTTTTCTCTTCTCCTTT
Found at i:10220994 original size:40 final size:41
Alignment explanation
Indices: 10220950--10221144 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 41
10220940 TTCCTTCCCT
10220950 CTTC-TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
10220990 CTTCTTTCTTTCTTTTT-TCTTCTCTTTTCCTTCTCTTC-TT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT-T-TTCTTTC
*
10221030 CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC-CTTTCTTTC
1 CTTCTTTC-TT-TTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
* *
10221072 CTTCTTT-TTCTTTCTTCTC-TCTCCTTT-CTTCCTTTCTTT-
1 CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTT--TTTCTTTC
*
10221111 CTCTCTTTCTTTCTTTCTTTCT-TTC-CCTCTCCTT
1 CT-TCTTTCTTT-TTT-TTTCTCTTCTCCTTTCCTT
10221145 CTGCCCCCCA
Statistics
Matches: 127, Mismatches: 11, Indels: 31
0.75 0.07 0.18
Matches are distributed among these distances:
37 1 0.01
38 8 0.06
39 10 0.08
40 43 0.34
41 21 0.17
42 23 0.18
43 21 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTTCTTTC
Found at i:10220998 original size:4 final size:4
Alignment explanation
Indices: 10220954--10221135 Score: 123
Period size: 4 Copynumber: 45.8 Consensus size: 4
10220944 TTCCCTCTTC
* * *
10220954 TTCT TT-T TT-T TTCT CTTC- TCCT TTCC TT-T TTCT TTCC TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* *
10220999 TTCT TT-T TTCT TCTCTT TTCC TTCT CTTC- TTC- TTCT TTCT TTCT TTTT
1 TTCT TTCT TTCT T-TC-T TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT
* *
10221047 TTCT CTTC- TCCT TTCCCT TTCT TTCC TTC- TT-T TTCT TTCT TCTCT
1 TTCT -TTCT TTCT TT--CT TTCT TTCT TTCT TTCT TTCT TTCT T-TCT
* * *
10221092 CTCCT TTCT TCCT TTCT TTCT CTCT TTCT TTCT TTCT TTCT TTC
1 -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
10221136 CCTCTCCTTC
Statistics
Matches: 142, Mismatches: 19, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
3 25 0.18
4 92 0.65
5 18 0.13
6 7 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:10221017 original size:11 final size:11
Alignment explanation
Indices: 10220951--10221056 Score: 64
Period size: 11 Copynumber: 9.7 Consensus size: 11
10220941 TCCTTCCCTC
10220951 TTCTTCT-TTT
1 TTCTTCTCTTT
* *
10220961 TTTTTCTCTTC
1 TTCTTCTCTTT
*
10220972 TCCTT-TCCTTT
1 TTCTTCT-CTTT
10220983 TTCTT-TCCTTCT
1 TTCTTCT-CTT-T
10220995 TTCTT-TCTTTT
1 TTCTTCTC-TTT
10221006 TTCTTCTCTTT
1 TTCTTCTCTTT
* *
10221017 TCCTTCTCTTC
1 TTCTTCTCTTT
10221028 TTCTTCT-TTCT
1 TTCTTCTCTT-T
10221039 TTCTT-T-TTT
1 TTCTTCTCTTT
10221048 TCTCTTCTC
1 T-TCTTCTC
10221057 CTTTCCCTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
9 2 0.03
10 16 0.21
11 48 0.62
12 11 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTTCTCTTT
Found at i:10221043 original size:48 final size:45
Alignment explanation
Indices: 10220954--10221135 Score: 146
Period size: 45 Copynumber: 4.1 Consensus size: 45
10220944 TTCCCTCTTC
* * * * *
10220954 TTCTTTTTTTTTCTCTTCTCCTTTC-CTTTTTCTTTCCTTCTTTCT
1 TTCTCTTTTCTTC-CTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
10220999 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTT
1 TTCTCTTTTCTTC-CTTTTCCTT-TC-TCTTCTTCTTTCTTTCTTTCT
* *
10221047 TTCTCTTCTCCTTTCCCTTT-CTTTC-CTTCTT-TTTCTTTC-TTCT
1 TTCTCTT-TTC-TTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
* *
10221090 CTCTCCTTTCTTCC-TTT-CTTTCTC-TCTTTCTTTCTTTCTTTCT
1 TTCTCTTTTCTTCCTTTTCCTTTCTCTTC-TTCTTTCTTTCTTTCT
10221133 TTC
1 TTC
10221136 CCTCTCCTTC
Statistics
Matches: 115, Mismatches: 13, Indels: 20
0.78 0.09 0.14
Matches are distributed among these distances:
40 10 0.09
41 7 0.06
42 10 0.09
43 14 0.12
44 8 0.07
45 27 0.23
46 2 0.02
47 2 0.02
48 26 0.23
49 6 0.05
50 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (45 bp):
TTCTCTTTTCTTCCTTTTCCTTTCTCTTCTTCTTTCTTTCTTTCT
Found at i:10221067 original size:18 final size:17
Alignment explanation
Indices: 10221046--10221138 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 17
10221036 TCTTTCTTTT
10221046 TTTCTCTTCTCCTTTCCC
1 TTTCT-TTCTCCTTTCCC
* **
10221064 TTTCTTTCCTTCTTTTTC
1 TTTCTTT-CTCCTTTCCC
10221082 TTTCTTCTCTCTCCTTTCTTCC
1 TTTC-T-T-TCTCCTTTC--CC
10221104 TTTCTTTCTCTCTTT--C
1 TTTCTTTCTC-CTTTCCC
*
10221120 TTTCTTTCTTTCTTTCCC
1 TTTCTTTC-TCCTTTCCC
10221138 T
1 T
10221139 CTCCTTCTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
16 13 0.22
17 3 0.05
18 18 0.31
19 5 0.09
20 12 0.21
21 2 0.03
22 5 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCTTTCTCCTTTCCC
Found at i:10221080 original size:74 final size:74
Alignment explanation
Indices: 10220963--10221138 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 74
10220953 CTTCTTTTTT
* *
10220963 TTTCTCTTC-TCCTTTCCTTTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCTT
1 TTTCT-TTCTTCCTTTCC-CTTTCTTTCCTTC-TT-TTTC---TTTCTTCTC-TCTCCTT-TCTT
* * *
10221027 CTTCTTCTTTCTTTCTTTT
57 CCT-TTCTTTCTCTCTTTC
10221046 TTTCTCTTC-TCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTT
1 TTTCT-TTCTTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTT
10221110 TCTCTCTTTC
65 TCTCTCTTTC
*
10221120 TTTCTTTCTTTCTTTCCCT
1 TTTCTTTCTTCCTTTCCCT
10221139 CTCCTTCTGC
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
73 3 0.03
74 27 0.31
75 6 0.07
76 6 0.07
77 9 0.10
80 4 0.05
81 2 0.02
82 12 0.14
83 17 0.20
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (74 bp):
TTTCTTTCTTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTTCTCTCTCCTTTCTTCCTTTCTTT
CTCTCTTTC
Found at i:10221208 original size:27 final size:27
Alignment explanation
Indices: 10221178--10221253 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
10221168 TATTATTAAC
10221178 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * *
10221205 TGGTGCCGTCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
**
10221232 TGGTGCCGCCAATCCTATTGGC
1 TGGTGCCGCCAATGGTATTGGC
10221254 GTGACCAGTT
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:0.14, C:0.26, G:0.29, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:10221333 original size:25 final size:27
Alignment explanation
Indices: 10221300--10221370 Score: 119
Period size: 25 Copynumber: 2.7 Consensus size: 27
10221290 TTGGTTTTTT
10221300 TTATATATTTTGGTAAAT-AAAAAAA-
1 TTATATATTTTGGTAAATAAAAAAAAG
10221325 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAAG
10221352 TTATAATATTTTGGTAAAT
1 TTAT-ATATTTTGGTAAAT
10221371 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 18 0.42
26 7 0.16
27 4 0.09
28 14 0.33
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:10222873 original size:19 final size:19
Alignment explanation
Indices: 10222845--10222901 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
10222835 ACTTTATACT
*
10222845 ATTTTTTAATAA-TTTT-A
1 ATTTTTTTATAATTTTTGA
10222862 A-TTTTTTATAATTTTTGA
1 ATTTTTTTATAATTTTTGA
* *
10222880 ATTTTTTTATAAATTTTAA
1 ATTTTTTTATAATTTTTGA
10222899 ATT
1 ATT
10222902 ATTTATTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.26
17 5 0.15
18 2 0.06
19 18 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTGA
Found at i:10233271 original size:3 final size:3
Alignment explanation
Indices: 10233265--10233290 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10233255 AAAACTAAAA
10233265 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
10233291 ACAATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10239064 original size:13 final size:13
Alignment explanation
Indices: 10239042--10239080 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
10239032 AAGTGATTTA
*
10239042 AAAAAATAAATAT
1 AAAAATTAAATAT
10239055 AAAAATTAAAATAT
1 AAAAATT-AAATAT
10239069 AAAAATTAAATA
1 AAAAATTAAATA
10239081 GAATGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:10243158 original size:23 final size:21
Alignment explanation
Indices: 10243123--10243165 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
10243113 TTCTGTCACA
*
10243123 ATTTATCATAATAATTTATTTTG
1 ATTTATCAAAAT-A-TTATTTTG
*
10243146 ATTTATTAAAATATTATTTT
1 ATTTATCAAAATATTATTTT
10243166 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTATCAAAATATTATTTTG
Found at i:10244227 original size:13 final size:14
Alignment explanation
Indices: 10244205--10244236 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
10244195 TTCGAGAAAA
10244205 AAAAAGCATTAATT
1 AAAAAGCATTAATT
10244219 AAAAA-CATTAATT
1 AAAAAGCATTAATT
10244232 AAAAA
1 AAAAA
10244237 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (14 bp):
AAAAAGCATTAATT
Found at i:10247628 original size:17 final size:17
Alignment explanation
Indices: 10247607--10247652 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
10247597 ATTTAAAAAA
10247607 ATAAATATATTAATTTAT
1 ATAAATATATT-ATTTAT
10247625 -TAAATATAATTATTTAT
1 ATAAATAT-ATTATTTAT
10247642 ATATAATATAT
1 ATA-AATATAT
10247653 AAACGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 13 0.52
18 7 0.28
19 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAATATATTATTTAT
Found at i:10247734 original size:30 final size:29
Alignment explanation
Indices: 10247698--10247763 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
10247688 ATAATTTACA
10247698 AAAATTAGATC-AAATCAAAATTTCATATAT
1 AAAATTAGA-CAAAATCAAAATTT-ATATAT
*
10247728 AAAATTATACAAAATCAAAATTTATATAT
1 AAAATTAGACAAAATCAAAATTTATATAT
*
10247757 ACAATTA
1 AAAATTA
10247764 CACATTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATTAGACAAAATCAAAATTTATATAT
Found at i:10258149 original size:20 final size:20
Alignment explanation
Indices: 10258124--10258166 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10258114 TTACAGAATT
*
10258124 ATCACTTAATTAGACTTTGA
1 ATCACTTAATTAGACTTTAA
*
10258144 ATCACTTAATTTGACTTTAA
1 ATCACTTAATTAGACTTTAA
10258164 ATC
1 ATC
10258167 TATATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (20 bp):
ATCACTTAATTAGACTTTAA
Found at i:10259308 original size:9 final size:9
Alignment explanation
Indices: 10259294--10259351 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
10259284 TTTGTTTAAA
10259294 AATTAACCG
1 AATTAACCG
10259303 AATTAACCG
1 AATTAACCG
*
10259312 ATTTAACCG
1 AATTAACCG
10259321 AATTAACCG
1 AATTAACCG
*
10259330 AATTACCCG
1 AATTAACCG
*
10259339 AATTATCCG
1 AATTAACCG
10259348 AATT
1 AATT
10259352 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10259391 original size:37 final size:37
Alignment explanation
Indices: 10259350--10259424 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
10259340 ATTATCCGAA
* *
10259350 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
* *
10259387 TTGAACCACTACATAATTAAAAACATTGCATAATTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
10259424 T
1 T
10259425 GAAATTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAACCACTACATAATTAAAAACATTACATAAGTCT
Found at i:10259641 original size:39 final size:38
Alignment explanation
Indices: 10259551--10259657 Score: 178
Period size: 39 Copynumber: 2.8 Consensus size: 38
10259541 ACTTAAGGGT
*
10259551 TAGACTTTAGTTTTATTTTTATTGGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
10259589 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
* *
10259628 TAGATTTTTGTTTTAGTTTTATTGGGTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGG
10259658 GTTGGTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 29 0.45
39 36 0.55
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:10259670 original size:17 final size:18
Alignment explanation
Indices: 10259648--10259685 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
10259638 TTTTAGTTTT
10259648 ATTGGGTTGGGTTGG-TA
1 ATTGGGTTGGGTTGGATA
10259665 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
10259683 ATT
1 ATT
10259686 TTTGTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:10262150 original size:46 final size:45
Alignment explanation
Indices: 10262083--10262526 Score: 424
Period size: 46 Copynumber: 10.6 Consensus size: 45
10262073 TTTGAGTACT
* *
10262083 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
10262129 TCTGATCAAATGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
10262165 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
10262211 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
10262247 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
10262293 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
10262329 TCTGATCAAGTGAAAAAGTGACAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
10262365 TCTGATCCAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
10262411 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
10262457 TCTGATCAAGTGACAAAGTGATAAATGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
10262502 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
10262527 ATCATACGTA
Statistics
Matches: 341, Mismatches: 27, Indels: 63
0.79 0.06 0.15
Matches are distributed among these distances:
36 120 0.35
37 4 0.01
38 1 0.00
39 1 0.00
40 7 0.02
41 1 0.00
42 8 0.02
43 14 0.04
44 3 0.01
45 24 0.07
46 158 0.46
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:10262159 original size:36 final size:36
Alignment explanation
Indices: 10262119--10262391 Score: 276
Period size: 36 Copynumber: 7.0 Consensus size: 36
10262109 GGTAGCTTTA
*
10262119 GCTACACTTATCTGATCAAATGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
10262155 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
10262200 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
10262237 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
10262282 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
10262319 GCTATACTTATCTGATCAAGTGAAAAAGTGACAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
10262355 GCTATACTTATCTGATCCAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
10262391 G
1 G
10262392 TTAGCCTTAG
Statistics
Matches: 203, Mismatches: 14, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
36 127 0.63
37 4 0.02
40 4 0.02
42 4 0.02
45 4 0.02
46 60 0.30
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:10262186 original size:82 final size:82
Alignment explanation
Indices: 10262083--10262480 Score: 528
Period size: 82 Copynumber: 4.9 Consensus size: 82
10262073 TTTGAGTACT
* *
10262083 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAATGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10262148 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
10262165 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10262230 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
10262247 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
10262312 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * * *
10262329 TCTGATCAAGTGAAAAAGTGACAA---GT-GC--TA--T--ACTTATCTGATCCAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10262384 GATAAGTGTTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * * *
10262411 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
10262476 GATAA
66 GATAA
10262481 ATGGTAGCCT
Statistics
Matches: 284, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
72 25 0.09
73 1 0.00
74 1 0.00
76 2 0.01
78 4 0.01
79 2 0.01
81 1 0.00
82 213 0.75
85 2 0.01
86 3 0.01
88 2 0.01
90 1 0.00
91 1 0.00
92 26 0.09
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:10262328 original size:118 final size:118
Alignment explanation
Indices: 10262201--10262437 Score: 402
Period size: 118 Copynumber: 2.0 Consensus size: 118
10262191 GGTAGCTTTA
*
10262201 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGACAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
10262266 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * * *
10262319 GCTATACTTATCTGATCAAGTGAAAAAGTGACAAGTGCTATACTTATCTGATCCAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGACAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
10262384 GATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
10262437 G
1 G
10262438 GTAGCCTTAG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGACAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:10264400 original size:16 final size:16
Alignment explanation
Indices: 10264379--10264414 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10264369 AAAACACTTA
10264379 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
10264395 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
10264411 TAAT
1 TAAT
10264415 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:10264458 original size:45 final size:44
Alignment explanation
Indices: 10264394--10264490 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
10264384 GAATAGAGGC
10264394 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
10264439 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
10264483 GGAATGGA
1 GTAATGGA
10264491 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:10264668 original size:18 final size:17
Alignment explanation
Indices: 10264645--10264681 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10264635 AATTATTATT
10264645 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
10264661 AAATATATAATTTAATA
1 AAATATATAATTTAATA
10264678 AAAT
1 AAAT
10264682 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:10264675 original size:14 final size:15
Alignment explanation
Indices: 10264638--10264677 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
10264628 TTAACATAAT
10264638 TATT-ATTAAATATA
1 TATTAATTAAATATA
10264652 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
10264666 TA-TAATTTAATA
1 TATTAATTAAATA
10264678 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:10264779 original size:102 final size:99
Alignment explanation
Indices: 10264665--10264881 Score: 373
Period size: 102 Copynumber: 2.2 Consensus size: 99
10264655 TAATTAAAAT
*
10264665 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
10264730 AATACTATAAAATATAATTTAAAGTTATTATTATTAA
66 AATACTACAAAATATAATTTAAA---ATTATTATTAA
10264767 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
10264832 AATACTACAAAATATAATTTAAAATTATTATTAA
66 AATACTACAAAATATAATTTAAAATTATTATTAA
10264866 ATATAA-TTAGATAAAA
1 ATATAATTTA-ATAAAA
10264882 ATATATAATT
Statistics
Matches: 112, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
98 3 0.03
99 23 0.21
102 86 0.77
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (99 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTACAAAATATAATTTAAAATTATTATTAA
Found at i:10264974 original size:23 final size:21
Alignment explanation
Indices: 10264930--10264970 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10264920 TATATGAATT
10264930 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
10264951 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
10264971 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:10269479 original size:15 final size:15
Alignment explanation
Indices: 10269459--10269514 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
10269449 ATTTACTAAA
*
10269459 ATTATAATATATAAT
1 ATTATAAAATATAAT
10269474 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
10269487 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
10269500 ATTATTAAATATAAT
1 ATTATAAAATATAAT
10269515 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:10269509 original size:26 final size:25
Alignment explanation
Indices: 10269469--10269531 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
10269459 ATTATAATAT
10269469 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
10269494 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
10269521 AAAATA-TATAA
1 ATAATATTATAA
10269532 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:10269527 original size:59 final size:59
Alignment explanation
Indices: 10269464--10269662 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 59
10269454 CTAAAATTAT
10269464 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
10269523 AATATATAATTTAATAAAATTCGTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
* *
10269584 AATATATAATACT-ATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
10269643 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
10269663 TATTAGTATT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
58 6 0.06
59 50 0.46
60 15 0.14
61 33 0.31
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:10269575 original size:120 final size:120
Alignment explanation
Indices: 10269442--10269681 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
10269432 TTTAATAGAA
* * *
10269442 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
*
10269507 AATATAATTTAACAAAAATATATAATTTAATAAAATTCGTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTAGTAGTATTAAATATTCT
10269562 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
*
10269627 AATATAATTTAACAAAAATATATAATTTAATAAAATTATTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTAGTAGTATTAAATATTCT
10269682 AATGATTGTA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTAGTAGTATTAAATATTCT
Found at i:10281709 original size:2 final size:2
Alignment explanation
Indices: 10281704--10281730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10281694 GTATTTTTTC
10281704 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10281731 TATTTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10282408 original size:21 final size:23
Alignment explanation
Indices: 10282384--10282463 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
10282374 GGCCCGACCC
10282384 ATATTAAATATATATAAAAATAT
1 ATATTAAATATATATAAAAATAT
* *
10282407 ATATTTAATATATATTAATATATAT
1 ATATTAAATATATA-TAA-AAATAT
*
10282432 TTGATTAAA-A-ATA-AAAAATAT
1 AT-ATTAAATATATATAAAAATAT
*
10282453 ATATTTAATAT
1 ATATTAAATAT
10282464 GTAATTCGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
20 5 0.11
21 7 0.16
22 2 0.04
23 13 0.29
24 6 0.13
25 7 0.16
26 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
ATATTAAATATATATAAAAATAT
Found at i:10282424 original size:10 final size:10
Alignment explanation
Indices: 10282402--10282432 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
10282392 TATATATAAA
10282402 AATATATATTT
1 AATATATA-TT
10282413 AATATATATT
1 AATATATATT
10282423 AATATATATT
1 AATATATATT
10282433 TGATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATATATATT
Found at i:10282720 original size:17 final size:17
Alignment explanation
Indices: 10282694--10282730 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10282684 ATGTTTATAA
10282694 TTAAAAAAAATACTCAT
1 TTAAAAAAAATACTCAT
* *
10282711 TTAAAGAAAATACTTAT
1 TTAAAAAAAATACTCAT
10282728 TTA
1 TTA
10282731 TGTTTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATACTCAT
Found at i:10294840 original size:58 final size:58
Alignment explanation
Indices: 10294702--10294844 Score: 207
Period size: 59 Copynumber: 2.4 Consensus size: 58
10294692 TGGCTTGCAG
*
10294702 TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTTATTGTGAC
1 TTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTATTGTGAC
* * * * *
10294760 TTGTGGTTTACTTTTAGTGCCAAAACAAATTTAATTCTTGACATGCTGG-TAGTTGTGGC
1 TTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTA-TTGTGAC
10294819 TTGCGGTTGCTTTTAGTGCCAAAACA
1 TTGCGGTTGCTTTTAGTGCCAAAACA
10294845 TAGCAACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 26 0.35
59 49 0.65
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (58 bp):
TTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTATTGTGAC
Found at i:10296075 original size:61 final size:61
Alignment explanation
Indices: 10296010--10296201 Score: 205
Period size: 61 Copynumber: 3.2 Consensus size: 61
10296000 GTATTGTAGT
* *
10296010 ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAATAATTTTATTAA
* * * * * * * * *
10296071 ATTATATATTTTTA-TTAAATTATATTTA-ATAGTAATTATGTTAAAATT-ATAA-TTTA-TAGC
1 ATTATATATTATGATTTTAA-TAAATTCATATA-AAAATAT-TTAATATTAATAATTTTATTA-A
*
10296131 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAATAATTTTATTAA
10296192 ATTATATATT
1 ATTATATATT
10296202 TTTATTAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
59 9 0.09
60 36 0.36
61 47 0.47
62 9 0.09
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAATAATTTTATTAA
Found at i:10296142 original size:121 final size:121
Alignment explanation
Indices: 10296010--10296238 Score: 422
Period size: 121 Copynumber: 1.9 Consensus size: 121
10296000 GTATTGTAGT
*
10296010 ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTA
*
10296075 TATATTTTTATTAAATTATATTTAATAGTAATTATGTTAAAATTATAATTTATAGC
66 TATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATAATTTATAGC
* *
10296131 ATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTA
1 ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTA
10296196 TATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
66 TATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
10296239 ATGATTAAAT
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 104 1.00
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (121 bp):
ATTATATATTATGATTTTAATAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTA
TATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATAATTTATAGC
Found at i:10296204 original size:18 final size:18
Alignment explanation
Indices: 10296170--10296216 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
10296160 ATAAGAATAT
10296170 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
10296188 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
10296206 TTAAATTATAT
1 TTAAATTATAT
10296217 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:10296280 original size:44 final size:40
Alignment explanation
Indices: 10296167--10296280 Score: 95
Period size: 41 Copynumber: 2.6 Consensus size: 40
10296157 CATATAAGAA
* *
10296167 TATTTAATATTAATAATTTTATT-AAATTATATATTTTTAT
1 TATTT-ATATTAATAATATTATTAAAATTATAAATTTTTAT
*
10296207 TAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 T-ATTTATA-TTAATAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTAT
*
10296256 TATTTATATTAATAATCTTATTAAA
1 TATTTATATTAATAATATTATTAAA
10296281 TAACAATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
40 4 0.07
41 11 0.19
42 3 0.05
44 7 0.12
45 4 0.07
46 4 0.07
47 9 0.15
48 11 0.19
49 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TATTTATATTAATAATATTATTAAAATTATAAATTTTTAT
Found at i:10296471 original size:16 final size:16
Alignment explanation
Indices: 10296450--10296534 Score: 152
Period size: 16 Copynumber: 5.3 Consensus size: 16
10296440 AGGATTACAT
*
10296450 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
10296466 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
10296482 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
10296498 ATTACGCTTCTATTCC
1 ATTACGCCTCTATTCC
10296514 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
10296530 ATTAC
1 ATTAC
10296535 AGCGAACCAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:10298970 original size:102 final size:102
Alignment explanation
Indices: 10298794--10299137 Score: 489
Period size: 102 Copynumber: 3.4 Consensus size: 102
10298784 TATCGATGAA
* * *
10298794 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCAATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
10298859 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* *
10298896 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
10298961 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
*** * *
10298998 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-C-AGTAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA-TAAATGATGGTCACATGTGTAGTA
* * * *
10299061 CTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
* *
10299098 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
10299138 ATGATAAAAC
Statistics
Matches: 221, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
100 39 0.18
101 44 0.20
102 138 0.62
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:10299064 original size:50 final size:50
Alignment explanation
Indices: 10298794--10299131 Score: 374
Period size: 51 Copynumber: 6.7 Consensus size: 50
10298784 TATCGATGAA
* * ** ***
10298794 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCAATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCGTAAAACTTGGT
* * * * *
10298845 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* * ***
10298896 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * *
10298947 CACATGTATAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* *
10298998 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACAGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
10299048 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
10299098 TACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
10299132 TATCGAATGA
Statistics
Matches: 241, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
49 6 0.02
50 87 0.36
51 141 0.59
52 4 0.02
53 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:10299375 original size:38 final size:37
Alignment explanation
Indices: 10299329--10299401 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
10299319 ATGTGTGGAA
* *
10299329 TTGAATTGAATATTGACTTGAAAATGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TTGAAAATGAAAAAGTGAATT
*
10299367 TTGAATTGAATAGTGATTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAA
10299402 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTGAAAATGAAAAAGTGAATT
Found at i:10301682 original size:311 final size:310
Alignment explanation
Indices: 10301110--10301730 Score: 966
Period size: 311 Copynumber: 2.0 Consensus size: 310
10301100 TCTGATACCA
*
10301110 ATTTGTTAAAAATAGAATGTCGGTAATGACAATGTATCACAAAGAAAAAGAGAGAGAAAAATAAA
1 ATTTGTTAAAAATAGAATGTCGGTAATGACAATGTATCACAAAGAAAAAGAGAGACAAAAATAAA
* * *
10301175 AAAACACACAGATTTTACGTGAAAATACTTTCGTGAAAAAGCCACGGGGCAGAGTAGAAGATAAT
66 AAAACACACAAATTTTACGTGAAAATACTTTCGGGAAAAAACCACGGGGCAGAGTAGAAGATAAT
* * * *
10301240 TCACTATGTCGAATTCGAATAATTACTCGAGGAGTAGACTATGTCTATTTATAGGCTTGTAAAAT
131 TCACTATGTCGAATTCAAATAATTACTAGAGGAGTAGACTATGTCTATTTATAGACTTGTAAAAC
*
10301305 CATATTCTAATAGGAGTGTGTAAGAGTGAAACACCTTATTCTAATCAATATCAAATAGAAGGAGT
196 CATATTCTAATAGGAATGTGTAAGAGTGAAACACCTTATTCTAATCAATATCAAATAGAAGGAGT
**
10301370 TTAATGTGGTTTAAAAAACCTTATTCTAAAATAAAATAAAAGAAGTGTAGT
261 TTAATAAGGTTTAAAAAACCTTATTCTAAAATAAAATAAAA-AAGTGTAGT
* *
10301421 ATTTGTTAGAAATAGAATGTCGGTAAT-AGCAATGTATCGCAAAGAAAAAGAGAGACAAAAAT-A
1 ATTTGTTAAAAATAGAATGTCGGTAATGA-CAATGTATCACAAAGAAAAAGAGAGACAAAAATAA
* *
10301484 AAGAACACACAAATTTTACGTGGAAACT-CTTTCGGGAAAAAAACCAC-GGGCAGAAG-AGAAGA
65 AAAAACACACAAATTTTACGT-GAAAATACTTTCGGG-AAAAAACCACGGGGCAG-AGTAGAAGA
10301546 TAATTCACTATGTCGAATTCAAATAATTA-TAAGAGGAGTAGACTATGTCTATTTATAGACTTGT
127 TAATTCACTATGTCGAATTCAAATAATTACT-AGAGGAGTAGACTATGTCTATTTATAGACTTGT
* * *
10301610 AAAACCATATTCTAATATGAATGTAGTAAGATTGAAATACCTTATTCTAATCAATATCAAATAGA
191 AAAACCATATTCTAATAGGAATGT-GTAAGAGTGAAACACCTTATTCTAATCAATATCAAATAGA
*
10301675 TGGAGTTTAATAAGGTTTAAAAAACCTTATTCTAAAATAAAATAAAAAAGTGTAGT
255 AGGAGTTTAATAAGGTTTAAAAAACCTTATTCTAAAATAAAATAAAAAAGTGTAGT
10301731 TCTATAGGGA
Statistics
Matches: 285, Mismatches: 19, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
309 1 0.00
310 129 0.45
311 155 0.54
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (310 bp):
ATTTGTTAAAAATAGAATGTCGGTAATGACAATGTATCACAAAGAAAAAGAGAGACAAAAATAAA
AAAACACACAAATTTTACGTGAAAATACTTTCGGGAAAAAACCACGGGGCAGAGTAGAAGATAAT
TCACTATGTCGAATTCAAATAATTACTAGAGGAGTAGACTATGTCTATTTATAGACTTGTAAAAC
CATATTCTAATAGGAATGTGTAAGAGTGAAACACCTTATTCTAATCAATATCAAATAGAAGGAGT
TTAATAAGGTTTAAAAAACCTTATTCTAAAATAAAATAAAAAAGTGTAGT
Found at i:10303773 original size:51 final size:51
Alignment explanation
Indices: 10303711--10303840 Score: 179
Period size: 55 Copynumber: 2.5 Consensus size: 51
10303701 AAAATAGTTG
* * *
10303711 AAAGCTACAAAAGAGCTAATATATCAATATTTGGTACTGCGAAATTAGATA
1 AAAGCTCCAAAAGAGCTAATATATCAATATTTGGTACTACAAAATTAGATA
*
10303762 AAAGCTCCAAAAGAGCTAGCTAATATATCAATATTTGGTACTACAAAATTAGATG
1 AAAGCTCC-AAA-AG--AGCTAATATATCAATATTTGGTACTACAAAATTAGATA
*
10303817 AAAGCTCCAGAAGAGCTAATATAT
1 AAAGCTCCAAAAGAGCTAATATAT
10303841 TAGTATCTGA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
51 18 0.26
52 3 0.04
53 4 0.06
54 2 0.03
55 43 0.61
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (51 bp):
AAAGCTCCAAAAGAGCTAATATATCAATATTTGGTACTACAAAATTAGATA
Found at i:10303795 original size:55 final size:55
Alignment explanation
Indices: 10303724--10303834 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
10303714 GCTACAAAAG
* *
10303724 AGCTAATATATCAATATTTGGTACTGCGAAATTAGATAAAAGCTCCAAAAGAGCT
1 AGCTAATATATCAATATTTGGTACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
* *
10303779 AGCTAATATATCAATATTTGGTACTACAAAATTAGATGAAAGCTCCAGAAGAGCT
1 AGCTAATATATCAATATTTGGTACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
10303834 A
1 A
10303835 ATATATTAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (55 bp):
AGCTAATATATCAATATTTGGTACTACAAAATTAGATAAAAGCTCCAAAAGAGCT
Found at i:10304715 original size:16 final size:16
Alignment explanation
Indices: 10304694--10304758 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
10304684 TTCGTTGTAT
*
10304694 TGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAA
*
10304710 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
10304726 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
10304742 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
10304758 T
1 T
10304759 AGCAATTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:10304802 original size:45 final size:44
Alignment explanation
Indices: 10304738--10304834 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
10304728 GAATAGAGGC
10304738 GTAATGGAATAGAGACGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
10304783 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
*
10304827 GGAATGGA
1 GTAATGGA
10304835 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:10304999 original size:14 final size:14
Alignment explanation
Indices: 10304982--10305021 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10304972 TTAACATAAT
10304982 TATTATTAAATATA
1 TATTATTAAATATA
10304996 TATTAATTAAA-ATA
1 TATT-ATTAAATATA
*
10305010 TATAATTAAATA
1 TATTATTAAATA
10305022 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 11 0.48
15 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTATTAAATATA
Found at i:10305012 original size:18 final size:17
Alignment explanation
Indices: 10304989--10305025 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10304979 AATTATTATT
*
10304989 AAATATAT-ATTAATTA
1 AAATATATAATTAAATA
10305005 AAATATATAATTAAATA
1 AAATATATAATTAAATA
10305022 AAAT
1 AAAT
10305026 TCTTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATAATTAAATA
Found at i:10305192 original size:22 final size:23
Alignment explanation
Indices: 10305160--10305203 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10305150 ATGAATTTAC
*
10305160 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
*
10305183 TAAAAT-ATAATTTAAAATAAT
1 TAAAATCATAATATAAAATAAT
10305204 TATTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:10305229 original size:102 final size:102
Alignment explanation
Indices: 10305009--10305227 Score: 386
Period size: 102 Copynumber: 2.2 Consensus size: 102
10304999 TAATTAAAAT
* *
10305009 ATATAATTAAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* * *
10305074 AATACTATAAAATATAATTTAAAGTTATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
10305111 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
10305176 AATAATATAAAATATAATTTAAAATAATTATTATTAA
66 AATAATATAAAATATAATTTAAAATAATTATTATTAA
10305213 AT-TAATTTAATAAAA
1 ATATAATTTAATAAAA
10305228 ATATATAATT
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 13 0.12
102 99 0.88
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATTTAAAATAATTATTATTAA
Found at i:10305351 original size:17 final size:17
Alignment explanation
Indices: 10305329--10305362 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10305319 TTATTATTAA
10305329 ATATAA-TTAGATAAAAT
1 ATATAATTTA-ATAAAAT
10305346 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10305363 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10305381 original size:116 final size:118
Alignment explanation
Indices: 10305111--10305417 Score: 523
Period size: 116 Copynumber: 2.6 Consensus size: 118
10305101 TTATTATTAA
10305111 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
10305176 AATAATATAAAATATAATTTAAAATAATTATTATTAAATTAATTTAATAAAAAT
66 AATACTACAAAATATAATTT-AAATAATTATTATTAAATTAATTTAATAAAAAT
10305230 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
10305295 AATACTACAAAATATAATTT-AA-AATTATTATTAAATATAA-TTAGAT-AAAAT
66 AATACTACAAAATATAATTTAAATAATTATTATTAAAT-TAATTTA-ATAAAAAT
* *
10305346 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTATATGAATTTACTAAAATAATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
10305411 AATACTA
66 AATACTA
10305418 AAATCATAAT
Statistics
Matches: 182, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
116 92 0.51
117 7 0.04
119 83 0.46
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (118 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTACAAAATATAATTTAAATAATTATTATTAAATTAATTTAATAAAAAT
Done.