Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 127 of 276
Found at i:40983456 original size:44 final size:44
Alignment explanation
Indices: 40983388--40983503 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
40983378 AAATATAGGC
* * *
40983388 CCTTGAAGTTGCAATGGAGTAGATTAATACTA-CAAATCTTATTT
1 CCTTGAAGTTGCAGTGGAGCAGATTAAGA-TAGCAAATCTTATTT
* * *
40983432 CTTTGAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATCTTATTT
1 CCTTGAAGTTGCAGTGGAGCAGATT-AAGATAGCAAATCTTATTT
* * *
40983477 CCCTAAAGTTGCAGTGGAACAGATTAA
1 CCTTGAAGTTGCAGTGGAGCAGATTAA
40983504 AGCTGCAAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (44 bp):
CCTTGAAGTTGCAGTGGAGCAGATTAAGATAGCAAATCTTATTT
Found at i:40983651 original size:44 final size:44
Alignment explanation
Indices: 40983603--40983875 Score: 217
Period size: 44 Copynumber: 6.2 Consensus size: 44
40983593 ATCTCCCCAT
* * *
40983603 AGTTGTAGTGGAGCAGATTAAAACCATAAGTCTTATCTCCATGA
1 AGTTGCAGTGGAGCAGATTAAAACCATAAATCTTATCTCCCTGA
* * * *
40983647 AGTTGCAGTGGAGCATATTAAAACTACAAATCTTATTTCCCTGA
1 AGTTGCAGTGGAGCAGATTAAAACCATAAATCTTATCTCCCTGA
* * *** **
40983691 AGTTGCAATGGAGCAGATTGAAGATGGTAAATCTTATCTCTTTGA
1 AGTTGCAGTGGAGCAGATT-AAAACCATAAATCTTATCTCCCTGA
* * * * * * * *
40983736 AGTTGCAGTAGAGCAGATTGAAGCTAAAAATATTATTTCTCTGA
1 AGTTGCAGTGGAGCAGATTAAAACCATAAATCTTATCTCCCTGA
* *
40983780 AGTTGCAATGGAGCAGATTGAAGATAGC--AAATCTTATCTCCCTGA
1 AGTTGCAGTGGAGCAGATT-AA-A-ACCATAAATCTTATCTCCCTGA
* * * * * *
40983825 AGTTGCAGTGGAACATATTAAAGCTACAAATCTCATCTCCCTGA
1 AGTTGCAGTGGAGCAGATTAAAACCATAAATCTTATCTCCCTGA
*
40983869 GGTTGCA
1 AGTTGCA
40983876 ACGGAGTAGA
Statistics
Matches: 177, Mismatches: 46, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.01
44 110 0.62
45 65 0.37
46 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AGTTGCAGTGGAGCAGATTAAAACCATAAATCTTATCTCCCTGA
Found at i:40983738 original size:45 final size:44
Alignment explanation
Indices: 40983633--40983890 Score: 225
Period size: 44 Copynumber: 5.8 Consensus size: 44
40983623 AAACCATAAG
* * * *
40983633 TCTTATCTCCATGAAGTTGCAGTGGAGCATATT-AAAACT-ACAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA-TGA-AAA
* *
40983677 TCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAAGATGGTAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGAT-GAAAA
** * * * *
40983722 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTGAAGCTAAAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATGAAAA
* * * *
40983766 TATTATTTCTCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGAT-GAAAA
* * * * *
40983811 TCTTATCTCCCTGAAGTTGCAGTGGAACATATTAAAGCT-ACAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATGA-AAA
* * * *
40983855 TCTCATCTCCCTGAGGTTGCAACGGAGTAGATTGAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA
40983891 ATTACAAATC
Statistics
Matches: 170, Mismatches: 39, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
44 97 0.57
45 73 0.43
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATGAAAA
Found at i:40983772 original size:89 final size:89
Alignment explanation
Indices: 40983633--40983890 Score: 354
Period size: 89 Copynumber: 2.9 Consensus size: 89
40983623 AAACCATAAG
*
40983633 TCTTATCTCCATGAAGTTGCAGTGGAGCATATTAAAACTACAAATCTTATTTCCCTGAAGTTGCA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCATATTAAAGCTACAAATCTTATTTCCCTGAAGTTGCA
* *
40983698 ATGGAGCAGATTGAAGATGGTAAA
66 ATGGAGCAGATTGAAGATAGCAAA
** * * * * * *
40983722 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTGAAGCTAAAAATATTATTTCTCTGAAGTTGCA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCATATTAAAGCTACAAATCTTATTTCCCTGAAGTTGCA
40983787 ATGGAGCAGATTGAAGATAGCAAA
66 ATGGAGCAGATTGAAGATAGCAAA
* * * * *
40983811 TCTTATCTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAATCTCATCTCCCTGAGGTTGCA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCATATTAAAGCTACAAATCTTATTTCCCTGAAGTTGCA
* *
40983876 ACGGAGTAGATTGAA
66 ATGGAGCAGATTGAA
40983891 ATTACAAATC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 144 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
TCTTATCTCCATGAAGTTGCAGTGGAGCATATTAAAGCTACAAATCTTATTTCCCTGAAGTTGCA
ATGGAGCAGATTGAAGATAGCAAA
Found at i:40986190 original size:20 final size:17
Alignment explanation
Indices: 40986146--40986187 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
40986136 GATTAGTACC
40986146 ATTATTATAAAATTGAT
1 ATTATTATAAAATTGAT
*
40986163 ATTATTATAAAATTGGT
1 ATTATTATAAAATTGAT
*
40986180 ATTCTTAT
1 ATTATTAT
40986188 TATTTTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTATTATAAAATTGAT
Found at i:41003205 original size:11 final size:11
Alignment explanation
Indices: 41003191--41003242 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
41003181 TTCTAAAACT
41003191 TTATAAAAAAA
1 TTATAAAAAAA
**
41003202 TTAT-TGAAAA
1 TTATAAAAAAA
*
41003212 TCTATAAAAAAT
1 T-TATAAAAAAA
41003224 TTATAAAAAAA
1 TTATAAAAAAA
41003235 TATATAAA
1 T-TATAAA
41003243 TGATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 10 0.31
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TTATAAAAAAA
Found at i:41003233 original size:22 final size:23
Alignment explanation
Indices: 41003192--41003242 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
41003182 TCTAAAACTT
** *
41003192 TATAAAAAAATTAT-TGAAAATC
1 TATAAAAAAATTATAAAAAAATA
*
41003214 TATAAAAAATTTATAAAAAAATA
1 TATAAAAAAATTATAAAAAAATA
41003237 TATAAA
1 TATAAA
41003243 TGATTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TATAAAAAAATTATAAAAAAATA
Found at i:41005152 original size:10 final size:9
Alignment explanation
Indices: 41005138--41005191 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
41005128 CAAAAAAAGG
41005138 AAAAATTAT
1 AAAAATTAT
41005147 AGAAAATTAT
1 A-AAAATTAT
*
41005157 AAAAAATAT
1 AAAAATTAT
41005166 AAAAATTTACT
1 AAAAA-TTA-T
*
41005177 AAAATTTAT
1 AAAAATTAT
41005186 AAAAAT
1 AAAAAT
41005192 ATTCAAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 19 0.50
10 14 0.37
11 5 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:41005179 original size:20 final size:19
Alignment explanation
Indices: 41005138--41005191 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
41005128 CAAAAAAAGG
41005138 AAAAATTATAGAAAA-TTAT
1 AAAAATTATA-AAAATTTAT
*
41005157 AAAAAATATAAAAATTTACT
1 AAAAATTATAAAAATTTA-T
*
41005177 AAAATTTATAAAAAT
1 AAAAATTATAAAAAT
41005192 ATTCAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATTTAT
Found at i:41005834 original size:18 final size:18
Alignment explanation
Indices: 41005813--41005859 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
41005803 TTAAATTTTT
* *
41005813 ATTTTTTTAAATTCTAAC
1 ATTTTTTAAAATTCTAAA
* *
41005831 ATTTCTTAAAATTTTAAA
1 ATTTTTTAAAATTCTAAA
41005849 ATTTTTTAAAA
1 ATTTTTTAAAA
41005860 ATATATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTAAAATTCTAAA
Found at i:41011839 original size:11 final size:12
Alignment explanation
Indices: 41011818--41011843 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41011808 TCCGTTTCTC
41011818 TTTCTTTTTTTT
1 TTTCTTTTTTTT
41011830 TTTCTTTTTTTT
1 TTTCTTTTTTTT
41011842 TT
1 TT
41011844 GTTTATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:41012000 original size:22 final size:23
Alignment explanation
Indices: 41011955--41012001 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
41011945 AACAATTATA
41011955 ATACTTTTCAAATATTATAATTT
1 ATACTTTTCAAATATTATAATTT
*
41011978 ATACATTTT-AAA-ATTATATTTT
1 ATAC-TTTTCAAATATTATAATTT
41012000 AT
1 AT
41012002 TATTCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
ATACTTTTCAAATATTATAATTT
Found at i:41012350 original size:22 final size:22
Alignment explanation
Indices: 41012322--41012370 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
41012312 ACAATATGAC
*
41012322 TGTTGGAATCTGAATGTTACAA
1 TGTTGGAATCTGAACGTTACAA
41012344 TGTTGGAATCTGAACGTTACAA
1 TGTTGGAATCTGAACGTTACAA
41012366 TGTTG
1 TGTTG
41012371 CAATATGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (22 bp):
TGTTGGAATCTGAACGTTACAA
Found at i:41013983 original size:46 final size:47
Alignment explanation
Indices: 41013916--41014192 Score: 204
Period size: 49 Copynumber: 5.8 Consensus size: 47
41013906 TGATATGTGT
* *
41013916 GCTAGTGTAAGACATGTCTGGGACATTCATCGGTATTGAGATAAG-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAGAA
* * *
41013962 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGTTATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAG-AA
* * * ** *
41014010 GCTAGTGTAAGACCTGTCTGGGACATGGCATTGACACCGATAGATGAG-A
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTG--AGATAAGAA
* * * * * * *
41014059 GCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGATAAG-AA
* * *
41014108 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-TT-AGATATGTAA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGATAAG-AA
* * *
41014155 GCTAGTGTAAGATCATGTTTGGAACATGGCATTGGCAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
41014193 CGTGCCCTAT
Statistics
Matches: 186, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
46 40 0.22
47 22 0.12
48 46 0.25
49 74 0.40
51 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATAAGAA
Found at i:41014074 original size:49 final size:49
Alignment explanation
Indices: 41013965--41014186 Score: 211
Period size: 49 Copynumber: 4.6 Consensus size: 49
41013955 GATAAGAGCT
* * * * * *
41013965 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGT-TATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGA-TAGATGAAAGCC
* *
41014013 AGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
41014062 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * *
41014111 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT--ATGTAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * *
41014158 AGTGTAAGATCATGTTTGGAACATGGCAT
1 AGTGTAAGA-CCTGTCTGGGACATGGCAT
41014187 TGGCATCGTG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
47 15 0.10
48 40 0.28
49 89 0.61
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:41014077 original size:97 final size:98
Alignment explanation
Indices: 41013954--41014138 Score: 277
Period size: 98 Copynumber: 1.9 Consensus size: 98
41013944 ATCGGTATTG
* * * *
41013954 AGATAAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGT-TATGCAAG-CTAGT
1 AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGA-TATATGAAAGTC-AGT
41014016 GTAAGACCTGTCTGGGACATGGCATTGACACCGAT
64 GTAAGACCTGTCTGGGACATGGCATTGACACCGAT
* *
41014051 AGATGAGAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
1 AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
41014116 AAGACCTGTCTGGGACATGGCAT
66 AAGACCTGTCTGGGACATGGCAT
41014139 CGACTTAGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
97 31 0.39
98 47 0.59
99 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (98 bp):
AGATAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGT
AAGACCTGTCTGGGACATGGCATTGACACCGAT
Found at i:41034080 original size:32 final size:32
Alignment explanation
Indices: 41034044--41034112 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
41034034 ATTGGGTCGA
* *
41034044 GTGGGTCCC-ACACGGGTGAACCACACGGGCTT
1 GTGGG-CCCTACACGGGTGAACCACACGGACGT
41034076 GTGGGCCCTACACGGGTGAACCACACGGACGT
1 GTGGGCCCTACACGGGTGAACCACACGGACGT
41034108 GTGGG
1 GTGGG
41034113 AATATTGGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 3 0.09
32 31 0.91
ACGTcount: A:0.19, C:0.29, G:0.38, T:0.14
Consensus pattern (32 bp):
GTGGGCCCTACACGGGTGAACCACACGGACGT
Found at i:41039847 original size:28 final size:28
Alignment explanation
Indices: 41039807--41039875 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
41039797 GTAATGCAAA
* * * * *
41039807 AATCTGACTGTTACAATATGGTTGTTGG
1 AATCTAACCGTTACAATATGATCGTTAG
41039835 AATCTAACCGTTACAATATGATCGTTAG
1 AATCTAACCGTTACAATATGATCGTTAG
*
41039863 AATTTAACCGTTA
1 AATCTAACCGTTA
41039876 GAATTTGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (28 bp):
AATCTAACCGTTACAATATGATCGTTAG
Found at i:41039874 original size:14 final size:14
Alignment explanation
Indices: 41039834--41039881 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
41039824 ATGGTTGTTG
*
41039834 GAATCTAACCGTTA
1 GAATTTAACCGTTA
* * * *
41039848 CAATATGATCGTTA
1 GAATTTAACCGTTA
41039862 GAATTTAACCGTTA
1 GAATTTAACCGTTA
41039876 GAATTT
1 GAATTT
41039882 GACTATTGCA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (14 bp):
GAATTTAACCGTTA
Found at i:41044312 original size:16 final size:19
Alignment explanation
Indices: 41044264--41044319 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
41044254 TTTAGTCATA
41044264 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
41044284 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
41044302 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
41044320 TTCAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:41047896 original size:51 final size:52
Alignment explanation
Indices: 41047819--41047952 Score: 211
Period size: 52 Copynumber: 2.6 Consensus size: 52
41047809 TGGATACCCG
*
41047819 GTGGCCTTCACATAGTACCACCCTTGTAGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
* *
41047870 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTATCCTTCTTCACAAA
41047922 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
41047953 CTAGTGACAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 1 0.01
51 36 0.47
52 39 0.51
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
Found at i:41049217 original size:16 final size:18
Alignment explanation
Indices: 41049179--41049217 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
41049169 TTGGAGTTTT
*
41049179 TTTATCCAACACCTATAA
1 TTTATCCAACACCAATAA
41049197 TTTATCCAAC-CCAAT-A
1 TTTATCCAACACCAATAA
41049213 TTTAT
1 TTTAT
41049218 TTTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTATCCAACACCAATAA
Found at i:41049256 original size:13 final size:13
Alignment explanation
Indices: 41049240--41049292 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
41049230 AAATATTTTT
41049240 ATTTAATAAATTA
1 ATTTAATAAATTA
*
41049253 ATTTAATTAATTA
1 ATTTAATAAATTA
*
41049266 AATTAACTAAATTA
1 ATTTAA-TAAATTA
*
41049280 ATTT-CTAAATTA
1 ATTTAATAAATTA
41049292 A
1 A
41049293 ATAATTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 8 0.24
13 17 0.50
14 9 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAATAAATTA
Found at i:41049262 original size:9 final size:9
Alignment explanation
Indices: 41049242--41049282 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
41049232 ATATTTTTAT
41049242 TTAA-TAAA
1 TTAATTAAA
*
41049250 TTAATTTAA
1 TTAATTAAA
41049259 TTAATTAAA
1 TTAATTAAA
*
41049268 TTAACTAAA
1 TTAATTAAA
41049277 TTAATT
1 TTAATT
41049283 TCTAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAATTAAA
Found at i:41064483 original size:30 final size:30
Alignment explanation
Indices: 41064439--41064497 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
41064429 TTTAATAAGA
*
41064439 ACTTTGGCAAAATTACATTTTTGCCCCTAT
1 ACTTTGGCAAAATTACACTTTTGCCCCTAT
* * *
41064469 ACTTTTGCATAATTACACTTTTGTCCCTA
1 ACTTTGGCAAAATTACACTTTTGCCCCTA
41064498 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (30 bp):
ACTTTGGCAAAATTACACTTTTGCCCCTAT
Found at i:41066204 original size:10 final size:10
Alignment explanation
Indices: 41066186--41066236 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
41066176 AAATGAAAAA
*
41066186 GAAATGAGCT
1 GAAACGAGCT
41066196 GAAACGAGCT
1 GAAACGAGCT
*
41066206 AAAATCGAGCT
1 GAAA-CGAGCT
*
41066217 CAAACGAGCT
1 GAAACGAGCT
41066227 GAAACGAGCT
1 GAAACGAGCT
41066237 CAAGTGAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:41066215 original size:21 final size:21
Alignment explanation
Indices: 41066187--41066239 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
41066177 AATGAAAAAG
*
41066187 AAAT-GAGCTGAAACGAGCTA
1 AAATCGAGCTCAAACGAGCTA
*
41066207 AAATCGAGCTCAAACGAGCTG
1 AAATCGAGCTCAAACGAGCTA
41066228 AAA-CGAGCTCAA
1 AAATCGAGCTCAA
41066240 GTGAGCTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (21 bp):
AAATCGAGCTCAAACGAGCTA
Found at i:41066245 original size:20 final size:21
Alignment explanation
Indices: 41066186--41066248 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 21
41066176 AAATGAAAAA
*
41066186 GAAAT-GAGCTGAAACGAGCT
1 GAAATCGAGCTCAAACGAGCT
*
41066206 AAAATCGAGCTCAAACGAGCT
1 GAAATCGAGCTCAAACGAGCT
**
41066227 GAAA-CGAGCTCAAGTGAGCT
1 GAAATCGAGCTCAAACGAGCT
41066247 GA
1 GA
41066249 TTGGAGCTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (21 bp):
GAAATCGAGCTCAAACGAGCT
Found at i:41073852 original size:47 final size:47
Alignment explanation
Indices: 41073716--41073857 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 47
41073706 CTCCCATTCG
* * *
41073716 TGTGATGAATGTGAAAGTGTATATATGTGATAGGGTCGAGTGACCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAA
*
41073763 CGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAA
* ** *
41073810 TGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAA
41073857 T
1 T
41073858 AGTGTACCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAA
Found at i:41074358 original size:40 final size:40
Alignment explanation
Indices: 41074277--41074533 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
41074267 AAGCCAAGTA
* * * *
41074277 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
41074315 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
41074355 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41074395 CCTTCGGGACTTAGTCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41074435 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41074475 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
41074515 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41074534 TTATCATCCG
Statistics
Matches: 195, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 167 0.86
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41082493 original size:40 final size:40
Alignment explanation
Indices: 41082411--41082667 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
41082401 AAGCCAAGTA
* * * *
41082411 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
41082449 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
41082489 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
41082529 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41082569 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
41082609 CCTTCGGGACTGAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
41082649 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41082668 TTATCATCCG
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 165 0.85
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41088601 original size:31 final size:30
Alignment explanation
Indices: 41088563--41088639 Score: 129
Period size: 31 Copynumber: 2.6 Consensus size: 30
41088553 TTTAACAGTT
*
41088563 ACTGGGCCGAAGCCTTTTCATAAATCATCTC
1 ACTGGGCCGAAGCCTTTTCATAAAT-ATATC
41088594 ACTGGGCCGAAGCCTTTTCATAAATATATC
1 ACTGGGCCGAAGCCTTTTCATAAATATATC
41088624 ACT-GGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41088640 ACTGTAAGCG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 13 0.29
30 7 0.16
31 25 0.56
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (30 bp):
ACTGGGCCGAAGCCTTTTCATAAATATATC
Found at i:41088879 original size:24 final size:24
Alignment explanation
Indices: 41088832--41088903 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
41088822 GCTTTATCAT
** *
41088832 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
41088857 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
*
41088881 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
41088904 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:41088887 original size:25 final size:25
Alignment explanation
Indices: 41088859--41088928 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
41088849 CTCTTTTAAT
*
41088859 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
41088884 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
41088909 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41088929 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:41089759 original size:27 final size:27
Alignment explanation
Indices: 41089729--41089793 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
41089719 GGGTGTATTC
41089729 ATCATTTTACCATACAAGGG-TATTACG
1 ATCATTTTACCATACAAGGGCT-TTACG
* * *
41089756 ATCACTTTACCCTACAGGGGCTTTACG
1 ATCATTTTACCATACAAGGGCTTTACG
* *
41089783 GTCTTTTTACC
1 ATCATTTTACC
41089794 TATTAGAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
ATCATTTTACCATACAAGGGCTTTACG
Found at i:41089867 original size:27 final size:28
Alignment explanation
Indices: 41089825--41090271 Score: 208
Period size: 27 Copynumber: 16.6 Consensus size: 28
41089815 TTCATCCTAT
* * *
41089825 AAGGGTGTTT-TGGTAAATCTACAAATC
1 AAGGGTATTTCTGGTAATTTTACAAATC
**
41089852 AAGGGTATTTCT-GTAATTTTGTAAATC
1 AAGGGTATTTCTGGTAATTTTACAAATC
* *
41089879 AGGGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCTGGTAATTTTACAAATC
* * *
41089906 GAGGGTATTTC-GATAATTTCACAAA-C
1 AAGGGTATTTCTGGTAATTTTACAAATC
*
41089932 TAGTGGTATTT-TGGTAATTTTACAAA-C
1 AAG-GGTATTTCTGGTAATTTTACAAATC
* * * **
41089959 TAGGGGTGTTT-TGGTAATTCTACCCTAT-
1 -AAGGGTATTTCTGGTAATTTTA-CAAATC
* * *
41089987 AGGGGTATTTC-AGTAATTTCAC-AATC
1 AAGGGTATTTCTGGTAATTTTACAAATC
* *** * **
41090013 GAGGGTAAAAC-GGTAATTCTATCTTA-C
1 AAGGGTATTTCTGGTAATTTTA-CAAATC
*
41090040 -AGGAGTATTTC-AGTAATTTTACAAATC
1 AAGG-GTATTTCTGGTAATTTTACAAATC
* * * *
41090067 GAGAGTATTTC-AGTAATTTTGCAAA-C
1 AAGGGTATTTCTGGTAATTTTACAAATC
* *
41090093 TGAGGGTATTT-TAGTAATTTTACAAATC
1 -AAGGGTATTTCTGGTAATTTTACAAATC
* * * * *
41090121 GATGATATTT-AGGTAATTTTATAAATC
1 AAGGGTATTTCTGGTAATTTTACAAATC
* *
41090148 GAGGGTATTT-TGGTAATTTTATAAA-C
1 AAGGGTATTTCTGGTAATTTTACAAATC
* * *
41090174 TAGGGGTATTT-TGGTAATTTTATAAACC
1 -AAGGGTATTTCTGGTAATTTTACAAATC
*
41090202 AAGGGTATTT-TAGTAATTTTACAAA-C
1 AAGGGTATTTCTGGTAATTTTACAAATC
* ** *
41090228 TAGGGGTATTT-TGGTAATTTTGTAAACC
1 -AAGGGTATTTCTGGTAATTTTACAAATC
41090256 AAGGGTATTT-TGGTAA
1 AAGGGTATTTCTGGTAA
41090272 ACTAAAGTAT
Statistics
Matches: 332, Mismatches: 66, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
25 2 0.01
26 25 0.08
27 295 0.89
28 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (28 bp):
AAGGGTATTTCTGGTAATTTTACAAATC
Found at i:41089949 original size:81 final size:79
Alignment explanation
Indices: 41089853--41090271 Score: 299
Period size: 81 Copynumber: 5.2 Consensus size: 79
41089843 CTACAAATCA
* *
41089853 AGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
1 AGGGTATTT-TGGTAATTTTATAAA-CAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
41089917 -GATAATTTCACAAACT
64 AG-TAATTTCACAAACT
* * * ** *
41089933 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTT
1 AG-GGTATTTTGGTAATTTTATAAAC-AGGGGTATTTTGGTAATTTTA-CAAATCGAGGGTATTT
* *
41089997 CAGTAATTTCACAATCG
63 CAGTAATTTCACAAACT
**** * ** * ** *
41090014 AGGGTAAAACGGTAATTCTATCTTACAGGAGTATTTCAGTAATTTTACAAATCGAGAGTATTTCA
1 AGGGTATTTTGGTAATTTTAT-AAACAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCA
**
41090079 GTAATTTTGCAAACT
65 GTAATTTCACAAACT
* * * * * *
41090094 GAGGGTATTTTAGTAATTTTACAAATC-GATGATATTTAGGTAATTTTATAAATCGAGGGTATTT
1 -AGGGTATTTTGGTAATTTTATAAA-CAG-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
** * *
41090158 TGGTAATTTTATAAACT
63 CAGTAATTTCACAAACT
* * *
41090175 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTT
1 A-GGGTATTTTGGTAATTTTATAAA-CAGGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTT
** *** *
41090239 TGGTAATTTTGTAAACCA
63 CAGTAATTTCACAAA-CT
41090257 AGGGTATTTTGGTAA
1 AGGGTATTTTGGTAA
41090272 ACTAAAGTAT
Statistics
Matches: 263, Mismatches: 62, Indels: 27
0.75 0.18 0.08
Matches are distributed among these distances:
79 4 0.02
80 58 0.22
81 194 0.74
82 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTATAAACAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTCACAAACT
Found at i:41090248 original size:54 final size:54
Alignment explanation
Indices: 41089854--41090271 Score: 273
Period size: 54 Copynumber: 7.8 Consensus size: 54
41089844 TACAAATCAA
* * * * *
41089854 GGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTT-TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * * * *
41089907 AGGGTATTTCGATAATTTCACAAA-CTAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTAGTAATTTTACAAACTAG
* * * * * * *
41089962 GGGTGTTTTGGTAA--TTCT-ACCCTATAGGGGTATTTCAGTAATTTCACAATCGA-
1 GGGTATTTTGGTAATTTTATAAACC-A-A-GGGTATTTTAGTAATTTTACAAACTAG
**** * ** * *
41090015 GGGTAAAACGGTAATTCTATCTTA-C-AGGAGTATTTCAGTAATTTTACAAA-TCG
1 GGGTATTTTGGTAATTTTAT-AAACCAAGG-GTATTTTAGTAATTTTACAAACTAG
* ** ** ** *
41090068 AGAGTATTTCAGTAATTTTGCAAACTGAGGGTATTTTAGTAATTTTACAAA-TCG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * * * * *
41090122 ATGATATTTAGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
41090177 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
41090231 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAA
41090272 ACTAAAGTAT
Statistics
Matches: 280, Mismatches: 67, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
51 1 0.00
52 4 0.01
53 32 0.11
54 232 0.83
55 10 0.04
56 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:41098717 original size:40 final size:41
Alignment explanation
Indices: 41098652--41098746 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 41
41098642 ATTATGTTTG
*
41098652 GCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATATA
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
* * * * *
41098692 GCACTTAGTGTGCGAATTGGA-ATAGCTTTGGTTATATGTG
1 GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
* *
41098732 GCACTAAGTCTGCGA
1 GCACTTAGTGTGCGA
41098747 TACTGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (41 bp):
GCACTTAGTGTGCGAATTCGAGATAGCTTCGGCTATATATA
Found at i:41111707 original size:20 final size:19
Alignment explanation
Indices: 41111671--41111720 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
41111661 AAGGGCTATT
41111671 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
41111690 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
41111710 TTGAAAATGTG
1 TTGTAAATGTG
41111721 AGTTGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:41115041 original size:48 final size:48
Alignment explanation
Indices: 41114984--41115151 Score: 216
Period size: 48 Copynumber: 3.5 Consensus size: 48
41114974 TGATATGTGT
*
41114984 GCTAGTGTAAGACATGTCTGGTACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
* * * * * ** *
41115032 GCCATTGTAAGACATGTCTGGGACATGCATCGACATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
*
41115078 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
41115126 GCTAGTGTAAGA-ACTGTCTGGGACAT
1 GCTAGTGTAAGACA-TGTCTGGGACAT
41115152 AGCGTCAGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.37
47 3 0.03
48 59 0.60
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
Found at i:41119295 original size:13 final size:13
Alignment explanation
Indices: 41119257--41119306 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
41119247 AGATAATTAG
*
41119257 CAAATCATACATG
1 CAAATCATACATA
41119270 CAAATCATACATA
1 CAAATCATACATA
41119283 CAAATCATACATA
1 CAAATCATACATA
*
41119296 TAAATTCATAC
1 CAAA-TCATAC
41119307 CAAACTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
13 28 0.82
14 6 0.18
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:41119732 original size:37 final size:39
Alignment explanation
Indices: 41119638--41119733 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 39
41119628 CACACCAGAA
*
41119638 TGGCGACCAACGCCTCATCGGATAGTTCGAAGTAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGTCCGAAG-AAATAAG
* ** * *
41119678 TGACGACCAACATCTCATCGGCTAAG-CCGAAG-CA-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGTCCGAAGAAATAAG
41119715 TGGCGACCAACGCCTCATC
1 TGGCGACCAACGCCTCATC
41119734 AAATTCATCC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 19 0.41
38 1 0.02
40 24 0.52
41 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGTCCGAAGAAATAAG
Found at i:41125982 original size:22 final size:22
Alignment explanation
Indices: 41125954--41126005 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
41125944 AGTTCAGATA
41125954 AGATGCAGAACAGATCA-AATAC
1 AGATGCAGAACAGATCAGAAT-C
*
41125976 AGATGCAGAATAGATCAGAATC
1 AGATGCAGAACAGATCAGAATC
*
41125998 AAATGCAG
1 AGATGCAG
41126006 TTTCCTACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (22 bp):
AGATGCAGAACAGATCAGAATC
Found at i:41127415 original size:19 final size:19
Alignment explanation
Indices: 41127393--41127432 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
41127383 TATATGGCGA
*
41127393 AAAAGAAGAGAACAAAAAG
1 AAAAGAAAAGAACAAAAAG
41127412 AAAAGAAAAGAACAAAAAG
1 AAAAGAAAAGAACAAAAAG
41127431 AA
1 AA
41127433 GGGGAACGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAACAAAAAG
Found at i:41129467 original size:20 final size:20
Alignment explanation
Indices: 41129439--41129482 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
41129429 ACCAAACTTG
* *
41129439 CAACTTACCATAATGTTTCA
1 CAACATACCATAATCTTTCA
*
41129459 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
41129479 CAAC
1 CAAC
41129483 TTAAACTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:41129678 original size:42 final size:42
Alignment explanation
Indices: 41129567--41129688 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
41129557 TATCATACCA
* * **
41129567 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
41129609 ATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
41129652 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
41129689 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:41131601 original size:21 final size:21
Alignment explanation
Indices: 41131575--41131621 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
41131565 CATGGCCTAA
*
41131575 TCACACGGGTGTGACCCTTAG
1 TCACACAGGTGTGACCCTTAG
*
41131596 TCACACAGGTGTGTCCCTTAG
1 TCACACAGGTGTGACCCTTAG
41131617 TCACA
1 TCACA
41131622 TGAGGGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (21 bp):
TCACACAGGTGTGACCCTTAG
Found at i:41139199 original size:23 final size:23
Alignment explanation
Indices: 41139169--41139333 Score: 170
Period size: 23 Copynumber: 7.2 Consensus size: 23
41139159 CAAAGTGTCA
* *
41139169 CACTATAATATAGCCGAAGCTAT
1 CACTATAATGTAGCCGAAGCTAC
*
41139192 CACTATAACGTAGCCGAAGCTAC
1 CACTATAATGTAGCCGAAGCTAC
* * *
41139215 CACTGTATTGTAGCCAAAGCTAC
1 CACTATAATGTAGCCGAAGCTAC
* * * *
41139238 CATTGTATTATAGCCGAAGCTAC
1 CACTATAATGTAGCCGAAGCTAC
* *
41139261 CACTGA-GATGTAGCTGAAGCTAC
1 CACT-ATAATGTAGCCGAAGCTAC
* * *
41139284 CATTGTATTGTAGCCGAAGCTAC
1 CACTATAATGTAGCCGAAGCTAC
*
41139307 CACTATACTGTAGCCGAAGCTAC
1 CACTATAATGTAGCCGAAGCTAC
41139330 CACT
1 CACT
41139334 GAGATGTAGC
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
23 116 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (23 bp):
CACTATAATGTAGCCGAAGCTAC
Found at i:41139252 original size:46 final size:46
Alignment explanation
Indices: 41139202--41139331 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
41139192 CACTATAACG
* *
41139202 TAGCCGAAGCTACCACTGTATTGTAGCCAAAGCTACCATTGTATTA
1 TAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCATTGTATTA
* *
41139248 TAGCCGAAGCTACCACTG-AGATGTAGCTGAAGCTACCATTGTATTG
1 TAGCCGAAGCTACCACTGTA-ATGTAGCCGAAGCTACCATTGTATTA
* *
41139294 TAGCCGAAGCTACCACTATACTGTAGCCGAAGCTACCA
1 TAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCA
41139332 CTGAGATGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 73 0.97
47 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGTAATGTAGCCGAAGCTACCATTGTATTA
Found at i:41139291 original size:69 final size:69
Alignment explanation
Indices: 41139169--41139344 Score: 237
Period size: 69 Copynumber: 2.6 Consensus size: 69
41139159 CAAAGTGTCA
* * * *
41139169 CACTATAATATAGCCGAAGCTATCACT-ATAACGTAGCCGAAGCTACCACTGTATTGTAGCCAAA
1 CACTATACTATAGCCGAAGCTACCACTGA-GATGTAGCCGAAGCTACCACTGTATTGTAGCCAAA
41139233 GCTAC
65 GCTAC
* * * * * *
41139238 CATTGTATTATAGCCGAAGCTACCACTGAGATGTAGCTGAAGCTACCATTGTATTGTAGCCGAAG
1 CACTATACTATAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTACCACTGTATTGTAGCCAAAG
41139303 CTAC
66 CTAC
*
41139307 CACTATACTGTAGCCGAAGCTACCACTGAGATGTAGCC
1 CACTATACTATAGCCGAAGCTACCACTGAGATGTAGCC
41139345 TATAGATTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 91 0.99
70 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (69 bp):
CACTATACTATAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTACCACTGTATTGTAGCCAAAG
CTAC
Found at i:41141929 original size:46 final size:44
Alignment explanation
Indices: 41141870--41141984 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
41141860 ACAGGACAGA
* *
41141870 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
41141916 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
41141960 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
41141985 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:41141965 original size:44 final size:45
Alignment explanation
Indices: 41141870--41142003 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
41141860 ACAGGACAGA
* *
41141870 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
41141916 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
41141960 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
41142004 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:41144200 original size:20 final size:20
Alignment explanation
Indices: 41144175--41144221 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
41144165 AAGTTGAGAT
41144175 AGAGACACAAGATACAAAGA
1 AGAGACACAAGATACAAAGA
41144195 AGAGACACAAGATACAAAGA
1 AGAGACACAAGATACAAAGA
*
41144215 AAAGACA
1 AGAGACA
41144222 GATGAGCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.15, G:0.19, T:0.04
Consensus pattern (20 bp):
AGAGACACAAGATACAAAGA
Found at i:41145781 original size:95 final size:95
Alignment explanation
Indices: 41145618--41145807 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
41145608 TTCCGGACTA
41145618 GGTATGATCATTATGAGTTCCTTGTGATGCCATTTGGCTTGACTAATGCTCCTGCCATTTTCATG
1 GGTATGATCATTATGAGTTCCTTGTGATGCCATTTGGCTTGACTAATGCTCCTGCCATTTTCATG
41145683 GACTTAATGAACCGAATTTTTAGACCGTAC
66 GACTTAATGAACCGAATTTTTAGACCGTAC
*
41145713 GGTATGGTCATTATGAGTTCCTTGTGATGCCATTTGGCTTGACTAATGCTCCTGCCATTTTCATG
1 GGTATGATCATTATGAGTTCCTTGTGATGCCATTTGGCTTGACTAATGCTCCTGCCATTTTCATG
41145778 GACTTAATGAACCGAATTTTTAGACCGTAC
66 GACTTAATGAACCGAATTTTTAGACCGTAC
41145808 TTAGATAAGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (95 bp):
GGTATGATCATTATGAGTTCCTTGTGATGCCATTTGGCTTGACTAATGCTCCTGCCATTTTCATG
GACTTAATGAACCGAATTTTTAGACCGTAC
Found at i:41149171 original size:46 final size:44
Alignment explanation
Indices: 41149112--41149226 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
41149102 ACAGGACAGA
* *
41149112 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
41149158 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
41149202 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
41149227 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:41149207 original size:44 final size:45
Alignment explanation
Indices: 41149112--41149245 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
41149102 ACAGGACAGA
* *
41149112 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
41149158 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
41149202 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
41149246 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:41150725 original size:21 final size:21
Alignment explanation
Indices: 41150674--41150734 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
41150664 TACGGCCTGC
* *
41150674 TCACACGGGCGTGACCCTCAG
1 TCACACGGGTGTGTCCCTCAG
41150695 TCACACGGGTGTGTCCCTCAG
1 TCACACGGGTGTGTCCCTCAG
*
41150716 TCACATGGGTGTGTGCCCT
1 TCACACGGGTGTGT-CCCT
41150735 ACTTCAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 32 0.89
22 4 0.11
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.23
Consensus pattern (21 bp):
TCACACGGGTGTGTCCCTCAG
Found at i:41151104 original size:17 final size:17
Alignment explanation
Indices: 41151077--41151119 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
41151067 TATTAAGTCT
*
41151077 ATATAAGATATTAGTTT-
1 ATATAAAATATTA-TTTA
*
41151094 TTATAAAATATTATTTA
1 ATATAAAATATTATTTA
41151111 ATATAAAAT
1 ATATAAAAT
41151120 GAACTTGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATATAAAATATTATTTA
Found at i:41160792 original size:40 final size:40
Alignment explanation
Indices: 41160737--41161124 Score: 767
Period size: 40 Copynumber: 9.7 Consensus size: 40
41160727 GAGCATTGGA
41160737 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160777 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160817 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160857 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160897 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160937 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41160977 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41161017 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
41161057 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
41161097 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
41161125 ATGTGTTTGC
Statistics
Matches: 347, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 347 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:41162675 original size:49 final size:49
Alignment explanation
Indices: 41162525--41162697 Score: 162
Period size: 49 Copynumber: 3.6 Consensus size: 49
41162515 GATGTGTACT
* * * **
41162525 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TTG--ACATG--TTTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAAGTC
* * * *
41162569 AGTGTAAGACCTGTCTAAGACATGACA-CTGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATC-GACACTGATAGATGAAAGTC
* *
41162618 AATGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACT-GATAGATGAAAGTC
* *
41162667 AGTATAAGACCTGTCTGGGACATGGCATCGA
1 AGTGTAAGACCTGTCTAGGACATGGCATCGA
41162698 ATTAGATGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 27 0.26
45 2 0.02
47 4 0.04
48 2 0.02
49 67 0.64
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAAGTC
Found at i:41167572 original size:25 final size:25
Alignment explanation
Indices: 41167526--41167573 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41167516 AATCAATCAC
**
41167526 AACATAAATCATACATTTTCACATA
1 AACATAAATCATACATAATCACATA
* *
41167551 AACATCAATCATATATAATCACA
1 AACATAAATCATACATAATCACA
41167574 ATGTCCCTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (25 bp):
AACATAAATCATACATAATCACATA
Found at i:41167724 original size:30 final size:30
Alignment explanation
Indices: 41167688--41167754 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
41167678 CTTATAGGGG
*
41167688 TCACACGCCCGTGTGAACAGGTCGTGTGCC
1 TCACACGCCCGTGTGAACAGGCCGTGTGCC
41167718 TCACACGCCCGTGTGAACAGGCCGTGTGCC
1 TCACACGCCCGTGTGAACAGGCCGTGTGCC
41167748 TCACACG
1 TCACACG
41167755 GCCACCAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.36, G:0.28, T:0.18
Consensus pattern (30 bp):
TCACACGCCCGTGTGAACAGGCCGTGTGCC
Found at i:41173015 original size:38 final size:37
Alignment explanation
Indices: 41172964--41173091 Score: 177
Period size: 38 Copynumber: 3.4 Consensus size: 37
41172954 CATGGTCCTG
*
41172964 CTATGGTCTTTACACTTTATTAGAATACCATAGCCCAA
1 CTATGGTC-TTACACTTTATTAGAATGCCATAGCCCAA
* *
41173002 CTATGGTCTTTACACTTTATCACAATGCCATAGCCCAA
1 CTATGGTC-TTACACTTTATTAGAATGCCATAGCCCAA
*
41173040 CTATGGTCTTACACTTTAATTACG-ATGCCATAGCCCAG
1 CTATGGTCTTACACTTT-ATTA-GAATGCCATAGCCCAA
41173078 CTATGGTCTTACAC
1 CTATGGTCTTACAC
41173092 GTACACACAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 9 0.11
38 73 0.89
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (37 bp):
CTATGGTCTTACACTTTATTAGAATGCCATAGCCCAA
Found at i:41173124 original size:11 final size:11
Alignment explanation
Indices: 41173108--41173137 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
41173098 ACATGTATTG
41173108 CCATGGTCCAA
1 CCATGGTCCAA
41173119 CCATGGTCCAA
1 CCATGGTCCAA
41173130 CCATGGTC
1 CCATGGTC
41173138 TTACGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (11 bp):
CCATGGTCCAA
Found at i:41177526 original size:40 final size:39
Alignment explanation
Indices: 41177489--41177666 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
41177479 ATATCCGGAC
41177489 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
41177529 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
41177569 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
41177609 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
41177648 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
41177667 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:41177579 original size:80 final size:79
Alignment explanation
Indices: 41177495--41177666 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
41177485 GGACTAAGAT
*
41177495 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
41177559 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
41177575 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
41177640 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
41177654 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41177667 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:41177684 original size:79 final size:80
Alignment explanation
Indices: 41177522--41177699 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
41177512 AGATACAAAT
* * * *
41177522 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
41177587 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
41177602 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
41177666 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
41177681 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
41177700 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:41185515 original size:40 final size:40
Alignment explanation
Indices: 41185484--41185574 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
41185474 GGACTAAGAT
* *
41185484 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
41185524 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
41185564 CCGAAGGCATT
1 CCGAAGGCATT
41185575 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:41188344 original size:11 final size:11
Alignment explanation
Indices: 41188328--41188352 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41188318 ATCTTGTGGA
41188328 AAAAAGAAAAG
1 AAAAAGAAAAG
41188339 AAAAAGAAAAG
1 AAAAAGAAAAG
41188350 AAA
1 AAA
41188353 GAGATGGTAA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:41210124 original size:50 final size:50
Alignment explanation
Indices: 41210049--41210156 Score: 216
Period size: 50 Copynumber: 2.2 Consensus size: 50
41210039 GTCAGATGCT
41210049 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGTTTATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGTTTATCTGTGCC
41210099 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGTTTATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGTTTATCTGTGCC
41210149 GATGCCAT
1 GATGCCAT
41210157 CAAATATTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGTTTATCTGTGCC
Found at i:41213404 original size:46 final size:46
Alignment explanation
Indices: 41213346--41213509 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 46
41213336 GTGCCGATTC
*
41213346 CATGTCCCAAACATGTCTTACCCTGGCTTATGTCTCGTGGCCGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTATGTCTCGTGGCCGATG
* * * *
41213392 CATGTCCCAAACAGGTCTTACACTAGCGC-T-TGTCTCAAT-GCCGCTAC
1 CATGTCCCAAACATGTCTTACACT-G-GCTTATGTCTC-GTGGCCGAT-G
* * * *
41213439 CATGTCTCAAACATGGTCTTACACTGGCTTACGTCTCGAGGCCAATG
1 CATGTCCCAAACAT-GTCTTACACTGGCTTATGTCTCGTGGCCGATG
*
41213486 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
41213510 AGCTCACACA
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
46 45 0.47
47 29 0.31
48 21 0.22
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTGGCTTATGTCTCGTGGCCGATG
Found at i:41213475 original size:48 final size:46
Alignment explanation
Indices: 41213295--41213509 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 46
41213285 GATGCTGATG
* ** *
41213295 CCATGTCCCAGACATGGTCTTACACAAGCTCTAGT-TTATCTGTGCCGATT
1 CCATGTCCCAAACATGGTCTTACACTGGCT-TAGTCTCA--TG-GCCGA-T
* *
41213345 CCATGTCCCAAACAT-GTCTTACCCTGGCTTATGTCTCGTGGCCGAT
1 CCATGTCCCAAACATGGTCTTACACTGGCTTA-GTCTCATGGCCGAT
* *
41213391 GCATGTCCCAAACA-GGTCTTACACTAGCGCTT-GTCTCAAT-GCCGCT
1 CCATGTCCCAAACATGGTCTTACACT-G-GCTTAGTCTC-ATGGCCGAT
* *
41213437 ACCATGTCTCAAACATGGTCTTACACTGGCTTACGTCTCGA-GGCCAAT
1 -CCATGTCCCAAACATGGTCTTACACTGGCTTA-GTCTC-ATGGCCGAT
* *
41213485 GCATGTCCCAGACAT-GTCTTACACT
1 CCATGTCCCAAACATGGTCTTACACT
41213510 AGCTCACACA
Statistics
Matches: 136, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
46 47 0.35
47 32 0.24
48 29 0.21
49 13 0.10
50 15 0.11
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.29
Consensus pattern (46 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTTAGTCTCATGGCCGAT
Found at i:41217679 original size:24 final size:24
Alignment explanation
Indices: 41217647--41217694 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
41217637 AGCGAGATAA
*
41217647 GCCTCATATCTTTTCTTCAAATAT
1 GCCTCATATCTTTTCCTCAAATAT
41217671 GCCTCATATCTTTTCCTCAAATAT
1 GCCTCATATCTTTTCCTCAAATAT
41217695 TTTTCAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (24 bp):
GCCTCATATCTTTTCCTCAAATAT
Found at i:41224490 original size:43 final size:43
Alignment explanation
Indices: 41224442--41224525 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
41224432 TACATGAATC
* *
41224442 GCATCCACCATGAACTTGGACCTCTCAACAAGCTTGGATGCTT
1 GCATCCACAATGAACTTGGACCTCTCAACAAGCTCGGATGCTT
* *
41224485 GCATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGC
1 GCATCCACAATGAACTTGGACCTCTCAACAAGCTCGGATGC
41224526 CACATATCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
GCATCCACAATGAACTTGGACCTCTCAACAAGCTCGGATGCTT
Found at i:41224995 original size:30 final size:30
Alignment explanation
Indices: 41224961--41225019 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
41224951 CATAAATCAT
* *
41224961 ACTTTTGCAAATTTAC-ATTTTGACCCCTAA
1 ACTTTTACAAATTTACGATTTAG-CCCCTAA
*
41224991 ACTTTTACATATTTACGATTTAGCCCCTA
1 ACTTTTACAAATTTACGATTTAGCCCCTA
41225020 GGCTCATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.41
Consensus pattern (30 bp):
ACTTTTACAAATTTACGATTTAGCCCCTAA
Found at i:41236218 original size:42 final size:43
Alignment explanation
Indices: 41236131--41236293 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
41236121 AACTAGTACA
* * * ** *
41236131 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATTG
* * * *
41236173 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATTG
* * * *
41236215 ATGCTAATGTCCCAGACATGGTTTTACACGTAATC-TCAGATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAT-ATATTG
* *
41236258 ATGCCAATGTCTCAGACATGGTCTTACACGATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
41236294 CATCTCGAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 37 0.39
43 58 0.60
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATTG
Found at i:41240149 original size:40 final size:40
Alignment explanation
Indices: 41240101--41240303 Score: 234
Period size: 40 Copynumber: 5.1 Consensus size: 40
41240091 CGGGATGTAA
* *
41240101 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGC
*
41240141 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
* * *
41240181 CCGGACATAATAACTCGCACGAATGCCTTCGGGAATTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
* * *
41240221 TCGGGTATAATAACTCGCAC-AATTGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGACTTAGC
* * * *
41240260 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGT
1 CCGGATA-TAGTAACTCGCACGAATGCCTTCGGGACTTAGC
41240300 CCGG
1 CCGG
41240304 TTATCATCCG
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.22
40 109 0.77
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
Found at i:41257232 original size:132 final size:131
Alignment explanation
Indices: 41256958--41257296 Score: 400
Period size: 132 Copynumber: 2.6 Consensus size: 131
41256948 TCCAACAAAA
* * * * * *
41256958 AAATCGAAACCCAGCACAATAGGGCATGATTCCTCGAATTTCTAAACATTGAACATCGCC-TTAT
1 AAATCGCAACCCAGCACGATAGGGCATGATTCCTCGAATTGCCAAACATCGAACATCGCCTTTGT
* * * * * * *
41257022 TTT--AGA-ATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAATAG
66 TTTAAAGATTTTTAGAAAACATGAATAAAATTCTAAACGGACATTCGATTATTTTGAACAAAGAG
41257084 G
131 G
* **
41257085 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTTCCTTTGT
1 AAATCGCAACCCAGCACGATAGGGCATGATTCCTCGAATTGCCAAACATCGAACATCGCCTTTGT
* *
41257150 TTTAAAGAGTTTTTGGAAAACATGAATAAAATTCTAAACGGACATTCGATTATTTTGAGCAAACG
66 TTTAAAGA-TTTTTAGAAAACATGAATAAAATTCTAAACGGACATTCGATTATTTTGAACAAA-G
41257215 A-G
129 AGG
* * * * * *
41257217 AAATTGCAACTCAGCACGATAGAGCATGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCATGATTCCTCGAATTGCCAAACATCGAACATCGCCTTTGT
41257282 TTTAAAGAATTTTTA
66 TTTAAAG-ATTTTTA
41257297 AATGAATAAT
Statistics
Matches: 177, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
127 52 0.29
128 6 0.03
130 3 0.02
132 114 0.64
133 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (131 bp):
AAATCGCAACCCAGCACGATAGGGCATGATTCCTCGAATTGCCAAACATCGAACATCGCCTTTGT
TTTAAAGATTTTTAGAAAACATGAATAAAATTCTAAACGGACATTCGATTATTTTGAACAAAGAG
G
Found at i:41258623 original size:44 final size:45
Alignment explanation
Indices: 41258575--41258665 Score: 175
Period size: 44 Copynumber: 2.0 Consensus size: 45
41258565 TTTAATAACG
41258575 TATGTAAGTTAAATATAAGTACTAA-ATATATGCTTAATGATACA
1 TATGTAAGTTAAATATAAGTACTAATATATATGCTTAATGATACA
41258619 TATGTAAGTTAAATATAAGTACTAATATATATGCTTAATGATACA
1 TATGTAAGTTAAATATAAGTACTAATATATATGCTTAATGATACA
41258664 TA
1 TA
41258666 AAATGACACA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 25 0.54
45 21 0.46
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (45 bp):
TATGTAAGTTAAATATAAGTACTAATATATATGCTTAATGATACA
Found at i:41260824 original size:133 final size:133
Alignment explanation
Indices: 41260574--41260851 Score: 369
Period size: 133 Copynumber: 2.1 Consensus size: 133
41260564 TGCTCCACTA
* * * * *
41260574 GAGACGAGATCTGCAATCTTTGGTCTATTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
1 GAGACAAGATCTACAATCTTTAGTCTATTCCAATACAACTTTAGGGAGATAGGATAGTGGCTTAA
* * * *
41260639 ATCTACTTCACTGCAACTTTAGGAAGACAAGATTCGCCGTCTTCGATTTGCTCCACTACAACTCC
66 ATCTACTTCACTGCAACTTTAGGAAGACAAGATTCACCATCTCCGATCTGCTCCACTACAACTCC
41260704 AGG
131 AGG
*
41260707 GAGACAAGATCTACAATTTTTAGTCTACTT-CAATACAACTTTAGGGAGATAGGATAGTGGCTTA
1 GAGACAAGATCTACAATCTTTAGTCTA-TTCCAATACAACTTTAGGGAGATAGGATAGTGGCTTA
** * * * ** *
41260771 AATCTGGTTCACTGCAATTTTAGGAAGACAAGATTCATCATCTCCGATCTGCTCTACTGTAACTT
65 AATCTACTTCACTGCAACTTTAGGAAGACAAGATTCACCATCTCCGATCTGCTCCACTACAACTC
41260836 CAGG
130 CAGG
*
41260840 GAGACAATATCT
1 GAGACAAGATCT
41260852 GTAGAATTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
133 123 0.98
134 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (133 bp):
GAGACAAGATCTACAATCTTTAGTCTATTCCAATACAACTTTAGGGAGATAGGATAGTGGCTTAA
ATCTACTTCACTGCAACTTTAGGAAGACAAGATTCACCATCTCCGATCTGCTCCACTACAACTCC
AGG
Found at i:41263231 original size:289 final size:289
Alignment explanation
Indices: 41262712--41263290 Score: 1158
Period size: 289 Copynumber: 2.0 Consensus size: 289
41262702 AATAATACCC
41262712 AAATCTCATAATTTGCCTGGCCATTTTAAAGCCATTAGCGTGTGTCCCATAGACGCCTTCATGGA
1 AAATCTCATAATTTGCCTGGCCATTTTAAAGCCATTAGCGTGTGTCCCATAGACGCCTTCATGGA
41262777 CTTCTTCCAAGATTTTCTTAGCCTCTACAGCCTCTACGCATCTTAATAGCACTTGATCCTTTCTT
66 CTTCTTCCAAGATTTTCTTAGCCTCTACAGCCTCTACGCATCTTAATAGCACTTGATCCTTTCTT
41262842 CTTTTGTATAGGATCTCCCTATCTAAGACATAGTCGATGGCCAATCTTCTCAGTGTCCTTTTGTC
131 CTTTTGTATAGGATCTCCCTATCTAAGACATAGTCGATGGCCAATCTTCTCAGTGTCCTTTTGTC
41262907 ATTGTCGCTTGCCTGGTCCAAGTACTCACAATTCTTCACGTATTGCAATATATCGTGATACCAAG
196 ATTGTCGCTTGCCTGGTCCAAGTACTCACAATTCTTCACGTATTGCAATATATCGTGATACCAAG
41262972 GGTGATCATCTTTTTCTTCTTTTTCTTCG
261 GGTGATCATCTTTTTCTTCTTTTTCTTCG
41263001 AAATCTCATAATTTGCCTGGCCATTTTAAAGCCATTAGCGTGTGTCCCATAGACGCCTTCATGGA
1 AAATCTCATAATTTGCCTGGCCATTTTAAAGCCATTAGCGTGTGTCCCATAGACGCCTTCATGGA
41263066 CTTCTTCCAAGATTTTCTTAGCCTCTACAGCCTCTACGCATCTTAATAGCACTTGATCCTTTCTT
66 CTTCTTCCAAGATTTTCTTAGCCTCTACAGCCTCTACGCATCTTAATAGCACTTGATCCTTTCTT
41263131 CTTTTGTATAGGATCTCCCTATCTAAGACATAGTCGATGGCCAATCTTCTCAGTGTCCTTTTGTC
131 CTTTTGTATAGGATCTCCCTATCTAAGACATAGTCGATGGCCAATCTTCTCAGTGTCCTTTTGTC
41263196 ATTGTCGCTTGCCTGGTCCAAGTACTCACAATTCTTCACGTATTGCAATATATCGTGATACCAAG
196 ATTGTCGCTTGCCTGGTCCAAGTACTCACAATTCTTCACGTATTGCAATATATCGTGATACCAAG
41263261 GGTGATCATCTTTTTCTTCTTTTTCTTCG
261 GGTGATCATCTTTTTCTTCTTTTTCTTCG
41263290 A
1 A
41263291 TATTATAACA
Statistics
Matches: 290, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
289 290 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (289 bp):
AAATCTCATAATTTGCCTGGCCATTTTAAAGCCATTAGCGTGTGTCCCATAGACGCCTTCATGGA
CTTCTTCCAAGATTTTCTTAGCCTCTACAGCCTCTACGCATCTTAATAGCACTTGATCCTTTCTT
CTTTTGTATAGGATCTCCCTATCTAAGACATAGTCGATGGCCAATCTTCTCAGTGTCCTTTTGTC
ATTGTCGCTTGCCTGGTCCAAGTACTCACAATTCTTCACGTATTGCAATATATCGTGATACCAAG
GGTGATCATCTTTTTCTTCTTTTTCTTCG
Found at i:41272912 original size:131 final size:131
Alignment explanation
Indices: 41272606--41272936 Score: 422
Period size: 131 Copynumber: 2.5 Consensus size: 131
41272596 AAAAAACTGA
* * * *
41272606 AACCCAGCACAATAGGGCATGATTCCTCGAATTTCTAAATATCGAACATTGCCTT-ATTTT--AG
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAATATCGAACATTGCCTTCATTTTAAAG
* * * * *
41272668 A-ATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAATAGGAAATTA
66 ATTTTTAGAAAACATGAATGAAATTCTAAAAGGACATTCGATTATTTTGAACAAATAGGAAATTA
41272732 C
131 C
* * * *
41272733 AACCCAGCACGATAGGGCACAATTCCTCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAATATCGAACATTGCCTTCATTTTAAAG
* *
41272798 AGTTTTTGGAAAACATGAATGAAATTCTAAAAGGACATTCGATTATTTTGAGC-AAT-GAGAAAT
66 A-TTTTTAGAAAACATGAATGAAATTCTAAAAGGACATTCGATTATTTTGAACAAATAG-GAAAT
*
41272861 TGC
129 TAC
* * *
41272864 AACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCAAACATCGCCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAATATCGAACATTGCCTTCATTTTAAAG
41272929 AATTTTTA
66 -ATTTTTA
41272937 AATGAATAAT
Statistics
Matches: 173, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
127 48 0.28
128 4 0.02
130 4 0.02
131 73 0.42
132 44 0.25
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (131 bp):
AACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAATATCGAACATTGCCTTCATTTTAAAG
ATTTTTAGAAAACATGAATGAAATTCTAAAAGGACATTCGATTATTTTGAACAAATAGGAAATTA
C
Found at i:41284982 original size:53 final size:53
Alignment explanation
Indices: 41284902--41285046 Score: 166
Period size: 53 Copynumber: 2.7 Consensus size: 53
41284892 TTCCTTTTTA
* *
41284902 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
41284955 AACTCACCATTGTCATG-CATTGGCATGGTCTTACATGGGATCTTTGCCTTAAAG
1 AACTCACCATTGCCATGTC-TTGACATGGTCTTACATGGGATCCTTGCCTT-ATG
* * * *
41285009 TAAATTATCAATGCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCATTGCCATGTCTTGACATGGTCTTACATG
41285047 ATTTCCTTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.57
54 2 0.03
55 29 0.38
56 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:41285090 original size:35 final size:35
Alignment explanation
Indices: 41285044--41285112 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
41285034 ATGGTCTTAC
41285044 ATGATTTCCTTGCCTTGTAAAACTTACCAATGTCT
1 ATGATTTCCTTGCCTTGTAAAACTTACCAATGTCT
41285079 ATGATTTCCTTGCCTTGTAAAACTTACCAATGTC
1 ATGATTTCCTTGCCTTGTAAAACTTACCAATGTC
41285113 ACTCCTTGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (35 bp):
ATGATTTCCTTGCCTTGTAAAACTTACCAATGTCT
Found at i:41285119 original size:30 final size:32
Alignment explanation
Indices: 41285050--41285120 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 32
41285040 TTACATGATT
*
41285050 TCCTTGCCTTGTAAAACTTACCAATGTCTATGATT
1 TCCTTGCCTTGTAAAACTTACCAATGTC--T-ATC
41285085 TCCTTGCCTTGTAAAACTTACCAATGTC-A-C
1 TCCTTGCCTTGTAAAACTTACCAATGTCTATC
41285115 TCCTTG
1 TCCTTG
41285121 GCATGGTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 6 0.17
31 1 0.03
35 28 0.80
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (32 bp):
TCCTTGCCTTGTAAAACTTACCAATGTCTATC
Found at i:41288794 original size:41 final size:41
Alignment explanation
Indices: 41288737--41288820 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
41288727 CTTTTGTCAA
41288737 GAGTATACAATAAGGATATTTCAATCATGGTACTTCTTGAG
1 GAGTATACAATAAGGATATTTCAATCATGGTACTTCTTGAG
41288778 GAGTATACAATAAGGATATTTCAATCATGGTACTTCTTGAG
1 GAGTATACAATAAGGATATTTCAATCATGGTACTTCTTGAG
41288819 GA
1 GA
41288821 CTGACTCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (41 bp):
GAGTATACAATAAGGATATTTCAATCATGGTACTTCTTGAG
Found at i:41293073 original size:15 final size:16
Alignment explanation
Indices: 41293040--41293074 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
41293030 ATTAAGTCTA
41293040 TATAAAATATTAGATTT
1 TATAAAATATTA-ATTT
41293057 TATAAAATATT-ATTT
1 TATAAAATATTAATTT
41293072 TAT
1 TAT
41293075 TATAATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TATAAAATATTAATTT
Found at i:41299624 original size:14 final size:14
Alignment explanation
Indices: 41299589--41299627 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
41299579 TTGTTTCACT
*
41299589 GAAAATGACTTCTA
1 GAAAATGATTTCTA
*
41299603 GAAAATGATTTCTG
1 GAAAATGATTTCTA
*
41299617 GAAGATGATTT
1 GAAAATGATTT
41299628 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:41300111 original size:15 final size:15
Alignment explanation
Indices: 41300091--41300142 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
41300081 ACTACAAAAC
41300091 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
41300106 ATTTATAATTTTAATAAAT
1 ATTTAT--TATTAAT--AT
*
41300125 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
41300140 ATT
1 ATT
41300143 AAAATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
17 11 0.37
19 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:41300206 original size:16 final size:16
Alignment explanation
Indices: 41300175--41300211 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
41300165 ATGTGAATAA
41300175 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
41300191 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
41300207 TATTA
1 TATTA
41300212 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:41300244 original size:20 final size:22
Alignment explanation
Indices: 41300219--41300273 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
41300209 TTAAAATAAA
*
41300219 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
41300239 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* *
41300261 ATTATATTAATAA
1 ATTAAAATAATAA
41300274 TTCTTTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 13 0.43
21 2 0.07
22 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:41300263 original size:22 final size:20
Alignment explanation
Indices: 41300219--41300264 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
41300209 TTAAAATAAA
*
41300219 ATTAAAATATTAAATAATTT
1 ATTAAAATAATAAATAATTT
41300239 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAA-TA-ATTT
41300261 ATTA
1 ATTA
41300265 TATTAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 2 0.09
22 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAAAATAATAAATAATTT
Found at i:41300872 original size:43 final size:43
Alignment explanation
Indices: 41300813--41300963 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 43
41300803 CATTAACGAG
*
41300813 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGT-ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
41300857 -TGTCATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 ATGT-ATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
41300901 ATG-ATTTCGTATAAGACCCTGTCTGGGACAGTGGGATCG-AT
1 ATGTATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
41300942 ATGTGATAACATGTAAGACCAT
1 ATGT-ATTACATGTAAGACCAT
41300964 ATCTAGGATA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 5 0.06
43 80 0.89
44 3 0.03
45 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:41306568 original size:42 final size:42
Alignment explanation
Indices: 41306509--41306603 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
41306499 GACATTAGGG
**
41306509 TTATCGAGACTATGTGTAAGACCATATGTAGGATATGACATCA
1 TTAT-GAGACTATGTGTAAGACCATATCCAGGATATGACATCA
*
41306552 TTATGAGAC-ATCGTGTAAGACCATATCCAGGATATGGCATCA
1 TTATGAGACTAT-GTGTAAGACCATATCCAGGATATGACATCA
**
41306594 AAATGAGACT
1 TTATGAGACT
41306604 GGGCTATTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 39 0.87
43 4 0.09
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (42 bp):
TTATGAGACTATGTGTAAGACCATATCCAGGATATGACATCA
Found at i:41308295 original size:48 final size:48
Alignment explanation
Indices: 41308243--41308371 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 48
41308233 CCCGCACACT
* * *
41308243 AAGTGCCAATATCATGGCCTGAAGCCAACTCAAT-ATATCTCGCACCCA
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGA-AGCTCGCACCCA
* * * * * * *
41308291 AAGTGCTAATATCATGACCCATAGCCAAATTAGTGAAGCTCGCACCCG
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGAAGCTCGCACCCA
*
41308339 AACTGCCAATATCATGGCCTAAAGCCAAATCAA
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAA
41308372 AGTAAGTTTC
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
48 62 0.98
49 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGAAGCTCGCACCCA
Found at i:41309908 original size:31 final size:31
Alignment explanation
Indices: 41309865--41309979 Score: 223
Period size: 31 Copynumber: 3.7 Consensus size: 31
41309855 TCAGTCTCGA
41309865 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
41309895 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
41309926 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
41309957 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
41309980 ACTGTAAACG
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
30 5 0.06
31 79 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:41310050 original size:42 final size:42
Alignment explanation
Indices: 41310003--41310136 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
41309993 TGGCCCTTAG
*
41310003 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
41310045 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
41310087 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
41310129 GCCCATTT
1 GCCCATTT
41310137 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:41310312 original size:25 final size:25
Alignment explanation
Indices: 41310284--41310353 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
41310274 CTCTTTTAAT
*
41310284 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41310309 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41310334 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41310354 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:41311540 original size:42 final size:42
Alignment explanation
Indices: 41311481--41311575 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
41311471 GACATTAGGG
**
41311481 TTATCGAGACTATGTGTAAGACCATATGTAGGATATGACATCA
1 TTAT-GAGACTATGTGTAAGACCATATCCAGGATATGACATCA
*
41311524 TTATGAGAC-ATCGTGTAAGACCATATCCAGGATATGGCATCA
1 TTATGAGACTAT-GTGTAAGACCATATCCAGGATATGACATCA
**
41311566 AAATGAGACT
1 TTATGAGACT
41311576 GGGCTATTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 39 0.87
43 4 0.09
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (42 bp):
TTATGAGACTATGTGTAAGACCATATCCAGGATATGACATCA
Found at i:41313267 original size:48 final size:48
Alignment explanation
Indices: 41313215--41313343 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 48
41313205 CCCGCACACT
* * *
41313215 AAGTGCCAATATCATGGCCTGAAGCCAACTCAAT-ATATCTCGCACCCA
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGA-AGCTCGCACCCA
* * * * * * *
41313263 AAGTGCTAATATCATGACCCATAGCCAAATTAGTGAAGCTCGCACCCG
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGAAGCTCGCACCCA
*
41313311 AACTGCCAATATCATGGCCTAAAGCCAAATCAA
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAA
41313344 AGTAAGTTTC
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
48 62 0.98
49 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCTAAAGCCAAATCAATGAAGCTCGCACCCA
Found at i:41314844 original size:31 final size:31
Alignment explanation
Indices: 41314806--41314884 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
41314796 TTTAACGATT
41314806 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
41314837 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
41314868 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41314885 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:41314955 original size:42 final size:42
Alignment explanation
Indices: 41314908--41314999 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
41314898 TGGCCCTTAG
* ** *
41314908 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
41314950 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
41314992 GCCCATTT
1 GCCCATTT
41315000 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:41315175 original size:25 final size:25
Alignment explanation
Indices: 41315147--41315216 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
41315137 CTCTTTTAAT
*
41315147 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41315172 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41315197 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41315217 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:41316173 original size:27 final size:27
Alignment explanation
Indices: 41316143--41316255 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 27
41316133 GTAAATGTAC
41316143 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
41316170 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
41316196 AGAAAGTCAAGGGTATTTCTGTAATTGTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * ** *
41316226 AAATCAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTGT
41316253 AAA
1 AAA
41316256 TTGAGGGTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 44 0.63
28 7 0.10
29 17 0.24
30 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:41316256 original size:27 final size:27
Alignment explanation
Indices: 41316226--41316330 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
41316216 GTAATTGTGT
*
41316226 AAATCAGGGGTATTTTGGTAATTTTAT
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
41316253 AAAT-TGAGGGTATTTTGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
41316280 AAACCAGTGGTATTTTTGGTAATTTTAC
1 AAATCAGGGGTA-TTTTGGTAATTTTAC
41316308 AAA-CTAGGGGTATTTTGGTAATT
1 AAATC-AGGGGTATTTTGGTAATT
41316331 CTACCCTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 41 0.62
28 24 0.36
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:41316398 original size:27 final size:27
Alignment explanation
Indices: 41316362--41316453 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
41316352 ATAATTTCAC
** *
41316362 AATCGAGGGTAAAATGGTAATTGTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
41316389 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
41316416 AATCAAGGGTAAAACAGTTATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
41316443 AATCGAGGGTA
1 AATCGAGGGTA
41316454 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:41327611 original size:21 final size:21
Alignment explanation
Indices: 41327570--41327685 Score: 94
Period size: 21 Copynumber: 5.5 Consensus size: 21
41327560 CAAAAGCTCG
* * *
41327570 AAAGCTGAACAGAAGCCCATA
1 AAAGTTGAACAGAAACTCATA
41327591 AAAGTTGAACAGAAACTCATA
1 AAAGTTGAACAGAAACTCATA
*
41327612 AGAGCTT-AACAGAAACTCA-A
1 AAAG-TTGAACAGAAACTCATA
*
41327632 AAGAGTTGAAC-GAAAGCTCGTA
1 AA-AGTTGAACAGAAA-CTCATA
* * *
41327654 AGAGCTAAACAGAAACTCATA
1 AAAGTTGAACAGAAACTCATA
* *
41327675 AGAGTTTAACA
1 AAAGTTGAACA
41327686 AAAGCTCGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.10
21 61 0.79
22 8 0.10
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAGTTGAACAGAAACTCATA
Found at i:41327639 original size:42 final size:43
Alignment explanation
Indices: 41327593--41327710 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
41327583 AGCCCATAAA
*
41327593 AGTTGAACAGAAA-CTCATAAGAGCTTAACAGAAACTCAAAAG
1 AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
* *
41327635 AGTTGAAC-GAAAGCTCGTAAGAGCTAAACAGAAACTCATAAG
1 AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
* *
41327677 AGTTTAACA-AAAGCTCGA-AAGAGCTAAATAGAAA
1 AGTTGAACAGAAAGCTC-ATAAGAGCTAAACAGAAA
41327711 GTAAAACACG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.06
42 63 0.94
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (43 bp):
AGTTGAACAGAAAGCTCATAAGAGCTAAACAGAAACTCAAAAG
Found at i:41327698 original size:21 final size:21
Alignment explanation
Indices: 41327598--41327710 Score: 92
Period size: 21 Copynumber: 5.4 Consensus size: 21
41327588 ATAAAAGTTG
41327598 AACAGAAACTC-ATAAGAGCTT
1 AACAGAAACTCGA-AAGAGCTT
*
41327619 AACAGAAACTCAAAAGAG-TT
1 AACAGAAACTCGAAAGAGCTT
* *
41327639 GAAC-GAAAGCTCGTAAGAGCTA
1 -AACAGAAA-CTCGAAAGAGCTT
*
41327661 AACAGAAACTC-ATAAGAGTTT
1 AACAGAAACTCGA-AAGAGCTT
*
41327682 AACA-AAAGCTCGAAAGAGCTA
1 AACAGAAA-CTCGAAAGAGCTT
*
41327703 AATAGAAA
1 AACAGAAA
41327711 GTAAAACACG
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
20 9 0.12
21 55 0.74
22 10 0.14
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (21 bp):
AACAGAAACTCGAAAGAGCTT
Found at i:41330578 original size:69 final size:67
Alignment explanation
Indices: 41330495--41330627 Score: 158
Period size: 69 Copynumber: 2.0 Consensus size: 67
41330485 TGAACAGCTG
* * ** * *
41330495 CAGCCTTCAAAACAGTTAGCGAAAGTGAAGCTCCTAGCTGTCGTGCGAAGGCTCTTAGGCGAAGA
1 CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGT--GAAGGCTCGTAGGCGAAGA
41330560 GCCA
64 GCCA
* * * *
41330564 CAGCCTCCAGAACAGATAGTGAGAGCAAAGCTCCAAGCTGTCGTTAAGGCTCGTAGGCGAAGAG
1 CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGTGAAGGCTCGTAGGCGAAGAG
41330628 TCGCGGCTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 18 0.33
69 36 0.67
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (67 bp):
CAGCCTCCAAAACAGATAGCGAAAGCAAAGCTCCAAGCTGTCGTGAAGGCTCGTAGGCGAAGAGC
CA
Found at i:41330658 original size:66 final size:68
Alignment explanation
Indices: 41330522--41330674 Score: 184
Period size: 66 Copynumber: 2.3 Consensus size: 68
41330512 AGCGAAAGTG
*
41330522 AAGCTCCTAGCTGTCGTGCGAAGGCTCTTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAG
1 AAGCTCCTAGCTGTCGT-CGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAG
41330587 AGCA
65 AGCA
* * * * * * * * *
41330591 AAGCTCCAAGCTGTCGT-TAAGGCTCGTAGGCGAAGAGTCGC-GGCTCCAGCATAGTTAGTGATA
1 AAGCTCCTAGCTGTCGTCGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAGA
41330654 GCA
66 GCA
*
41330657 AAGCTCCTAGCTATCGTC
1 AAGCTCCTAGCTGTCGTC
41330675 TTAAGGTTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
66 35 0.49
67 20 0.28
69 16 0.23
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (68 bp):
AAGCTCCTAGCTGTCGTCGAAGGCTCGTAGGCGAAGAGCCACAGCCTCCAGAACAGATAGTGAGA
GCA
Found at i:41330892 original size:69 final size:70
Alignment explanation
Indices: 41330702--41330893 Score: 214
Period size: 69 Copynumber: 2.8 Consensus size: 70
41330692 AAAACCAAAG
* * *
41330702 CCTCTAACACAGTTAACGAGAGA-AAAACTCCTAATTGTTGTGCTAAGGCT--CAAATGCAAAGA
1 CCTCCAACACAGTTAGCGAGA-ACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATG-AAAGA
* *
41330764 GTCGCAG
64 GTCACAA
* * * *
41330771 CCTCCAACACAGTTAGC-AAAAGCAAAGCTCCCAATTGTTGTGCTAAGACTCGCAAGTG-AAGAG
1 CCTCCAACACAGTTAGCGAGAA-CAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATGAAAGAG
41330834 TCACAA
65 TCACAA
* * *
41330840 CCTCCAACAAAGTTAGCGAGAACAAAGCTCCTAATTGTCGTGCAAAGGCTCGCA
1 CCTCCAACACAGTTAGCGAGAACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCA
41330894 GGAAAAAGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
67 1 0.01
68 2 0.02
69 92 0.89
70 3 0.03
71 5 0.05
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (70 bp):
CCTCCAACACAGTTAGCGAGAACAAAGCTCCTAATTGTTGTGCTAAGGCTCGCAAATGAAAGAGT
CACAA
Found at i:41331437 original size:35 final size:35
Alignment explanation
Indices: 41331363--41331437 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 35
41331353 AATTATGTGA
41331363 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
1 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
*
41331398 -AAGTATAACAAGCTTGCAAAAAATAGATTTTCTC
1 AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
41331432 AAAGTA
1 AAAGTA
41331438 AACTCTCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (35 bp):
AAAGTATAACAAGCTCGCAAAAAATAGATTTTCTC
Found at i:41336717 original size:15 final size:15
Alignment explanation
Indices: 41336697--41336779 Score: 76
Period size: 15 Copynumber: 5.5 Consensus size: 15
41336687 GATAATCAGA
*
41336697 AAATCCAAGATAGAG
1 AAATCCAAGATAAAG
* ***
41336712 AAATCCGAGACGGAG
1 AAATCCAAGATAAAG
** *
41336727 AAGCCCAAAATAAAG
1 AAATCCAAGATAAAG
41336742 AAATCCAAGATAAAG
1 AAATCCAAGATAAAG
* *
41336757 AAATCCATGATAAGG
1 AAATCCAAGATAAAG
41336772 AAATCCAA
1 AAATCCAA
41336780 ATTATAATAC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.53, C:0.17, G:0.18, T:0.12
Consensus pattern (15 bp):
AAATCCAAGATAAAG
Found at i:41337093 original size:26 final size:26
Alignment explanation
Indices: 41337062--41337114 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
41337052 ATCCATTTAG
41337062 ACTGACAACACATTCGTCTAACATTA
1 ACTGACAACACATTCGTCTAACATTA
41337088 ACTGACAACACATTCGTCTAACATTA
1 ACTGACAACACATTCGTCTAACATTA
41337114 A
1 A
41337115 GATCATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (26 bp):
ACTGACAACACATTCGTCTAACATTA
Found at i:41341150 original size:30 final size:30
Alignment explanation
Indices: 41341106--41341162 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41341096 CAAAAATCAT
*
41341106 ATTTTTACAAATTTTCA-TTTTGACCCCTAA
1 ATTTTCACAAATTTTCACTTTT-ACCCCTAA
*
41341136 ATTTTCACATATTTTCACTTTTACCCC
1 ATTTTCACAAATTTTCACTTTTACCCC
41341163 AATTCTCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (30 bp):
ATTTTCACAAATTTTCACTTTTACCCCTAA
Found at i:41345478 original size:28 final size:28
Alignment explanation
Indices: 41345438--41345516 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
41345428 GCAATCAAAT
* * *
41345438 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
41345466 ATGGCACTTAGTGTGCGATATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
41345494 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
41345517 CGAATGACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:41347520 original size:28 final size:28
Alignment explanation
Indices: 41347489--41347643 Score: 132
Period size: 28 Copynumber: 5.5 Consensus size: 28
41347479 GTGAACATAG
*
41347489 GCACTGTGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
41347517 GCACTGTGTGTGCGAGAT-CGATTGTTGA
1 GCACTGTGTGTGCGAGTTCCG-TAACCGA
*
41347545 GGCACTGTGTGTGCGAGTTTCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * *****
41347574 GCACTGTGTGTGCAAGATCAGTTGTTAA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
41347602 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
41347631 GCACTGTGTGTGC
1 GCACTGTGTGTGC
41347644 AAGATCAGTT
Statistics
Matches: 96, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
27 2 0.02
28 51 0.53
29 41 0.43
30 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:41347556 original size:29 final size:29
Alignment explanation
Indices: 41347517--41347618 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
41347507 CCGTAACCGA
41347517 GCACTGTGTGTGCGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGATTGTTGAG
* ****
41347546 GCACTGTGTGTGCGAGTTTCG-TAACCGA-
1 GCACTGTGTGTGCGAG-ATCGATTGTTGAG
* *
41347574 GCACTGTGTGTGCAAGATC-AGTTGTTAAG
1 GCACTGTGTGTGCGAGATCGA-TTGTTGAG
41347603 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
41347619 TTCCGTAACC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 2 0.04
28 17 0.30
29 34 0.61
30 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGATTGTTGAG
Done.