Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 72 of 109
Found at i:23205675 original size:37 final size:38
Alignment explanation
Indices: 23205619--23205690 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
23205609 CACAAAAAAA
*
23205619 TATTTTAAAAATAACAAAATAAAAAAATATTTTTAAAG
1 TATTTTAAAAATAACAAAATAAAAAAATATATTTAAAG
* *
23205657 TATTTTAAAATTAA-AAAATAAAAATATATATTTA
1 TATTTTAAAAATAACAAAATAAAAAAATATATTTA
23205691 TTATATTCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 18 0.58
38 13 0.42
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (38 bp):
TATTTTAAAAATAACAAAATAAAAAAATATATTTAAAG
Found at i:23211207 original size:20 final size:20
Alignment explanation
Indices: 23211173--23211210 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23211163 TTATTTTTAT
23211173 ATTTTTTTATAATATTTAAG
1 ATTTTTTTATAATATTTAAG
23211193 ATTTGTTTTAT-ATATTTA
1 ATTT-TTTTATAATATTTA
23211211 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTTTATAATATTTAAG
Found at i:23215126 original size:70 final size:70
Alignment explanation
Indices: 23215052--23215192 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
23215042 TACATTTTTT
* * * * * *
23215052 TATTTATTGAAAATTTTTATATAGTCATCTTAACATTTTTTTAATGTTTACATTAGAGTTGTATT
1 TATTTATTGAAAATTTTTATATAATCAACTTAACATTATTTTAAAGTTTACATTAAAGTAGTATT
23215117 ATATA
66 ATATA
*
23215122 TATTTATTGAAATTTTTTATATAATCAACTTAACATTATTTTAAAGTTTACATTAAAGTAGTATT
1 TATTTATTGAAAATTTTTATATAATCAACTTAACATTATTTTAAAGTTTACATTAAAGTAGTATT
23215187 ATATA
66 ATATA
23215192 T
1 T
23215193 TTTGTATAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (70 bp):
TATTTATTGAAAATTTTTATATAATCAACTTAACATTATTTTAAAGTTTACATTAAAGTAGTATT
ATATA
Found at i:23215823 original size:68 final size:66
Alignment explanation
Indices: 23215713--23215842 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 66
23215703 ACTACTACTT
* *
23215713 TTTTCTGACGTTTTCTTTTTTTAGTAACAATCTTTTACACCCCACCATAATGATT-TGAGCAGAC
1 TTTTCTGACGTTTTCTTTTATTAGTAACAATCTGTTACACCCCACCATAATG-TTATGAGCAGAC
23215777 AC
65 AC
* *
23215779 TTTTCT-AGCGTTTTCATTATTATTAGTAACAATCTGTTATACCCCACCATGATGTTATGAGCAG
1 TTTTCTGA-CGTTTTC-TT-TTATTAGTAACAATCTGTTACACCCCACCATAATGTTATGAGCAG
23215843 TTAAGACTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
65 1 0.02
66 13 0.23
67 4 0.07
68 38 0.68
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (66 bp):
TTTTCTGACGTTTTCTTTTATTAGTAACAATCTGTTACACCCCACCATAATGTTATGAGCAGACA
C
Found at i:23225844 original size:8 final size:8
Alignment explanation
Indices: 23225815--23225851 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
23225805 AGGTTTAAAA
23225815 TATAATTT
1 TATAATTT
* *
23225823 TATTATTA
1 TATAATTT
23225831 TATAATTT
1 TATAATTT
23225839 TATAATTT
1 TATAATTT
23225847 TATAA
1 TATAA
23225852 AATTTGACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATAATTT
Found at i:23231125 original size:29 final size:30
Alignment explanation
Indices: 23231050--23231138 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
23231040 GATTAAATCA
* * * *
23231050 AAATCAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCATGTATATAATTGCACC
* *
23231080 ATAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCATGTATATAATTGCACC
*
23231111 AAATTAAAG-TTCATGTATACAATTGCAC
1 AAATTAAAGTTTCATGTATATAATTGCAC
23231139 ATTAAATCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 17 0.35
30 8 0.16
31 24 0.49
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATATAATTGCACC
Found at i:23231163 original size:29 final size:27
Alignment explanation
Indices: 23231097--23231163 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
23231087 GAGTTTCATG
* *
23231097 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAATTCA
*
23231124 TGTATACAATTGCACATTAAATCAAAATTCA
1 TGTAT--AATTGCAC--CAAATCAAAATTCA
23231155 TGTATAATT
1 TGTATAATT
23231164 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAATTCA
Found at i:23232622 original size:13 final size:13
Alignment explanation
Indices: 23232578--23232627 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
23232568 GCTTAATAAC
*
23232578 ATTTTAATTGATA
1 ATTTTAATTTATA
* *
23232591 ATTTTTAGAATTATT
1 A-TTTTA-ATTTATA
23232606 ATTTTAATTTATA
1 ATTTTAATTTATA
23232619 ATTTTAATT
1 ATTTTAATT
23232628 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 15 0.50
14 10 0.33
15 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
ATTTTAATTTATA
Found at i:23233238 original size:15 final size:14
Alignment explanation
Indices: 23233196--23233234 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
23233186 ATTTTATTTT
23233196 ATTTCATTGCATTCC
1 ATTTCATT-CATTCC
*
23233211 ATTCCATATCATTCC
1 ATTTCAT-TCATTCC
23233226 ATTTCATTC
1 ATTTCATTC
23233235 CATTTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.46
Consensus pattern (14 bp):
ATTTCATTCATTCC
Found at i:23233239 original size:10 final size:10
Alignment explanation
Indices: 23233196--23233242 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
23233186 ATTTTATTTT
*
23233196 ATTTCATTGC
1 ATTTCATTCC
*
23233206 ATTCCATTCC
1 ATTTCATTCC
*
23233216 ATATCATTCC
1 ATTTCATTCC
23233226 ATTTCATTCC
1 ATTTCATTCC
23233236 ATTTCAT
1 ATTTCAT
23233243 CAAGCATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (10 bp):
ATTTCATTCC
Found at i:23238572 original size:29 final size:30
Alignment explanation
Indices: 23238540--23238596 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
23238530 TATGGTATAA
*
23238540 TGTAATTTTATACATGAACT-TTGATTTTG
1 TGTAATTTTATACATGAAATATTGATTTTG
23238569 TGTAATTTTATACATGAAATATTGATTT
1 TGTAATTTTATACATGAAATATTGATTT
23238597 GACCCAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTAATTTTATACATGAAATATTGATTTTG
Found at i:23238811 original size:30 final size:30
Alignment explanation
Indices: 23238739--23238823 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
23238729 GATTAAATCA
*
23238739 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * *
23238769 ATAATTAGAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
*
23238800 AAATTAAAGTTT-ATGTATATAATT
1 AAATTAAAGTTTCAAGTATATAATT
23238824 ATACATTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 10 0.22
30 11 0.24
31 25 0.54
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:23240038 original size:67 final size:68
Alignment explanation
Indices: 23239944--23240079 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 68
23239934 ATTAAGCCAT
23239944 TTGGTTGAACGAGAAAAATCGATACCCAGCACCTTAGGACATGTTTTCTCGAATTTCTAAACGCA
1 TTGGTTGAACGAGAAAAATCGATACCCAGCACCTTAGGACATGTTTTCTCGAATTTCTAAACGCA
23240009 AAA
66 AAA
23240012 TTGGTTGAACG-GAAAAATCGATACCCAGCACCTTAGGACATGTTTTCTCGAATTTCTAAACGCA
1 TTGGTTGAACGAGAAAAATCGATACCCAGCACCTTAGGACATGTTTTCTCGAATTTCTAAACGCA
23240076 AAA
66 AAA
23240079 T
1 T
23240080 ATTGCCTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 57 0.84
68 11 0.16
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (68 bp):
TTGGTTGAACGAGAAAAATCGATACCCAGCACCTTAGGACATGTTTTCTCGAATTTCTAAACGCA
AAA
Found at i:23240995 original size:3 final size:3
Alignment explanation
Indices: 23240987--23241262 Score: 473
Period size: 3 Copynumber: 92.0 Consensus size: 3
23240977 TATAAATTAG
* * * * * **
23240987 TAA TAA TAA TAT TAG TAA TAA TAC TAA CAA -ATA TAG TAA GGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
23241032 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23241080 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23241128 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23241176 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23241224 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23241263 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
2 1 0.00
3 257 0.99
4 1 0.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23242678 original size:3 final size:3
Alignment explanation
Indices: 23242670--23242952 Score: 480
Period size: 3 Copynumber: 94.7 Consensus size: 3
23242660 TATAAATTAG
* * * * * **
23242670 TAA TAA TAA TAT TAG TAA TAA TAC TAA CAA -ATA TAG TAA GGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
23242715 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23242763 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23242811 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23242859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23242907 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23242953 GAATTACTAA
Statistics
Matches: 265, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
2 3 0.01
3 261 0.98
4 1 0.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23255132 original size:28 final size:28
Alignment explanation
Indices: 23255101--23255214 Score: 65
Period size: 28 Copynumber: 4.1 Consensus size: 28
23255091 TCAAAAAGAA
23255101 ATTACTTTTCATAAAATATAAGTAACAT
1 ATTACTTTTCATAAAATATAAGTAACAT
*** * * * *
23255129 ATTA-TATAAAATAAACTAAAATTAATAT
1 ATTACT-TTTCATAAAATATAAGTAACAT
* * * * * *
23255157 ACT-CTTTTCAT-ACATTTCAA-AAAGAA
1 ATTACTTTTCATAAAATAT-AAGTAACAT
23255183 ATTACTTTTCATAAAATATAAGTAACAT
1 ATTACTTTTCATAAAATATAAGTAACAT
23255211 ATTA
1 ATTA
23255215 TATAAAATAA
Statistics
Matches: 56, Mismatches: 24, Indels: 12
0.61 0.26 0.13
Matches are distributed among these distances:
26 7 0.12
27 16 0.29
28 33 0.59
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTACTTTTCATAAAATATAAGTAACAT
Found at i:23255215 original size:82 final size:83
Alignment explanation
Indices: 23255077--23255241 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
23255067 GATATATTTA
23255077 CTTTTCATACTATTTCAAAAAGAAATTACTTTTCATAAAATATAAGTAACATATTATATAAAATA
1 CTTTTCATACTATTTCAAAAAGAAATTACTTTTCATAAAATATAAGTAACATATTATATAAAATA
23255142 AACTAAAATTAATATACT
66 AACTAAAATTAATATACT
23255160 CTTTTCATAC-ATTTCAAAAAGAAATTACTTTTCATAAAATATAAGTAACATATTATATAAAATA
1 CTTTTCATACTATTTCAAAAAGAAATTACTTTTCATAAAATATAAGTAACATATTATATAAAATA
23255224 AACTAAAATTAATATACT
66 AACTAAAATTAATATACT
23255242 ATAAAATGGA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.88
83 10 0.12
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (83 bp):
CTTTTCATACTATTTCAAAAAGAAATTACTTTTCATAAAATATAAGTAACATATTATATAAAATA
AACTAAAATTAATATACT
Found at i:23258861 original size:28 final size:27
Alignment explanation
Indices: 23258798--23258863 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
23258788 TAGCTATAAC
23258798 TTTAAATTTAGTCTTTAATATTTTTTT
1 TTTAAATTTAGTCTTTAATATTTTTTT
*
23258825 TTCTCAATTTAGT-TTTAAT-TTATTTTT
1 TT-TAAATTTAGTCTTTAATATT-TTTTT
23258852 TAGTTAAATTTA
1 T--TTAAATTTA
23258864 CATTTAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 2 0.06
27 14 0.42
28 16 0.48
29 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTAAATTTAGTCTTTAATATTTTTTT
Found at i:23261406 original size:43 final size:39
Alignment explanation
Indices: 23261341--23261463 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 39
23261331 CGACCTGAAT
*
23261341 TATATATTAAATACATATATTTTTATTTTTTAATAAAATA
1 TATATATTAAATATATATATTTTTA-TTTTTAATAAAATA
* * * *
23261381 TACTTTTTATTAAATATATATATTTTAGACTTTTAATCAGAAT-
1 TA---TATATTAAATATATATATTTT-TATTTTTAAT-AAAATA
* *
23261424 TATATATTAAATATATATCTTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATAAAATA
23261463 T
1 T
23261464 GGGCCGGGCC
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
38 3 0.05
39 9 0.14
40 21 0.32
43 28 0.42
44 5 0.08
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (39 bp):
TATATATTAAATATATATATTTTTATTTTTAATAAAATA
Found at i:23261407 original size:18 final size:17
Alignment explanation
Indices: 23261367--23261400 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23261357 ATATTTTTAT
23261367 TTTTTAATAAAATATAC
1 TTTTTAATAAAATATAC
*
23261384 TTTTTATTAAATATATA
1 TTTTTAATAAA-ATATA
23261401 TATTTTAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTAATAAAATATAC
Found at i:23265254 original size:24 final size:24
Alignment explanation
Indices: 23265227--23265280 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
23265217 TTTGCATGCT
23265227 TAAATTAAGACGAAACAATTATAC
1 TAAATTAAGACGAAACAATTATAC
23265251 TAAATTAAGACGAAACAATTATAC
1 TAAATTAAGACGAAACAATTATAC
23265275 TAAATT
1 TAAATT
23265281 TGCATGCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (24 bp):
TAAATTAAGACGAAACAATTATAC
Found at i:23266673 original size:43 final size:43
Alignment explanation
Indices: 23266586--23266788 Score: 268
Period size: 43 Copynumber: 4.7 Consensus size: 43
23266576 TTCATACAAC
* * * * *
23266586 GCCATCGTCCCAGACGTGGTCTTACATG-TAATCGCACATTGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAAT-ACAAATCGAT
* ** *
23266629 GCCA-CTGTCCTAGACAAGGTCTTACTCGAAAATACAAATCGAT
1 GCCATC-GTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
23266672 GCCATCGTCCCAGACGTGGTC-TACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
* *
23266714 GCCATCGTCCTAGACGTGGTCTTACACGAAAATACAAATAGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
23266757 GCCATCGTCCCAGACGTGGTCTTACACGAAAA
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAA
23266789 CACTTATCAG
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
42 41 0.29
43 95 0.68
44 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
Found at i:23266736 original size:85 final size:87
Alignment explanation
Indices: 23266586--23266788 Score: 288
Period size: 85 Copynumber: 2.4 Consensus size: 87
23266576 TTCATACAAC
* * * * *
23266586 GCCATCGTCCCAGACGTGGTCTTACATG-TAATCGCACATTGATGCCACTGTCCTAGACAAGGTC
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATCACAAATCGATGCCACTGTCCTAGACAAGGTC
* *
23266650 TTACTCGAAAATACAAATCGAT
66 TTACACGAAAATACAAATAGAT
**
23266672 GCCATCGTCCCAGACGTGGTC-TACACGAAAAT-ACAAATCGATGCCA-TCGTCCTAGACGTGGT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATCACAAATCGATGCCACT-GTCCTAGACAAGGT
23266734 CTTACACGAAAATACAAATAGAT
65 CTTACACGAAAATACAAATAGAT
23266757 GCCATCGTCCCAGACGTGGTCTTACACGAAAA
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAA
23266789 CACTTATCAG
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 70 0.67
86 34 0.32
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (87 bp):
GCCATCGTCCCAGACGTGGTCTTACACGAAAATCACAAATCGATGCCACTGTCCTAGACAAGGTC
TTACACGAAAATACAAATAGAT
Found at i:23270555 original size:24 final size:24
Alignment explanation
Indices: 23270528--23270577 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23270518 CTTGTTTTGT
23270528 GATAGTCAATGTGCTATTTGGTAA
1 GATAGTCAATGTGCTATTTGGTAA
23270552 GATAGTCAATGTGCTATTTGGTAA
1 GATAGTCAATGTGCTATTTGGTAA
23270576 GA
1 GA
23270578 ATTCAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (24 bp):
GATAGTCAATGTGCTATTTGGTAA
Found at i:23283805 original size:28 final size:29
Alignment explanation
Indices: 23283756--23283814 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
23283746 TTATCAAAAC
*
23283756 AAATTCAGAAAAAATCTCAAAAAATTTAA
1 AAATTCAGAAAAAATATCAAAAAATTTAA
* **
23283785 AAATTCAG-AAAAATATGAAAAGCTTTAA
1 AAATTCAGAAAAAATATCAAAAAATTTAA
23283813 AA
1 AA
23283815 CATGTGAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATTCAGAAAAAATATCAAAAAATTTAA
Found at i:23284183 original size:18 final size:18
Alignment explanation
Indices: 23284162--23284202 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23284152 GATTTAATAA
*
23284162 TTTTTTGTATTTTATATC
1 TTTTTTGTATTCTATATC
* *
23284180 TTTTTTGTGTTCTATGTC
1 TTTTTTGTATTCTATATC
23284198 TTTTT
1 TTTTT
23284203 AAAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (18 bp):
TTTTTTGTATTCTATATC
Found at i:23287702 original size:25 final size:22
Alignment explanation
Indices: 23287648--23287702 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 22
23287638 AGAATTAAAA
*
23287648 AAAGAAGAAGCAAAAGATAGAG
1 AAAGAAGAAGCAAAAAATAGAG
23287670 AGCAAGAAGCAAAGCAAAAAATCAGAG
1 A--AAGAAG--AAGCAAAAAAT-AGAG
23287697 AAAGAA
1 AAAGAA
23287703 TTAAAAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 1 0.04
24 6 0.22
25 5 0.19
26 10 0.37
27 5 0.19
ACGTcount: A:0.64, C:0.09, G:0.24, T:0.04
Consensus pattern (22 bp):
AAAGAAGAAGCAAAAAATAGAG
Found at i:23288029 original size:8 final size:8
Alignment explanation
Indices: 23288016--23288061 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
23288006 TAGAGAAAAT
23288016 AAAAGAAA
1 AAAAGAAA
23288024 AAAAG-AA
1 AAAAGAAA
*
23288031 AACAGAAA
1 AAAAGAAA
23288039 AGAAAGAAA
1 A-AAAGAAA
*
23288048 AAAAGGAA
1 AAAAGAAA
23288056 AAAAGA
1 AAAAGA
23288062 GAGCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.19
8 19 0.59
9 7 0.22
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:23292446 original size:61 final size:61
Alignment explanation
Indices: 23292304--23292448 Score: 175
Period size: 61 Copynumber: 2.4 Consensus size: 61
23292294 ACACATTCTA
* * * *
23292304 TCAATTTGATCCTAAATATAAAAAATTCAAGAATTTTAGCTCTCAATATTTACAAAATTTG
1 TCAATTTAATCCTAAATCTAAAAAATTCAAGAAATTTAGCTCTCAATATTTACAAAATCTG
* ** * * *
23292365 TCATTTTAATTTTAATTCTAAAAAATTCAATAAATTTGGC-CATCAATATTTACAAAATCTG
1 TCAATTTAATCCTAAATCTAAAAAATTCAAGAAATTTAGCTC-TCAATATTTACAAAATCTG
*
23292426 TCAATTTAATCCTAACTCTAAAA
1 TCAATTTAATCCTAAATCTAAAA
23292449 TTTTAAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
60 1 0.01
61 68 0.99
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (61 bp):
TCAATTTAATCCTAAATCTAAAAAATTCAAGAAATTTAGCTCTCAATATTTACAAAATCTG
Found at i:23295859 original size:20 final size:20
Alignment explanation
Indices: 23295834--23295875 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
23295824 AATTTGTTAT
23295834 TAAGTCAATTAAGAAACATA
1 TAAGTCAATTAAGAAACATA
*
23295854 TAAGTCAATTAAGAACCATA
1 TAAGTCAATTAAGAAACATA
23295874 TA
1 TA
23295876 TTTAGAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAGTCAATTAAGAAACATA
Found at i:23301496 original size:2 final size:2
Alignment explanation
Indices: 23301489--23301519 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23301479 TAGACACATT
23301489 TA TA 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 TA TA T
23301520 TACTTCGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23321706 original size:2 final size:2
Alignment explanation
Indices: 23321701--23321733 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23321691 TCTTTTTTTT
23321701 TA TA TA 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 TA TA TA T
23321734 GCATACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23322084 original size:4 final size:4
Alignment explanation
Indices: 23322075--23322104 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
23322065 CTTAATGTTC
23322075 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
23322105 ATGTTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:23326608 original size:18 final size:18
Alignment explanation
Indices: 23326585--23326622 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23326575 CTGTAGGTCC
23326585 ATTAAAGAGGTAGACACT
1 ATTAAAGAGGTAGACACT
23326603 ATTAAAGAGGTAGACACT
1 ATTAAAGAGGTAGACACT
23326621 AT
1 AT
23326623 CTACGAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (18 bp):
ATTAAAGAGGTAGACACT
Found at i:23332146 original size:9 final size:9
Alignment explanation
Indices: 23332132--23332191 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
23332122 AAAATATTTT
23332132 AAAATTAAA
1 AAAATTAAA
23332141 AAAATTAAA
1 AAAATTAAA
*
23332150 AAGTATTTTAAA
1 AA--A-ATTAAA
**
23332162 AAAATT-TT
1 AAAATTAAA
23332170 AAAATTAAA
1 AAAATTAAA
23332179 AAAATTAAA
1 AAAATTAAA
23332188 AAAA
1 AAAA
23332192 AGTATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 6 0.15
9 26 0.63
10 1 0.02
11 1 0.02
12 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (9 bp):
AAAATTAAA
Found at i:23332151 original size:38 final size:38
Alignment explanation
Indices: 23332076--23332189 Score: 156
Period size: 38 Copynumber: 2.8 Consensus size: 38
23332066 ATAAATACCA
23332076 AAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTT
1 AAAAA-TATTTT-AAAATT--AA-AAAAATT--AAAAAGTATTTT
23332121 AAAAATATTTTAAAATTAAAAAAATTAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTAAAAAGTATTTT
*
23332159 AAAAAAATTTTAAAATTAAAAAAATTAAAAA
1 AAAAATATTTTAAAATTAAAAAAATTAAAAA
23332190 AAAGTATTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
38 42 0.62
40 7 0.10
41 2 0.03
43 6 0.09
44 6 0.09
45 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (38 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAAAGTATTTT
Found at i:23332181 original size:30 final size:29
Alignment explanation
Indices: 23332141--23332218 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
23332131 TAAAATTAAA
* **
23332141 AAAATTAAAAAGTATTTTAAAAAA-ATTTT
1 AAAATTAAAAA-AATTAAAAAAAAGATTTT
23332170 AAAATTAAAAAAATTAAAAAAAAGTATTTT
1 AAAATTAAAAAAATTAAAAAAAAG-ATTTT
*
23332200 AAAGTT-AAAAAA-TAAAAAA
1 AAAATTAAAAAAATTAAAAAA
23332219 TAAAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 16 0.37
29 17 0.40
30 10 0.23
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAATTAAAAAAATTAAAAAAAAGATTTT
Found at i:23332191 original size:40 final size:40
Alignment explanation
Indices: 23332100--23332202 Score: 174
Period size: 38 Copynumber: 2.6 Consensus size: 40
23332090 AAATTAAAAT
*
23332100 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
23332140 AAAAATT--AAAAAGTATTTTAAAAAAATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
23332178 AAAAATTAAAAAAAAGTATTTTAAA
1 AAAAATT-AAAAAAAGTATTTTAAA
23332203 GTTAAAAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
38 37 0.63
40 7 0.12
41 15 0.25
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
Found at i:23332217 original size:7 final size:7
Alignment explanation
Indices: 23332205--23332237 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
23332195 ATTTTAAAGT
23332205 TAAAAAA
1 TAAAAAA
23332212 TAAAAAA
1 TAAAAAA
23332219 T-AAAAA
1 TAAAAAA
23332225 T-AAAAA
1 TAAAAAA
23332231 TAAAAAA
1 TAAAAAA
23332238 ATTTATTNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:23332223 original size:5 final size:6
Alignment explanation
Indices: 23332207--23332236 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
23332197 TTTAAAGTTA
23332207 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
23332237 AATTTATTNN
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:23332435 original size:16 final size:17
Alignment explanation
Indices: 23332414--23332450 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23332404 GTTAAAATTG
*
23332414 TAATTTA-AACATTTTA
1 TAATTTATAAAATTTTA
23332430 TAATTTATAAAATTTTA
1 TAATTTATAAAATTTTA
23332447 -AATT
1 TAATT
23332451 AGTAATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTTATAAAATTTTA
Found at i:23332881 original size:21 final size:20
Alignment explanation
Indices: 23332847--23332885 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23332837 GATGTGATGT
23332847 TAAAAATTCATTTTAAAAGA
1 TAAAAATTCATTTTAAAAGA
*
23332867 TAAAATATTTATTTTAAAA
1 TAAAA-ATTCATTTTAAAA
23332886 TTATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAAATTCATTTTAAAAGA
Found at i:23334014 original size:54 final size:54
Alignment explanation
Indices: 23333950--23334169 Score: 431
Period size: 54 Copynumber: 4.1 Consensus size: 54
23333940 TAATATTATC
23333950 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
1 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
23334004 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
1 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
23334058 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
1 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
*
23334112 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACGATTAGTAAGT
1 TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
23334166 TTAT
1 TTAT
23334170 GTTTTGGTCA
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 165 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (54 bp):
TTATTATAAAATAAAGGGTAAATTACACCTAAAGTCACTAAACTATTAGTAAGT
Found at i:23340474 original size:2 final size:2
Alignment explanation
Indices: 23340469--23340496 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23340459 ATATATATAA
23340469 AG 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 AG
23340497 CAAATCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23341973 original size:4 final size:4
Alignment explanation
Indices: 23341964--23342040 Score: 136
Period size: 4 Copynumber: 19.2 Consensus size: 4
23341954 CTAGTTTTAT
*
23341964 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
23342012 ATAC ATAC ATAC ATAC ATAC ATAT ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
23342041 CCCAAAGAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 69 1.00
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:23342068 original size:2 final size:2
Alignment explanation
Indices: 23342061--23342096 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23342051 TGTGTACATG
23342061 GA GA GA GA GA 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 GA GA GA GA GA
23342097 ACGAAGGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23344482 original size:29 final size:29
Alignment explanation
Indices: 23344450--23344505 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
23344440 ATAGGAATTA
* *
23344450 GATCAAATTAGTCCTTCTAGTATTAAATG
1 GATCAAATTAGTCCTTATACTATTAAATG
* *
23344479 GATCAATTTAGTTCTTATACTATTAAA
1 GATCAAATTAGTCCTTATACTATTAAA
23344506 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTCCTTATACTATTAAATG
Found at i:23346565 original size:25 final size:25
Alignment explanation
Indices: 23346514--23346565 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
23346504 GTAACAAAAT
* **
23346514 TAACAATAAAATAATAGTTATACAA
1 TAACAACAAAATAATAGCAATACAA
*
23346539 TAACAACAAAATAATAGCAATATAA
1 TAACAACAAAATAATAGCAATACAA
23346564 TA
1 TA
23346566 GTGAAATGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.25
Consensus pattern (25 bp):
TAACAACAAAATAATAGCAATACAA
Found at i:23350602 original size:47 final size:47
Alignment explanation
Indices: 23350528--23350714 Score: 315
Period size: 47 Copynumber: 4.0 Consensus size: 47
23350518 TAATTGCAAT
*
23350528 TCGATCTCCCTGATTTT-TTTCGATGTCCGATACTAAGTATAGATAGA
1 TCGATCTCCCTGATTTTCTTT-GTTGTCCGATACTAAGTATAGATAGA
23350575 TCGATCTCCCTGATTTTCTTTGTTGTCCGATACTAAGTATAGATAGA
1 TCGATCTCCCTGATTTTCTTTGTTGTCCGATACTAAGTATAGATAGA
23350622 TCGATCTCCCTGATTTTCTTTGTTGTCCGATACTAAGTATAGATAGA
1 TCGATCTCCCTGATTTTCTTTGTTGTCCGATACTAAGTATAGATAGA
* *
23350669 TCGATCTCCCTGATTTTCTGCT-TTGTCCAATACTAAGTATAGATAG
1 TCGATCTCCCTGATTTTCT-TTGTTGTCCGATACTAAGTATAGATAG
23350715 TATTTTTAGG
Statistics
Matches: 135, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 131 0.97
48 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (47 bp):
TCGATCTCCCTGATTTTCTTTGTTGTCCGATACTAAGTATAGATAGA
Found at i:23354862 original size:24 final size:24
Alignment explanation
Indices: 23354834--23354885 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23354824 TTAGTAGGTC
* *
23354834 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
23354858 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
23354882 AAAT
1 AAAT
23354886 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:23355247 original size:25 final size:25
Alignment explanation
Indices: 23355219--23355269 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
23355209 ATTAATGATT
23355219 ACTCAATTTTAATTAAAATAATAAA
1 ACTCAATTTTAATTAAAATAATAAA
23355244 ACTCAATTTTAATTAAAATAATAAA
1 ACTCAATTTTAATTAAAATAATAAA
23355269 A
1 A
23355270 TTATCATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (25 bp):
ACTCAATTTTAATTAAAATAATAAA
Found at i:23355440 original size:14 final size:14
Alignment explanation
Indices: 23355421--23355450 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23355411 CTAGCTGTTG
*
23355421 GAAGAAGCAAAAGA
1 GAAGAAGAAAAAGA
23355435 GAAGAAGAAAAAGA
1 GAAGAAGAAAAAGA
23355449 GA
1 GA
23355451 TACCCACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.30, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAAAAGA
Found at i:23358124 original size:44 final size:43
Alignment explanation
Indices: 23357983--23358355 Score: 302
Period size: 44 Copynumber: 8.6 Consensus size: 43
23357973 NNNNNNNNNN
* * * *
23357983 CTGCAACTTCAGGGAGATAGGATTATCGGCT--TTAATCTGTTCCA
1 CTGCAACTTCAGGGAGATAAGACT-T--GCTACTTAGTCTGCTCCA
* *
23358027 CTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTA-CTT-AGTCTGCTCCA
23358072 CTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TACTTAGTCTGCTCCA
* * * *
23358116 CTGCAACTTCAGGGAGATAAGACTAGATAC-GA-TCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTACTTAGTCTGCTCCA
* * * * *
23358156 CTGCAACTTC-GGAGAGATAAGTC-TG-AAGTTTTAATCCGCTCCA
1 CTGCAACTTCAGG-GAGATAAGACTTGCTA--CTTAGTCTGCTCCA
* * * *
23358199 ATGCAACTTCAGGGAGATAGGATTATCGGCT--TTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACT-T--GCTACTTAGTCTGCTCCA
* *
23358243 CTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCTA-CTT-AGTCTGCTCCA
*
23358288 CTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGATCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TACTTAGTCTGCTCCA
*
23358332 CTGCAACTTCAGGAAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
23358356 AGATGCGATC
Statistics
Matches: 268, Mismatches: 35, Indels: 52
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.00
39 3 0.01
40 20 0.07
41 11 0.04
42 6 0.02
43 22 0.08
44 127 0.47
45 75 0.28
46 2 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTACTTAGTCTGCTCCA
Found at i:23358134 original size:89 final size:89
Alignment explanation
Indices: 23358018--23358355 Score: 285
Period size: 89 Copynumber: 3.9 Consensus size: 89
23358008 TCGGCTTTAA
*
23358018 TCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAGTCTGCCCCACTGCAACTTCA
23358083 GGAG-GATAAGACTTGCTTACTTAG
65 GGAGAGATAAGACTTGCTTACTTAG
* * * *
23358107 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-A--TAC-GATCTG-CTCTCTGCAACTTC-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAG-TCTGCCCCACTGCAACTTCA
* * *
23358166 GGAGAGATAAGTC-TGAAGTT--TTAA
65 GGAGAGATAAGACTTG--CTTACTTAG
* * * * ** * * *
23358190 TCCGCTCCAATGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATCTTCAGTCTGCCCCACTGCAACTTCA
*
23358254 GG-GAGATAAGACTTGC-CATCTTCAG
65 GGAGAGATAAGACTTGCTTA-CTT-AG
* * **
23358279 TCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT-AGTCTGATCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTCAGTCTGCCCCACTGCAACTTC
23358342 AGGA-AGATAAGACT
64 AGGAGAGATAAGACT
23358356 AGATGCGATC
Statistics
Matches: 196, Mismatches: 33, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
82 1 0.01
83 37 0.19
84 20 0.10
85 8 0.04
86 5 0.03
87 21 0.11
88 9 0.05
89 90 0.46
90 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCCCCACTGCAACTTCAG
GAGAGATAAGACTTGCTTACTTAG
Found at i:23358358 original size:216 final size:217
Alignment explanation
Indices: 23357984--23358433 Score: 821
Period size: 216 Copynumber: 2.1 Consensus size: 217
23357974 NNNNNNNNNC
*
23357984 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
*
23358049 CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTC
66 CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGATC
* * *
23358114 CACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCGGAGAGATAAG-T
131 CACTGCAACTTCAGGAAGATAAGACTAGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGAT
23358178 CTGAAGTTTTAATCCGCTCCAA
196 CTGAAGTTTTAATCCGCTCCAA
23358200 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
23358265 CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGATC
66 CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGATC
* *
23358330 CACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTGCTTTCTACAACTTCAGAGAGATAAGAT
131 CACTGCAACTTCAGGAAGATAAGACTAGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGAT
*
23358395 CTGAGGTTTTAATCCGCTCCAA
196 CTGAAGTTTTAATCCGCTCCAA
23358417 TGCAACTTCAGGGAGAT
1 TGCAACTTCAGGGAGAT
23358434 TACAATCTTC
Statistics
Matches: 225, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
216 186 0.83
217 39 0.17
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGATC
CACTGCAACTTCAGGAAGATAAGACTAGATACGATCTGCTCTCTACAACTTCAGAGAGATAAGAT
CTGAAGTTTTAATCCGCTCCAA
Found at i:23358426 original size:44 final size:42
Alignment explanation
Indices: 23357983--23358433 Score: 277
Period size: 44 Copynumber: 10.4 Consensus size: 42
23357973 NNNNNNNNNN
* * * *
23357983 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCA
1 CTGCAACTTCAGGGAGATAAGACTA--GGTTTTAATCTGCTCCA
* * * * *
23358027 CTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTAG--GT-TTTAATCTGCTCCA
* * *
23358072 CTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTAGGTT--TTAATCTGCTCCA
* *** *
23358116 CTGCAACTTCAGGGAGATAAGACTA-GATACGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCA
* * *
23358156 CTGCAACTTC-GGAGAGATAAGTCTGAAGTTTTAATCCGCTCCA
1 CTGCAACTTCAGG-GAGATAAGACT-AGGTTTTAATCTGCTCCA
* * * *
23358199 ATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTA--GGTTTTAATCTGCTCCA
* * * * *
23358243 CTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCA
1 CTGCAACTTCAGGGAGATAAGACTAG--GT-TTTAATCTGCTCCA
* * * *
23358288 CTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGATCCA
1 CTGCAACTTCAGGGA-GATAAGACTAGGTT--TTAATCTGCTCCA
* * *** **
23358332 CTGCAACTTCAGGAAGATAAGACTA-GATGCGATCTGCT-TT
1 CTGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCA
* * *
23358372 CTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-AGGTTTTAATCTGCTCCA
*
23358416 ATGCAACTTCAGGGAGAT
1 CTGCAACTTCAGGGAGAT
23358434 TACAATCTTC
Statistics
Matches: 311, Mismatches: 71, Indels: 50
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.01
40 40 0.13
41 14 0.05
42 14 0.05
43 30 0.10
44 141 0.45
45 70 0.23
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (42 bp):
CTGCAACTTCAGGGAGATAAGACTAGGTTTTAATCTGCTCCA
Found at i:23358671 original size:132 final size:132
Alignment explanation
Indices: 23358429--23358786 Score: 646
Period size: 132 Copynumber: 2.7 Consensus size: 132
23358419 CAACTTCAGG
23358429 GAGAT-TACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
1 GAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
23358493 ACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
66 ACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
23358558 AT
131 AT
23358560 GAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
1 GAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
23358625 ACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
66 ACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
23358690 AT
131 AT
* * * * * *
23358692 AAGGTCTACAATCTTCAACCTTCTCCGTTGCTGCTGAGGGAGACAAGGCTTGGTAGCTTAAATCT
1 GAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
*
23358757 GCTTCCCACTATCTTGGAAAGATAAGATTC
66 ACTTCCCACTATCTTGGAAAGATAAGATTC
23358787 NNNNNNNNNN
Statistics
Matches: 219, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
131 5 0.02
132 214 0.98
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
GAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGAGATAAGGCTTGGTGGCTTAAATCT
ACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:23358692 original size:44 final size:44
Alignment explanation
Indices: 23358512--23358694 Score: 133
Period size: 44 Copynumber: 4.2 Consensus size: 44
23358502 TATCTTGGAA
*
23358512 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
23358556 AGATGAGA-TCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGG
1 AGATAAGATTC-GCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * *
23358600 AGATAAGGCTT-GGTGGCTTAAATCTACTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
23358644 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
23358688 AGATAAG
1 AGATAAG
23358695 GTCTACAATC
Statistics
Matches: 99, Mismatches: 30, Indels: 20
0.66 0.20 0.13
Matches are distributed among these distances:
42 6 0.06
43 9 0.09
44 73 0.74
45 5 0.05
46 6 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:23366342 original size:19 final size:19
Alignment explanation
Indices: 23366318--23366430 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
23366308 AATCGTATAT
23366318 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
23366337 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
23366356 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
23366375 TCTAGGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
23366396 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23366415 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23366431 TTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 66 0.79
21 18 0.21
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23366405 original size:40 final size:40
Alignment explanation
Indices: 23366318--23366429 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
23366308 AATCGTATAT
23366318 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
23366356 TCTAAGATTGCATATCATATCTAGGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
23366396 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
23366430 CTTCAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 27 0.40
40 41 0.60
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:23367209 original size:30 final size:29
Alignment explanation
Indices: 23367175--23367255 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
23367165 TTCGATAACG
*
23367175 TTAGTGAATGTTTTGTTATTTTTGTAAAGT
1 TTAGTGAATGTTTTGTTATTTTT-CAAAGT
* *** *
23367205 TTAGTGATTAAATTGTAATTTTTCAAAGT
1 TTAGTGAATGTTTTGTTATTTTTCAAAGT
* *
23367234 TTAATGACTGTTTTGTTATTTT
1 TTAGTGAATGTTTTGTTATTTT
23367256 AATCAAATTT
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 21 0.54
30 18 0.46
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (29 bp):
TTAGTGAATGTTTTGTTATTTTTCAAAGT
Found at i:23370565 original size:22 final size:23
Alignment explanation
Indices: 23370535--23370581 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
23370525 ATAATATCCA
23370535 AACATTAATAATAAAATAGTAGC
1 AACATTAATAATAAAATAGTAGC
* *
23370558 AACA-TAATAATGAAATTGTAGC
1 AACATTAATAATAAAATAGTAGC
23370580 AA
1 AA
23370582 AATAGTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (23 bp):
AACATTAATAATAAAATAGTAGC
Found at i:23377422 original size:16 final size:16
Alignment explanation
Indices: 23377397--23377427 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23377387 TTTGTGCTTT
*
23377397 TTTTTTCATAAATATA
1 TTTTTACATAAATATA
23377413 TTTTTACATAAATAT
1 TTTTTACATAAATAT
23377428 TTTACTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTACATAAATATA
Found at i:23379572 original size:72 final size:73
Alignment explanation
Indices: 23379454--23379600 Score: 287
Period size: 72 Copynumber: 2.0 Consensus size: 73
23379444 TTTAAATTAA
23379454 CACATAAAGCAATTTCAACATAAGTTCATGATTTTCAAACTTTTCATTTTACCAATTCAACCAAA
1 CACATAAAGCAATTTCAACATAAGTTCATGATTTTCAAACTTTTCATTTTACCAATTCAACCAAA
23379519 TTCTCATT
66 TTCTCATT
23379527 CACATAAAGC-ATTTCAACATAAGTTCATGATTTTCAAACTTTTCATTTTACCAATTCAACCAAA
1 CACATAAAGCAATTTCAACATAAGTTCATGATTTTCAAACTTTTCATTTTACCAATTCAACCAAA
23379591 TTCTCATT
66 TTCTCATT
23379599 CA
1 CA
23379601 ATGTTCATAA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 64 0.86
73 10 0.14
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (73 bp):
CACATAAAGCAATTTCAACATAAGTTCATGATTTTCAAACTTTTCATTTTACCAATTCAACCAAA
TTCTCATT
Found at i:23389548 original size:30 final size:30
Alignment explanation
Indices: 23389449--23389548 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
23389439 ATAGGGGGAT
* * *
23389449 GAAAAATGGAAACTCCGTTAAGTCTTTAAC
1 GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
* *
23389479 GAAAAATGGGAGCTCCGTTAAGTCTGTAAT
1 GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
* *
23389509 GAAAAATGGTAGTTCCGTTACGTCTGTAAC
1 GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
*
23389539 GGAAAATGGT
1 GAAAAATGGT
23389549 TCGTGGTGAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (30 bp):
GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
Found at i:23401167 original size:6 final size:6
Alignment explanation
Indices: 23401156--23401203 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
23401146 CTTGGCTATT
23401156 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
23401204 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:23402371 original size:43 final size:42
Alignment explanation
Indices: 23402264--23402383 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
23402254 TGTACAATGC
* * * *
23402264 CAACGTCCTAGACGTGGTCTTACATGTAATCACATACCGATG
1 CAACGTCCCAGACGTGGTCTTACAAGTAAACACAGACCGATG
* * **
23402306 CCACTGTCCCAGACAG-GTTCTTACAAGTAAACACAGGTCGATG
1 CAAC-GTCCCAGAC-GTGGTCTTACAAGTAAACACAGACCGATG
* *
23402349 TCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 -CAACGTCCCAGACGTGGTCTTACAAGTAAACACA
23402384 TATCGGAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
42 4 0.06
43 54 0.87
44 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACAAGTAAACACAGACCGATG
Found at i:23404801 original size:22 final size:22
Alignment explanation
Indices: 23404753--23404824 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 22
23404743 CGGCCCATAT
* * *
23404753 TAAATATATATTTAATGTATATA
1 TAAATATATATTTGAT-TAAAAA
23404776 -AAATATATATTTGATTAAAAA
1 TAAATATATATTTGATTAAAAA
23404797 TAAATATATATATTTGATTAAAAA
1 T-AA-ATATATATTTGATTAAAAA
23404821 TAAA
1 TAAA
23404825 AAAAATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.09
22 15 0.35
23 4 0.09
24 20 0.47
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAATATATATTTGATTAAAAA
Found at i:23404803 original size:29 final size:27
Alignment explanation
Indices: 23404773--23404834 Score: 94
Period size: 24 Copynumber: 2.4 Consensus size: 27
23404763 TTTAATGTAT
23404773 ATAAAATATATATTTGATTAAAAATAA
1 ATAAAATATATATTTGATTAAAAATAA
23404800 AT---ATATATATTTGATTAAAAATAA
1 ATAAAATATATATTTGATTAAAAATAA
*
23404824 AAAAAATATAT
1 ATAAAATATAT
23404835 TTAATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 23 0.74
27 8 0.26
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (27 bp):
ATAAAATATATATTTGATTAAAAATAA
Found at i:23404805 original size:24 final size:23
Alignment explanation
Indices: 23404773--23404825 Score: 97
Period size: 24 Copynumber: 2.3 Consensus size: 23
23404763 TTTAATGTAT
23404773 ATAAAATATATATTTGATTAAAA
1 ATAAAATATATATTTGATTAAAA
23404796 ATAAATATATATATTTGATTAAAA
1 ATAAA-ATATATATTTGATTAAAA
23404820 ATAAAA
1 ATAAAA
23404826 AAAATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAAATATATATTTGATTAAAA
Found at i:23408380 original size:43 final size:43
Alignment explanation
Indices: 23408309--23408426 Score: 143
Period size: 43 Copynumber: 2.7 Consensus size: 43
23408299 TATGTACTAT
* *
23408309 CGTGTAAGACCACGTCTGAGACGTTGGCATTGACT-TGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TATGTGATTA
* *
23408352 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTGATATGTGATTA
*
23408395 CATGTAAGACCACGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
23408427 TACGAGTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 3 0.05
43 58 0.92
44 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGATATGTGATTA
Found at i:23409365 original size:23 final size:23
Alignment explanation
Indices: 23409333--23409645 Score: 202
Period size: 23 Copynumber: 13.4 Consensus size: 23
23409323 CTGCCCAATT
23409333 TTGGTGTATAAATGCTGTCCAAA
1 TTGGTGTATAAATGCTGTCCAAA
* * * *
23409356 TTGGTATATATATGCTGCCCAATT
1 TTGGTGTATAAATGCTGTCCAA-A
* *
23409380 TTAGTGTATAAATGCTGTCCAAT
1 TTGGTGTATAAATGCTGTCCAAA
** * * *
23409403 TTTATATATACATGTTGT-CAAA
1 TTGGTGTATAAATGCTGTCCAAA
* *
23409425 TTTTGTGTATAAGTGCTGTCCAAA
1 -TTGGTGTATAAATGCTGTCCAAA
* * *
23409449 TTGGTATATATATGCTG-CGCAATT
1 TTGGTGTATAAATGCTGTC-CAA-A
* * *
23409473 TTAGTGTATAAATGTTGTCCAAT
1 TTGGTGTATAAATGCTGTCCAAA
* * *
23409496 TTTGTATATACATGCTGT-CAAA
1 TTGGTGTATAAATGCTGTCCAAA
* *
23409518 TTTTGTGTATAAGTGCTGTCCAAA
1 -TTGGTGTATAAATGCTGTCCAAA
* * * *
23409542 TTGGTATATATATGCTGCCCAATT
1 TTGGTGTATAAATGCTGTCCAA-A
* * *
23409566 TTAGTGTATAAATGTTGTCCAAT
1 TTGGTGTATAAATGCTGTCCAAA
* * *
23409589 TTTGTATATATATGCTGT-CAAA
1 TTGGTGTATAAATGCTGTCCAAA
*
23409611 TTTTGGTGTATAAATGCTGTCCAAT
1 --TTGGTGTATAAATGCTGTCCAAA
*
23409636 TTTGTGTATA
1 TTGGTGTATA
23409646 TATATATATA
Statistics
Matches: 221, Mismatches: 57, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
22 10 0.05
23 133 0.60
24 74 0.33
25 4 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (23 bp):
TTGGTGTATAAATGCTGTCCAAA
Found at i:23409387 original size:47 final size:47
Alignment explanation
Indices: 23409316--23409650 Score: 431
Period size: 47 Copynumber: 7.1 Consensus size: 47
23409306 CAAAAATCGA
* *
23409316 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAAATTGGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
**
23409363 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTTATAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
* * * * * *
23409410 ATACATGTTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
* * *
23409456 ATATATGCTGCGCAATTTTAGTGTATAAATGTTGTCCAATTTTGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
* * * * *
23409503 ATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
* *
23409549 ATATATGCTGCCCAATTTTAGTGTATAAATGTTGTCCAATTTTGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
* * *
23409596 ATATATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTGTAT
1 ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAA-TTTG-GTAT
23409645 ATATAT
1 ATATAT
23409651 ATATATGCTG
Statistics
Matches: 243, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
46 76 0.31
47 154 0.63
48 3 0.01
49 10 0.04
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (47 bp):
ATATATGCTGCCCAATTTTAGTGTATAAATGCTGTCCAATTTGGTAT
Found at i:23409442 original size:93 final size:94
Alignment explanation
Indices: 23409320--23409650 Score: 540
Period size: 93 Copynumber: 3.5 Consensus size: 94
23409310 AATCGAATAT
* *
23409320 ATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
* *
23409385 GTATAAATGCTGTCCAATTTTATATATAC
66 GTATAAATGTTGTCCAATTTTGTATATAC
* * *
23409414 ATGTTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCGCAATTTTAGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
23409478 GTATAAATGTTGTCCAATTTTGTATATAC
66 GTATAAATGTTGTCCAATTTTGTATATAC
*
23409507 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
*
23409571 GTATAAATGTTGTCCAATTTTGTATATAT
66 GTATAAATGTTGTCCAATTTTGTATATAC
*
23409600 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTGTATATATAT
1 ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAA-ATTG-GTATATATAT
23409651 ATATATGCTG
Statistics
Matches: 222, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
93 179 0.81
94 30 0.14
95 3 0.01
96 10 0.05
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (94 bp):
ATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGT
GTATAAATGTTGTCCAATTTTGTATATAC
Found at i:23409573 original size:140 final size:139
Alignment explanation
Indices: 23409316--23409645 Score: 428
Period size: 140 Copynumber: 2.4 Consensus size: 139
23409306 CAAAAATCGA
* * * *
23409316 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTT
1 ATATATGCTG-CCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATACATGCTGCCAAATTT
* * * * *
23409381 TAGTGTATAAATGCTGTCCAATTTTATATATACATGTTGTCAAATTTTGTGTATAAGTGCTGTCC
65 TAGTGTATAAATGCTGTCCAAATTGATATATACATGCTGCCAAATTTTGTGTATAAATGCTGTCC
23409446 AAATTGGTAT
130 AAATTGGTAT
* * *
23409456 ATATATGCTGCGCAATTTTAGTGTATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
1 ATATATGCTGC-CAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATACATGCTGCCAAATTT
* * * * *
23409521 T-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGTGTATAAATGTTGTC
65 TAGTGTATAAATGCTGTCCAAATTGATATATACATGCTGCCAAATTTT-GTGTATAAATGCTGTC
* *
23409585 CAATTTTGTAT
129 CAAATTGGTAT
* *
23409596 ATATATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAATTTTGTGTATA
1 ATATATGCTG-CCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATA
23409646 TATATATATA
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
139 39 0.24
140 124 0.76
141 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (139 bp):
ATATATGCTGCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATACATGCTGCCAAATTTT
AGTGTATAAATGCTGTCCAAATTGATATATACATGCTGCCAAATTTTGTGTATAAATGCTGTCCA
AATTGGTAT
Found at i:23410374 original size:21 final size:21
Alignment explanation
Indices: 23410348--23410387 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
23410338 ACGGTTTGAG
23410348 CATAC-GGCTGTGTGGGGTATC
1 CATACGGGC-GTGTGGGGTATC
23410369 CATACGGGCGTGTGGGGTA
1 CATACGGGCGTGTGGGGTA
23410388 GCCACACCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.15, C:0.17, G:0.42, T:0.25
Consensus pattern (21 bp):
CATACGGGCGTGTGGGGTATC
Found at i:23412508 original size:2 final size:2
Alignment explanation
Indices: 23412501--23412544 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
23412491 TGAATTGAAC
23412501 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
23412544 T
1 T
23412545 CTTGAAAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23425650 original size:21 final size:21
Alignment explanation
Indices: 23425604--23425650 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
23425594 ATTCTAATAC
23425604 TTTTGGGTTTAAGCTTAAGAA
1 TTTTGGGTTTAAGCTTAAGAA
*
23425625 ATTTGGTGTTTTAA-CTTAA-AA
1 TTTTGG-G-TTTAAGCTTAAGAA
23425646 TTTTG
1 TTTTG
23425651 ATAGCAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (21 bp):
TTTTGGGTTTAAGCTTAAGAA
Found at i:23427873 original size:21 final size:21
Alignment explanation
Indices: 23427831--23427874 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23427821 CGAGTTTGGG
*
23427831 TGGGTTCAGGTTAGGTTATTT
1 TGGGTTCAGGTTAAGTTATTT
*
23427852 TGGGTTCGAGTTTAAGTT-TTT
1 TGGGTTC-AGGTTAAGTTATTT
23427873 TG
1 TG
23427875 TGTTTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.14, C:0.05, G:0.32, T:0.50
Consensus pattern (21 bp):
TGGGTTCAGGTTAAGTTATTT
Found at i:23440608 original size:18 final size:18
Alignment explanation
Indices: 23440587--23440621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23440577 GAAATAACGA
* *
23440587 AAATGGTGAATTAAATTC
1 AAATGGTAAAGTAAATTC
23440605 AAATGGTAAAGTAAATT
1 AAATGGTAAAGTAAATT
23440622 TAAAAATAAA
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:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
AAATGGTAAAGTAAATTC
Found at i:23443286 original size:106 final size:106
Alignment explanation
Indices: 23443097--23443305 Score: 357
Period size: 106 Copynumber: 2.0 Consensus size: 106
23443087 TCACAATAGC
*
23443097 ACAAATCTATGTGGATGACATTTTTCTTTTATTTCACTCATTCAAAAACTTCTTAAGAATTTGTT
1 ACAAATCTATGTGGATGACATTTTTCTTTTAGTTCACTCATTCAAAAACTTCTTAAGAATTTGTT
23443162 AACCTCGTGAAAGCTGAATTTGGAATGAGTATGGTAGGTAA
66 AACCTCGTGAAAGCTGAATTTGGAATGAGTATGGTAGGTAA
* *
23443203 ACAAATCTATGTGGATGACATTTTTCTTTTAGTTCACTTC-TTCAAAAGCTTCTTAAGAATTTTT
1 ACAAATCTATGTGGATGACATTTTTCTTTTAGTTCAC-TCATTCAAAAACTTCTTAAGAATTTGT
* *
23443267 TGACCTCGTGAAAGTTGAATTTGGAATGAGTATGGTAGG
65 TAACCTCGTGAAAGCTGAATTTGGAATGAGTATGGTAGG
23443306 GTAGCTAGCA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 95 0.98
107 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (106 bp):
ACAAATCTATGTGGATGACATTTTTCTTTTAGTTCACTCATTCAAAAACTTCTTAAGAATTTGTT
AACCTCGTGAAAGCTGAATTTGGAATGAGTATGGTAGGTAA
Found at i:23447092 original size:73 final size:73
Alignment explanation
Indices: 23446973--23447123 Score: 284
Period size: 73 Copynumber: 2.1 Consensus size: 73
23446963 ATTCTTGGGG
*
23446973 TTGCTATAGTTTCTTTTAATTGCCAATTTGAGTTTATTGATGATCATGTTCTAGAGTTGATTTTG
1 TTGCTATAGTTTCTTTTAATTGCCAATTTGAGTTTATTGACGATCATGTTCTAGAGTTGATTTTG
23447038 ATGATCGT
66 ATGATCGT
*
23447046 TTGCTATAGTTTCTTTTAATTGCCAATTTTAGTTTATTGACGATCATGTTCTAGAGTTGATTTTG
1 TTGCTATAGTTTCTTTTAATTGCCAATTTGAGTTTATTGACGATCATGTTCTAGAGTTGATTTTG
23447111 ATGATCGT
66 ATGATCGT
23447119 TTGCT
1 TTGCT
23447124 TTTTAGTTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.50
Consensus pattern (73 bp):
TTGCTATAGTTTCTTTTAATTGCCAATTTGAGTTTATTGACGATCATGTTCTAGAGTTGATTTTG
ATGATCGT
Found at i:23452305 original size:46 final size:47
Alignment explanation
Indices: 23452217--23452307 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 47
23452207 TCTTCTCTAA
* *
23452217 AACACACTTAAAGATTTCTCTGAATATAGTTTGCGGGGAAAAAAATG
1 AACACACTTAAAGATTGCTCTGAATATAGTTTGCGGGAAAAAAAATG
* * **
23452264 AACATACTTAAAGATTGCT-TGAATATGGTTTGTTGGAAAAAAAA
1 AACACACTTAAAGATTGCTCTGAATATAGTTTGCGGGAAAAAAAA
23452308 AAAAAAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
46 21 0.55
47 17 0.45
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.30
Consensus pattern (47 bp):
AACACACTTAAAGATTGCTCTGAATATAGTTTGCGGGAAAAAAAATG
Found at i:23452306 original size:47 final size:47
Alignment explanation
Indices: 23452217--23452308 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
23452207 TCTTCTCTAA
* **
23452217 AACACACTTAAAGATTTCTCTGAATATAGTTTGCGGGGAAAAAAATG
1 AACACACTTAAAGATTGCTCTGAATATAGTTTGCGGAAAAAAAAATG
* * *
23452264 AACATACTTAAAGATTGCT-TGAATATGGTTTGTTGGAAAAAAAAA
1 AACACACTTAAAGATTGCTCTGAATATAGTTTG-CGGAAAAAAAAA
23452309 AAAAAAAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 12 0.32
47 26 0.68
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.29
Consensus pattern (47 bp):
AACACACTTAAAGATTGCTCTGAATATAGTTTGCGGAAAAAAAAATG
Found at i:23460194 original size:23 final size:22
Alignment explanation
Indices: 23460152--23460195 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23460142 AAATTATAAA
* *
23460152 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATAAATGTAC
23460174 ATATAAGAAAAATATAAATGTA
1 ATATAA-AAAAATATAAATGTA
23460196 TGTGAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
ATATAAAAAAATATAAATGTAC
Found at i:23462730 original size:69 final size:69
Alignment explanation
Indices: 23462615--23462783 Score: 275
Period size: 69 Copynumber: 2.4 Consensus size: 69
23462605 ATCAATTCAT
* * *
23462615 ATATTTACTTTCAATAAATTGGTGATTAATAAAAGTACTTTCAACCTAACCTGATAGGAATATAC
1 ATATTTACTTTCAATAAATTGGTGATTAATAAAAATACTTTAAACCTAACCCGATAGGAATATAC
*
23462680 ATTA
66 ACTA
* * *
23462684 ATATTTACTTTCAATAAATTGATGATTAATAAAAATTCTTTAAACCTAACCCGATAGGAATATAT
1 ATATTTACTTTCAATAAATTGGTGATTAATAAAAATACTTTAAACCTAACCCGATAGGAATATAC
23462749 ACTA
66 ACTA
23462753 ATATTTACTTTCAATAAATTGGTGATTAATA
1 ATATTTACTTTCAATAAATTGGTGATTAATA
23462784 TATAGGAGAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 92 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (69 bp):
ATATTTACTTTCAATAAATTGGTGATTAATAAAAATACTTTAAACCTAACCCGATAGGAATATAC
ACTA
Found at i:23474741 original size:176 final size:177
Alignment explanation
Indices: 23474444--23474845 Score: 673
Period size: 176 Copynumber: 2.3 Consensus size: 177
23474434 AGAAGAGTTT
* * * * **
23474444 GAATGTTTGATGATATTGGGTTGGGGAAATATGTAATACGAA-GTTACAATGAATTCCATAACCA
1 GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTAC-AACGTTACAATG-A-TCCATAACCA
* *
23474508 TCGAGTTTTTTTTATCCTTTTGTCCCACGAACTTGTTTTGTTTAAATTTTAAGTTATTTTGGGTG
63 TCGAGCTTTTTTTATCCTTTTGTCCCACGAACTTGTTTTGCTTAAATTTTAAGTTATTTTGGGTG
23474573 ACTTGGGATGGTTTTTGAGATGACAGGAATGGATAAGCTCACTAAGGGAA
128 ACTTGGGATGGTTTTTGAGATGACAGGAATGGATAAGCTCACTAAGGGAA
* *
23474623 GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTACAACGTTACATTG-TCCATAACCATTG
1 GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTACAACGTTACAATGATCCATAACCATCG
23474687 AGCTTTTTTTATCCTTTTGTCCCACGAACTTGTTTTGCTTAAATTTTAAGTTATTTTGGGTGACT
66 AGCTTTTTTTATCCTTTTGTCCCACGAACTTGTTTTGCTTAAATTTTAAGTTATTTTGGGTGACT
23474752 TGGGATGGTTTTTGAGATGACAGGAATGGATAAGCTCACTAAGGGAA
131 TGGGATGGTTTTTGAGATGACAGGAATGGATAAGCTCACTAAGGGAA
23474799 GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTACAACGTTAC
1 GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTACAACGTTAC
23474846 TTTTTCTGCC
Statistics
Matches: 212, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
176 169 0.80
178 2 0.01
179 41 0.19
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (177 bp):
GAATGTTTGATGATATTTGGTTGAGGAAATCTCTGTTACAACGTTACAATGATCCATAACCATCG
AGCTTTTTTTATCCTTTTGTCCCACGAACTTGTTTTGCTTAAATTTTAAGTTATTTTGGGTGACT
TGGGATGGTTTTTGAGATGACAGGAATGGATAAGCTCACTAAGGGAA
Found at i:23484136 original size:65 final size:65
Alignment explanation
Indices: 23484060--23484190 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
23484050 GGATCTAAGG
* * * *
23484060 TATGTTATTCTACTTATTGATGAATACTAATCTAGTGTACTAATTGTTGAATAGTCGCTTGGAGC
1 TATGTTATTCTACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGC
* * *
23484125 TATGTTTTTCTACTTATCGATGAATACTAGTCTACTATACCGATTGTTGAATAGTCGCTTGGAGC
1 TATGTTATTCTACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGC
23484190 T
1 T
23484191 CGTTAGTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (65 bp):
TATGTTATTCTACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGC
Found at i:23484205 original size:65 final size:65
Alignment explanation
Indices: 23484071--23484205 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 65
23484061 ATGTTATTCT
* * * * * ** *
23484071 ACTTATTGATGAATACTAATCTAGTGTACTAATTGTTGAATAGTCGCTTGGAGCTATGTTTTTCT
1 ACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGCTACGTTAGTCA
* *
23484136 ACTTATCGATGAATACTAGTCTACTATACCGATTGTTGAATAGTCGCTTGGAGCT-CGTTAGTCG
1 ACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGCTACGTTAGTC-
23484200 A
65 A
23484201 ACTTA
1 ACTTA
23484206 AAAAAAAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 5 0.08
65 54 0.92
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (65 bp):
ACTTATCGATGAATACTAATCTACTATACCAATTGTTGAATAGTCGCTTGGAGCTACGTTAGTCA
Found at i:23484262 original size:31 final size:30
Alignment explanation
Indices: 23484227--23484306 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
23484217 AATCGTCTAG
*
23484227 TGACTTAAAGAAAAACTTTCGAATAGTTTAA
1 TGACTTAAAG-AAAACTTTCGAATAATTTAA
* *
23484258 TGACTTAAAGTAAAGCTTTCGAATAATTTAG
1 TGACTTAAAG-AAAACTTTCGAATAATTTAA
*
23484289 TGACTTAATGAAAACTTT
1 TGACTTAAAGAAAACTTT
23484307 TAAATACCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 7 0.16
31 36 0.84
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (30 bp):
TGACTTAAAGAAAACTTTCGAATAATTTAA
Found at i:23489427 original size:20 final size:20
Alignment explanation
Indices: 23489402--23489444 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
23489392 TCACAAATTT
*
23489402 AGAATTTGGTCTTACTTTTC
1 AGAATTTGGCCTTACTTTTC
23489422 AGAATTTGGCCTTACTTTTC
1 AGAATTTGGCCTTACTTTTC
23489442 AGA
1 AGA
23489445 TTTTAGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
AGAATTTGGCCTTACTTTTC
Found at i:23496154 original size:21 final size:23
Alignment explanation
Indices: 23496100--23496154 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
23496090 TATGTCACGT
23496100 AAATA-AATAATTCAAAATTATAA
1 AAATATAA-AATTCAAAATTATAA
*
23496123 AAAAATCAAAATT-AAAATTA-AA
1 AAATAT-AAAATTCAAAATTATAA
23496145 AAATATAAAA
1 AAATATAAAA
23496155 AGTTCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 11 0.39
24 4 0.14
25 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (23 bp):
AAATATAAAATTCAAAATTATAA
Found at i:23496412 original size:6 final size:6
Alignment explanation
Indices: 23496381--23496424 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
23496371 CCAAAATTTT
23496381 TAATTGA TAATTA TACATTA -AATTA TAATTA TAATTA TAATTA T
1 TAATT-A TAATTA TA-ATTA TAATTA TAATTA TAATTA TAATTA T
23496425 CACAATCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.11
6 22 0.63
7 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:23496973 original size:65 final size:65
Alignment explanation
Indices: 23496903--23497108 Score: 304
Period size: 65 Copynumber: 3.2 Consensus size: 65
23496893 CCTTCATCAG
* *
23496903 TTGTATGTATTAATAATGTTGTTGATTAAGTTGGTTTCATAAGTTAACTCGACACCAACTCAAAA
1 TTGTATATATTAATAATGTTGTTGATTAAGTTGGTTTCAAAAGTTAACTCGACACCAACTCAAAA
*** * * *
23496968 TTGTATATATTAATAATGTAACTGATTAAGTTGGTTTCACAAGTTAACTCAACACCAACTCAAGA
1 TTGTATATATTAATAATGTTGTTGATTAAGTTGGTTTCAAAAGTTAACTCGACACCAACTCAAAA
* * *
23497033 TTGTATATATTAATAATGTTGTTGATTAAGTTAGTTTCAAAAGTTAACTCGACACCAACTTAAGA
1 TTGTATATATTAATAATGTTGTTGATTAAGTTGGTTTCAAAAGTTAACTCGACACCAACTCAAAA
*
23497098 TTATATATATT
1 TTGTATATATT
23497109 TATGGTTTTA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (65 bp):
TTGTATATATTAATAATGTTGTTGATTAAGTTGGTTTCAAAAGTTAACTCGACACCAACTCAAAA
Found at i:23497647 original size:33 final size:30
Alignment explanation
Indices: 23497609--23497670 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23497599 CATAAAAATA
*
23497609 TTATATTAATTATATATGTTAAATAATAATTAT
1 TTATATTAA-TAT-TAT-ATAAATAATAATTAT
*
23497642 TTATATTTATATTATATAAATAATAATTA
1 TTATATTAATATTATATAAATAATAATTA
23497671 AACACATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 3 0.11
32 3 0.11
33 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATATTAATATTATATAAATAATAATTAT
Found at i:23507374 original size:16 final size:17
Alignment explanation
Indices: 23507335--23507374 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23507325 TGGCAGTAGC
*
23507335 AAAGAAAGCAAAAAACG
1 AAAGAAAGCAAAAAACA
*
23507352 AATGAAAG-AAAAAACA
1 AAAGAAAGCAAAAAACA
23507368 AAAGAAA
1 AAAGAAA
23507375 AGAACTCAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.75, C:0.07, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAAAGCAAAAAACA
Found at i:23511873 original size:16 final size:16
Alignment explanation
Indices: 23511835--23511873 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
23511825 TGGCAGTAGC
* *
23511835 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
23511851 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
23511867 AAAGAAA
1 AAAGAAA
23511874 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:23515118 original size:17 final size:17
Alignment explanation
Indices: 23515087--23515149 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 17
23515077 ATTATCGAGG
23515087 ATGATGAT-A-TTGATT
1 ATGATGATGAGTTGATT
*
23515102 ATGATTATGAGTTGA-T
1 ATGATGATGAGTTGATT
*
23515118 -TGATGAT-A-TTGGTT
1 ATGATGATGAGTTGATT
23515132 ATGATGATGAGTTGATT
1 ATGATGATGAGTTGATT
23515149 A
1 A
23515150 ATGAATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 20 0.53
16 3 0.08
17 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.44
Consensus pattern (17 bp):
ATGATGATGAGTTGATT
Found at i:23515122 original size:30 final size:30
Alignment explanation
Indices: 23515088--23515162 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 30
23515078 TTATCGAGGA
*
23515088 TGATGATATTGATTATGATTATGAGTTGAT
1 TGATGATATTGATTATGATGATGAGTTGAT
*
23515118 TGATGATATTGGTTATGATGATGAGTTGAT
1 TGATGATATTGATTATGATGATGAGTTGAT
*
23515148 TAATGAATTATTGAT
1 TGATG-A-TATTGAT
23515163 GAACGCTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 32 0.82
31 1 0.03
32 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (30 bp):
TGATGATATTGATTATGATGATGAGTTGAT
Found at i:23518047 original size:57 final size:57
Alignment explanation
Indices: 23517986--23518096 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
23517976 CACGAAGTTA
23517986 AAAGTTAAAATTAGTTAAATTATACAATATTTAAATAATTTAATATAATGGTACGTG
1 AAAGTTAAAATTAGTTAAATTATACAATATTTAAATAATTTAATATAATGGTACGTG
*
23518043 AAAGTTAAAATTAGTTAAATTATACGATATTTAAATAATTTAATATAATGGTAC
1 AAAGTTAAAATTAGTTAAATTATACAATATTTAAATAATTTAATATAATGGTAC
23518097 ATTAAGTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.39
Consensus pattern (57 bp):
AAAGTTAAAATTAGTTAAATTATACAATATTTAAATAATTTAATATAATGGTACGTG
Found at i:23519993 original size:17 final size:18
Alignment explanation
Indices: 23519973--23520010 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23519963 TTGTTTTATT
*
23519973 TTTTTTATTTTCTTTT-A
1 TTTTTCATTTTCTTTTCA
*
23519990 TTTTTCATTTTGTTTTCA
1 TTTTTCATTTTCTTTTCA
23520008 TTT
1 TTT
23520011 AAAATAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCATTTTCTTTTCA
Found at i:23523647 original size:9 final size:8
Alignment explanation
Indices: 23523624--23523656 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
23523614 TATACTTTGG
23523624 TTTA-TTT
1 TTTATTTT
23523631 TTTATTTT
1 TTTATTTT
23523639 TTTACTTTT
1 TTTA-TTTT
23523648 TTTATTTT
1 TTTATTTT
23523656 T
1 T
23523657 CTCTTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.17
8 12 0.50
9 8 0.33
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTATTTT
Found at i:23523662 original size:16 final size:17
Alignment explanation
Indices: 23523628--23523663 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23523618 CTTTGGTTTA
*
23523628 TTTTTTATTTTTTTACT
1 TTTTTTATTTTTCTACT
23523645 TTTTTTATTTTTCT-CT
1 TTTTTTATTTTTCTACT
23523661 TTT
1 TTT
23523664 ACTTTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTATTTTTCTACT
Found at i:23529016 original size:18 final size:15
Alignment explanation
Indices: 23528950--23529016 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
23528940 ATCATCGAGG
*
23528950 ATGATGATATTGACT
1 ATGATGATATTGATT
*
23528965 ATGATGATGAGTTGCTT
1 ATGATGAT-A-TTGATT
23528982 -T-ATGATATTGATT
1 ATGATGATATTGATT
23528995 ATGATGATGAGTTGATT
1 ATGATGAT-A-TTGATT
23529012 GATGA
1 -ATGA
23529017 ATTATTGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.12
14 2 0.05
15 18 0.43
16 3 0.07
17 10 0.24
18 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (15 bp):
ATGATGATATTGATT
Found at i:23534258 original size:71 final size:71
Alignment explanation
Indices: 23534130--23534270 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 71
23534120 TTGTTTTGCA
** *
23534130 TTTATGGTAACTTCAAATTCTTCAGATACTCTAGTTTGCTTCATAGTCAGTACATATGTAGTTAT
1 TTTATGGTAACTTCAAATTCTTCAGATACTCTAGCATGCTTCATAGTCAGTACATATGTAGTAAT
23534195 GAAACG
66 GAAACG
** * * * * * *
23534201 TTTATGGTAACTTTGAATTTTTCAGATTCTCTAGCATGCTTGATAGTTTA-TAGATATGTGGTAA
1 TTTATGGTAACTTCAAATTCTTCAGATACTCTAGCATGCTTCATAG-TCAGTACATATGTAGTAA
23534265 TGAAAC
65 TGAAAC
23534271 ATCTGATCGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 56 0.97
72 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (71 bp):
TTTATGGTAACTTCAAATTCTTCAGATACTCTAGCATGCTTCATAGTCAGTACATATGTAGTAAT
GAAACG
Found at i:23537882 original size:92 final size:92
Alignment explanation
Indices: 23537723--23537902 Score: 297
Period size: 92 Copynumber: 2.0 Consensus size: 92
23537713 CTGAAGCGCA
* * *
23537723 TTATCTTCCTATTTAAGAGTTGAGGAGGGGCTATGGGTAGTTCTAAGCATTGTATTAACAAAAAG
1 TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAGCATTGTATCAACAAAAAG
*
23537788 CAGATATGATAATAACATATAATGATG
66 CAGATATGATAACAACATATAATGATG
* *
23537815 TTATCCTCCTATTTAAGAGTTGCGGAGGGACTATGGGTAGTTCTAAGCATTGTATCAACAAAGAG
1 TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAGCATTGTATCAACAAAAAG
*
23537880 CAGATATGATAACAACCTATAAT
66 CAGATATGATAACAACATATAAT
23537903 AAAATTAATG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (92 bp):
TTATCCTCCTATTTAAGAGTTGAGGAGGGACTATGGGTAGTTCTAAGCATTGTATCAACAAAAAG
CAGATATGATAACAACATATAATGATG
Found at i:23546236 original size:2 final size:2
Alignment explanation
Indices: 23546229--23546266 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
23546219 CATCAATTTC
23546229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23546267 TCATTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23548114 original size:6 final size:6
Alignment explanation
Indices: 23548098--23548128 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
23548088 CATCTAGGTT
*
23548098 CGGGTC TGGGTC CGGGTC CGGGTC CGGGTC C
1 CGGGTC CGGGTC CGGGTC CGGGTC CGGGTC C
23548129 TTCCCTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.48, T:0.19
Consensus pattern (6 bp):
CGGGTC
Found at i:23555070 original size:11 final size:11
Alignment explanation
Indices: 23555054--23555078 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23555044 TAAGTCTTGA
23555054 AATTAACACAT
1 AATTAACACAT
23555065 AATTAACACAT
1 AATTAACACAT
23555076 AAT
1 AAT
23555079 ATTAATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAACACAT
Found at i:23557255 original size:2 final size:2
Alignment explanation
Indices: 23557248--23557286 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23557238 TACAAAATCT
23557248 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
23557287 TAGCCTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23574085 original size:25 final size:25
Alignment explanation
Indices: 23574031--23574087 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
23574021 AAAATACTTT
* * *
23574031 AAAAATATTTTTTATTTTTTATTTT
1 AAAAATATTTTTTAATGTTTATTTA
*
23574056 TAAAATATTTTTTTAATGTTTA-TTA
1 AAAAATA-TTTTTTAATGTTTATTTA
23574081 AAAAATA
1 AAAAATA
23574088 GGCCGGGCCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
AAAAATATTTTTTAATGTTTATTTA
Found at i:23582132 original size:11 final size:11
Alignment explanation
Indices: 23582116--23582141 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23582106 AAATTTTAAA
23582116 TTTTAAAATAC
1 TTTTAAAATAC
23582127 TTTTAAAATAC
1 TTTTAAAATAC
23582138 TTTT
1 TTTT
23582142 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:23585424 original size:17 final size:17
Alignment explanation
Indices: 23585404--23585439 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23585394 ATAGAAAGCA
23585404 AATTATTTACAATAATG
1 AATTATTTACAATAATG
**
23585421 AATTATTTTGAATAATG
1 AATTATTTACAATAATG
23585438 AA
1 AA
23585440 ATACAATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (17 bp):
AATTATTTACAATAATG
Found at i:23586583 original size:60 final size:59
Alignment explanation
Indices: 23586475--23586601 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 59
23586465 TTTAGTAGAT
* *
23586475 GTCACCCAACTATGATTTTTTTCTTTTTTGATCAACTAACGATGAAAAGTTACAAAATA
1 GTCACTCAACTATGATTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATA
* * * * *
23586534 GTCACTCAACTATGTTTTTTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATG
1 GTCACTCAACTATG-ATTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATA
23586594 GTCA-TCAA
1 GTCACTCAA
23586602 ACCATTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 17 0.28
60 43 0.72
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (59 bp):
GTCACTCAACTATGATTTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATA
Found at i:23586615 original size:60 final size:60
Alignment explanation
Indices: 23586491--23586616 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
23586481 CAACTATGAT
* * *
23586491 TTTTTTCTTTTTTGATCAACTAACGATGAAAAGTTACAAAATAGTCACTCAACTATGTTT
1 TTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATAGTCACTCAACCATGTTA
* * * *
23586551 TTTTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCA-TCAAACCAT-TTAA
1 TTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATAGTCACTC-AACCATGTT-A
23586611 TTTTTT
1 TTTTTT
23586617 TTTGTCACCA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 4 0.07
60 53 0.93
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (60 bp):
TTTTTTCTTTTTTGATCAACCAACGATGAAAAGTTACAAAATAGTCACTCAACCATGTTA
Found at i:23587306 original size:31 final size:31
Alignment explanation
Indices: 23587247--23587306 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
23587237 GCCGTTGAAA
**
23587247 TATTTGAAAGTTTTCATTAAAGTTATTGGAC
1 TATTTGAAAGTTTTCATTAAAGACATTGGAC
*
23587278 TATTTGAAAGATTTT-ATTTAAGACATTGG
1 TATTTGAAAG-TTTTCATTAAAGACATTGG
23587307 GTTGTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (31 bp):
TATTTGAAAGTTTTCATTAAAGACATTGGAC
Found at i:23592933 original size:90 final size:92
Alignment explanation
Indices: 23592822--23593025 Score: 286
Period size: 94 Copynumber: 2.2 Consensus size: 92
23592812 TGGGAATTAC
* ** * * *
23592822 GGGATTGCATTAACTGTTATTGTGGATTATTTTTCACATGT-GTGTGTGTGTGTGCACGCA-TGT
1 GGGATTGCTTTAACTGTTATTGTGGAAAAATTTTCACATATAGTGTGTGTGTGAGCACGCACTGT
23592885 TTGTTTATATATATGATGAGTGTAAAT
66 TTGTTTATATATATGATGAGTGTAAAT
* * **
23592912 GGGATCGCTTTAACTGTTATTGTGGAAAAATTTTCATATATACGTGTGTGTGTGAGCTTGCACCT
1 GGGATTGCTTTAACTGTTATTGTGGAAAAATTTTCACATATA-GTGTGTGTGTGAGCACGCA-CT
23592977 GTTTGTTTATATATATGATGAGTGTAAAT
64 GTTTGTTTATATATATGATGAGTGTAAAT
23593006 GGGATTGCTTTAACTGTTAT
1 GGGATTGCTTTAACTGTTAT
23593026 CATCAAAGAA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
90 34 0.34
92 16 0.16
94 49 0.49
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (92 bp):
GGGATTGCTTTAACTGTTATTGTGGAAAAATTTTCACATATAGTGTGTGTGTGAGCACGCACTGT
TTGTTTATATATATGATGAGTGTAAAT
Found at i:23593919 original size:50 final size:50
Alignment explanation
Indices: 23593844--23593993 Score: 300
Period size: 50 Copynumber: 3.0 Consensus size: 50
23593834 CCCTCTACTC
23593844 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
1 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
23593894 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
1 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
23593944 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
1 AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
23593994 CATTCTGTTA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (50 bp):
AGAAAATGGGCAAATCTATCTTTATATATTAGATCAAAGAGAAAACTGGT
Found at i:23595469 original size:24 final size:25
Alignment explanation
Indices: 23595423--23595478 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
23595413 GTTTATGTTT
* *
23595423 TTTTTTTTGTTAATTTGATTC-TTA
1 TTTTTTTAGTTAATTTGAGTCTTTA
23595447 TTTTTTTAGTTAAATTT-AGTCTTTA
1 TTTTTTTAGTT-AATTTGAGTCTTTA
*
23595472 ATTTTTT
1 TTTTTTT
23595479 GAATGTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (25 bp):
TTTTTTTAGTTAATTTGAGTCTTTA
Found at i:23595620 original size:19 final size:19
Alignment explanation
Indices: 23595593--23595631 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23595583 GTCAACAAAT
* *
23595593 AAATTAAAAATTATAAAAA
1 AAATAAAAAATTACAAAAA
*
23595612 AAATAAAAACTTACAAAAA
1 AAATAAAAAATTACAAAAA
23595631 A
1 A
23595632 TTCATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAAAATTACAAAAA
Done.