Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 306 of 322
Found at i:101644375 original size:51 final size:51
Alignment explanation
Indices: 101644320--101644467 Score: 246
Period size: 51 Copynumber: 2.9 Consensus size: 51
101644310 TGAACCTTAG
101644320 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
101644371 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAAGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
101644422 GAATAAAATAGCTTTGG-CTACAAG-GATGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
101644468 CGTGTCTCCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
50 2 0.02
51 89 0.98
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:101648531 original size:50 final size:51
Alignment explanation
Indices: 101648475--101648610 Score: 204
Period size: 50 Copynumber: 2.7 Consensus size: 51
101648465 TCAATATGAG
101648475 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTG-
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGA
* * *
101648525 TTCCCATGTAAGACCATGTCTTGGACATGACATTGGCATCGATATGTGTGA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGA
** *
101648576 AT-CCATGTAAGACCATAACTGGGATATGGCATTGG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
101648611 TATCTTACTA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
50 75 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGA
Found at i:101648846 original size:12 final size:13
Alignment explanation
Indices: 101648824--101648852 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
101648814 AAGTTTTATT
101648824 TTTATTTTATTTA
1 TTTATTTTATTTA
101648837 TTTA-TTTATTTA
1 TTTATTTTATTTA
101648849 TTTA
1 TTTA
101648853 CTTAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:101656203 original size:46 final size:45
Alignment explanation
Indices: 101656131--101656485 Score: 281
Period size: 46 Copynumber: 7.6 Consensus size: 45
101656121 TGATATGTGT
*
101656131 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGCAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTG-AAGA
* * * * *
101656177 GCCAGTGTAAGACATGTTTGGGACATGTATCGGCCTCGAGATATG-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAT-TGAAGA
* * *
101656225 GCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCACATTGCGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTG-AAGA
* *
101656271 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA--GATATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTGA-A-GA
* * *
101656317 GTGCTGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAA-A
1 G-CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT--GAAGA
* * * * * * *
101656364 GCCAGTGCAAGACATGTCTAGGACTTGCATCAGCCTCGAGATATG-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACAT-TGAAGA
* *
101656412 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTGAA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT--TGAAGA
*
101656458 GCTAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
101656486 GCTTCGGCAT
Statistics
Matches: 244, Mismatches: 43, Indels: 43
0.74 0.13 0.13
Matches are distributed among these distances:
44 2 0.01
45 8 0.03
46 109 0.45
47 53 0.22
48 60 0.25
49 7 0.03
50 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGAAGA
Found at i:101656283 original size:94 final size:94
Alignment explanation
Indices: 101656122--101656527 Score: 565
Period size: 94 Copynumber: 4.4 Consensus size: 94
101656112 CAGTGCAGGT
* * *
101656122 GATATGTGTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGC-AAGAGCCAGTGTA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAA-AGCCAGTGTA
* *
101656186 AGACATGTTTGGGACATGTATCGGCCTCGA
65 AGACATGTCTGGGACATGCATCGGCCTCGA
* * *
101656216 GATATGTGTGCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCACATTGCGAGAGCCAGTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGTAA
101656281 GACATGTCTGGGACATGCATCGGCCTCGA
66 GACATGTCTGGGACATGCATCGGCCTCGA
*
101656310 GATATGTGTGCT-GTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGCAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGTAA
* * *
101656374 GACATGTCTAGGACTTGCATCAGCCTCGA
66 GACATGTCTGGGACATGCATCGGCCTCGA
* * *
101656403 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTGAAAGCTAGTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGTAA
* *
101656468 GACCATGTCTGGGACATGGCTTCGGCAT---
66 GA-CATGTCTGGGACAT-GCATCGGCCTCGA
* *
101656496 GATATGTGT-C-AGTGTAAGACCTATCTGGGACA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACA
101656528 CGGCACAGAT
Statistics
Matches: 284, Mismatches: 24, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
91 20 0.07
92 1 0.00
93 95 0.33
94 148 0.52
95 13 0.05
96 7 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (94 bp):
GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTGTAA
GACATGTCTGGGACATGCATCGGCCTCGA
Found at i:101656467 original size:187 final size:186
Alignment explanation
Indices: 101656121--101656527 Score: 570
Period size: 187 Copynumber: 2.2 Consensus size: 186
101656111 GCAGTGCAGG
* * *
101656121 TGATATGTGTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACATTGCAAGAGCCAGTGTA
1 TGATATGTGTG-CAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCAAGAGCCAGTGCA
* * * * *
101656186 AGACATGTTTGGGACATGTATCGGCCTCGAGATATGTGTGCTAGTGTAAGACATGTCTGGGGCAT
65 AGACATGTCTAGGACATGCATCAGCCTCGAGATATGTGTGCTAGTGTAAGACATGTCTGGGACAT
* * * *
101656251 GCATCGGCCACATTGCGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC
130 GCATCAGCCACATCGCGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
*
101656306 TCGAGATATGTGTGCTGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCGAA-AGCCAGT
1 T---GATATGTGTGCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGC-AAGAGCCAGT
*
101656370 GCAAGACATGTCTAGGACTTGCATCAGCCTCGAGATATGTGTGCTAGTGTAAGACATGTCTGGGA
62 GCAAGACATGTCTAGGACATGCATCAGCCTCGAGATATGTGTGCTAGTGTAAGACATGTCTGGGA
* * *
101656435 CATGCATCAGCCACATCGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCTTCGGCA
127 CATGCATCAGCCACATCGCGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* *
101656495 TGATATGTGT-CAGTGTAAGACCTATCTGGGACA
1 TGATATGTGTGCAGTGTAAGACATGTCTGGGACA
101656528 CGGCACAGAT
Statistics
Matches: 196, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
185 21 0.11
186 9 0.05
187 132 0.67
188 26 0.13
189 8 0.04
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (186 bp):
TGATATGTGTGCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGCAAGAGCCAGTGCAA
GACATGTCTAGGACATGCATCAGCCTCGAGATATGTGTGCTAGTGTAAGACATGTCTGGGACATG
CATCAGCCACATCGCGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
Found at i:101659753 original size:30 final size:30
Alignment explanation
Indices: 101659713--101659770 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
101659703 TAAAGTTTCA
101659713 ATATGAGATCCCATGTAAGACCATGTCTCG
1 ATATGAGATCCCATGTAAGACCATGTCTCG
*
101659743 ATATGTGATCCCATGTAAGACCATGTCT
1 ATATGAGATCCCATGTAAGACCATGTCT
101659771 GGGATATGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (30 bp):
ATATGAGATCCCATGTAAGACCATGTCTCG
Found at i:101662895 original size:24 final size:24
Alignment explanation
Indices: 101662868--101662916 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
101662858 TTCGAACCAA
101662868 AACAAATTCCTTCTTTTCCACCTT
1 AACAAATTCCTTCTTTTCCACCTT
101662892 AACAAATTCCTTCTTTTCCACCTT
1 AACAAATTCCTTCTTTTCCACCTT
101662916 A
1 A
101662917 CCTTTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.41
Consensus pattern (24 bp):
AACAAATTCCTTCTTTTCCACCTT
Found at i:101663194 original size:18 final size:19
Alignment explanation
Indices: 101663173--101663217 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
101663163 AAAAAAATCG
*
101663173 AAAAAAAGTT-CAAAAAAC
1 AAAAAAAATTGCAAAAAAC
* *
101663191 AAAAAAAATTGGAAAAAAT
1 AAAAAAAATTGCAAAAAAC
101663210 AAAAAAAA
1 AAAAAAAA
101663218 AAGTTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAATTGCAAAAAAC
Found at i:101663227 original size:13 final size:13
Alignment explanation
Indices: 101663211--101663244 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
101663201 GGAAAAAATA
101663211 AAAAAAAAAGTTC
1 AAAAAAAAAGTTC
*
101663224 AAAAAAGAAGTTC
1 AAAAAAAAAGTTC
101663237 AAAAAAAA
1 AAAAAAAA
101663245 TTCGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAGTTC
Found at i:101664758 original size:30 final size:30
Alignment explanation
Indices: 101664724--101664820 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
101664714 AGCTCACTCC
101664724 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
101664754 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
101664784 CATCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
101664814 TAGCTCA
1 TAGCTCA
101664821 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:101667037 original size:16 final size:17
Alignment explanation
Indices: 101667018--101667054 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
101667008 AGAAGATTGT
*
101667018 AAAAAAATAA-AAGAAG
1 AAAAAAATAAGAAAAAG
101667034 AAAAAAATAAGAAAAAG
1 AAAAAAATAAGAAAAAG
101667051 AAAA
1 AAAA
101667055 CAAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAATAAGAAAAAG
Found at i:101667071 original size:41 final size:40
Alignment explanation
Indices: 101667026--101667103 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
101667016 GTAAAAAAAT
101667026 AAAAGAAGAAAA-A-AATAAGAAAAAGAAAACAAAAGAGAGCG
1 AAAAGAA-AAAATAGAA-AAGAAAAAGAAAA-AAAAGAGAGCG
* *
101667067 AAAAGAAAAAATAGCAAAGAAAAAGAAGAAAAAGAGA
1 AAAAGAAAAAATAGAAAAGAAAAAGAAAAAAAAGAGA
101667104 AGGAAATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 12 0.36
41 20 0.61
42 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (40 bp):
AAAAGAAAAAATAGAAAAGAAAAAGAAAAAAAAGAGAGCG
Found at i:101671136 original size:220 final size:220
Alignment explanation
Indices: 101670754--101671193 Score: 880
Period size: 220 Copynumber: 2.0 Consensus size: 220
101670744 ATGTAACCAG
101670754 CTTATTGAATAGAAGAAATTTTGGGACATTTTGTTAATTTTATGCTGCCAAATTTGTGAGGCAAA
1 CTTATTGAATAGAAGAAATTTTGGGACATTTTGTTAATTTTATGCTGCCAAATTTGTGAGGCAAA
101670819 CTTTTCTCTATTTTCGTTCAAGGATTCGTTGGCTACGTAGTGTTCTAGTTGTGTCATCCATTTTC
66 CTTTTCTCTATTTTCGTTCAAGGATTCGTTGGCTACGTAGTGTTCTAGTTGTGTCATCCATTTTC
101670884 TTTGACGGAAACTGAACTTATCACTACTCGTAGTATGGCGTTCAAACATACCAAGGTTCCTATCT
131 TTTGACGGAAACTGAACTTATCACTACTCGTAGTATGGCGTTCAAACATACCAAGGTTCCTATCT
101670949 TGCTAGATAGTGGGTCGAGGTCACC
196 TGCTAGATAGTGGGTCGAGGTCACC
101670974 CTTATTGAATAGAAGAAATTTTGGGACATTTTGTTAATTTTATGCTGCCAAATTTGTGAGGCAAA
1 CTTATTGAATAGAAGAAATTTTGGGACATTTTGTTAATTTTATGCTGCCAAATTTGTGAGGCAAA
101671039 CTTTTCTCTATTTTCGTTCAAGGATTCGTTGGCTACGTAGTGTTCTAGTTGTGTCATCCATTTTC
66 CTTTTCTCTATTTTCGTTCAAGGATTCGTTGGCTACGTAGTGTTCTAGTTGTGTCATCCATTTTC
101671104 TTTGACGGAAACTGAACTTATCACTACTCGTAGTATGGCGTTCAAACATACCAAGGTTCCTATCT
131 TTTGACGGAAACTGAACTTATCACTACTCGTAGTATGGCGTTCAAACATACCAAGGTTCCTATCT
101671169 TGCTAGATAGTGGGTCGAGGTCACC
196 TGCTAGATAGTGGGTCGAGGTCACC
101671194 TTAACCATTC
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 220 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (220 bp):
CTTATTGAATAGAAGAAATTTTGGGACATTTTGTTAATTTTATGCTGCCAAATTTGTGAGGCAAA
CTTTTCTCTATTTTCGTTCAAGGATTCGTTGGCTACGTAGTGTTCTAGTTGTGTCATCCATTTTC
TTTGACGGAAACTGAACTTATCACTACTCGTAGTATGGCGTTCAAACATACCAAGGTTCCTATCT
TGCTAGATAGTGGGTCGAGGTCACC
Found at i:101675929 original size:46 final size:46
Alignment explanation
Indices: 101675878--101675971 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
101675868 ATAGTGTGGC
*
101675878 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATACACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
101675924 GTTCATCATACACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATACACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
101675970 GT
1 GT
101675972 CTTTTCTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATACACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:101679424 original size:29 final size:29
Alignment explanation
Indices: 101679389--101679460 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
101679379 TATTCATATA
* *
101679389 GCCCATTAGTCCCAAATCACCTGTACATG
1 GCCCATTAGGCCCAAATCACATGTACATG
* *
101679418 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATGTACATG
101679447 GCCCATTAGGCCCA
1 GCCCATTAGGCCCA
101679461 GTCACATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTACATG
Found at i:101679691 original size:16 final size:15
Alignment explanation
Indices: 101679669--101679704 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
101679659 CGTAGCCAAA
101679669 CTTTTGGCTTTTCGG
1 CTTTTGGCTTTTCGG
101679684 CATTTTGGCTTTTCGG
1 C-TTTTGGCTTTTCGG
101679700 CTTTT
1 CTTTT
101679705 CGACATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.03, C:0.19, G:0.22, T:0.56
Consensus pattern (15 bp):
CTTTTGGCTTTTCGG
Found at i:101679703 original size:8 final size:8
Alignment explanation
Indices: 101679669--101679720 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
101679659 CGTAGCCAAA
101679669 CTTTT-GG
1 CTTTTCGG
101679676 CTTTTCGG
1 CTTTTCGG
101679684 CATTTT-GG
1 C-TTTTCGG
101679692 CTTTTCGG
1 CTTTTCGG
*
101679700 CTTTTCGA
1 CTTTTCGG
* *
101679708 CATTTCAG
1 CTTTTCGG
101679716 CTTTT
1 CTTTT
101679721 ACCGATTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
7 9 0.24
8 24 0.65
9 4 0.11
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (8 bp):
CTTTTCGG
Found at i:101679718 original size:24 final size:23
Alignment explanation
Indices: 101679669--101679720 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
101679659 CGTAGCCAAA
* **
101679669 CTTTTGGCTTTTCGGCATTTTGG
1 CTTTTGGCTTTTCGACATTTCAG
101679692 CTTTTCGGCTTTTCGACATTTCAG
1 CTTTT-GGCTTTTCGACATTTCAG
101679716 CTTTT
1 CTTTT
101679721 ACCGATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (23 bp):
CTTTTGGCTTTTCGACATTTCAG
Found at i:101680939 original size:16 final size:16
Alignment explanation
Indices: 101680918--101680950 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
101680908 AAAAATTCAA
*
101680918 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
101680934 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
101680950 G
1 G
101680951 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:101683881 original size:28 final size:29
Alignment explanation
Indices: 101683860--101683953 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
101683850 GCCCATTCAT
*
101683860 ATTCATATGGCCTATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
* *
101683889 CTGT-ACATGGCCCATTAGGCCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
101683918 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
101683946 ATTCATAT
1 ATTCATAT
101683954 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 13 0.24
29 41 0.75
30 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:101684188 original size:16 final size:16
Alignment explanation
Indices: 101684167--101684199 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
101684157 CCAAACTTTT
101684167 GGCTTTTCGGCATTTC
1 GGCTTTTCGGCATTTC
*
101684183 GGCTTTTCGGCTTTTC
1 GGCTTTTCGGCATTTC
101684199 G
1 G
101684200 ACATTTCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.24, G:0.27, T:0.45
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:101684195 original size:24 final size:23
Alignment explanation
Indices: 101684162--101684213 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
101684152 CGTAGCCAAA
* *
101684162 CTTTTGGCTTTTCGGCATTTCGG
1 CTTTTGGCTTTTCGACATTTCAG
101684185 CTTTTCGGCTTTTCGACATTTCAG
1 CTTTT-GGCTTTTCGACATTTCAG
101684209 CTTTT
1 CTTTT
101684214 ACCGATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.08, C:0.23, G:0.19, T:0.50
Consensus pattern (23 bp):
CTTTTGGCTTTTCGACATTTCAG
Found at i:101684206 original size:16 final size:16
Alignment explanation
Indices: 101684171--101684213 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
101684161 ACTTTTGGCT
* * *
101684171 TTTCGGCATTTCGGCT
1 TTTCGGCTTTTCGACA
101684187 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
101684203 TTTCAGCTTTT
1 TTTCGGCTTTT
101684214 ACCGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:101688933 original size:68 final size:64
Alignment explanation
Indices: 101688823--101689075 Score: 244
Period size: 68 Copynumber: 3.9 Consensus size: 64
101688813 ATACATATGG
** * * *
101688823 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
101688886 ATTA
62 A-TA
* *
101688890 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
101688955 TATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
101689020 TA
63 TA
* * * *
101689022 AAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
101689076 CAAAATTATG
Statistics
Matches: 156, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 24 0.15
67 34 0.22
68 49 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:101695068 original size:10 final size:10
Alignment explanation
Indices: 101695055--101695089 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
101695045 AAGCTCGGTT
101695055 GAGCTCAAAC
1 GAGCTCAAAC
101695065 GAGCT-AGAAC
1 GAGCTCA-AAC
101695075 GAGCTCAAAC
1 GAGCTCAAAC
101695085 GAGCT
1 GAGCT
101695090 GAGTTGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.04
10 21 0.91
11 1 0.04
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:101695098 original size:20 final size:19
Alignment explanation
Indices: 101695052--101695099 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
101695042 AGTAAGCTCG
101695052 GTTGAGCTCAAACGAGCTA
1 GTTGAGCTCAAACGAGCTA
**
101695071 GAACGAGCTCAAACGAGCTGA
1 G-TTGAGCTCAAACGAGCT-A
101695092 GTTGAGCT
1 GTTGAGCT
101695100 GGACGGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (19 bp):
GTTGAGCTCAAACGAGCTA
Found at i:101696711 original size:18 final size:19
Alignment explanation
Indices: 101696688--101696726 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
101696678 TTTATCTCAA
*
101696688 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
101696706 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
101696725 TT
1 TT
101696727 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:101696768 original size:13 final size:12
Alignment explanation
Indices: 101696732--101696793 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
101696722 TTTTTCTCTC
*
101696732 TCAAACTCTTTT
1 TCAATCTCTTTT
*
101696744 TCATTCTCTTTT
1 TCAATCTCTTTT
*
101696756 TCAATCTCATTT
1 TCAATCTCTTTT
** * **
101696768 TCTTTTTCACTT
1 TCAATCTCTTTT
101696780 TCAATCTCTTTT
1 TCAATCTCTTTT
101696792 TC
1 TC
101696794 TTTTTCTTTC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
TCAATCTCTTTT
Found at i:101696768 original size:24 final size:24
Alignment explanation
Indices: 101696719--101696802 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
101696709 CTTGTTCACA
* * *
101696719 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTTTTTCAATCTCTTT
* * *
101696743 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTTTTTCAATCTCTTT
**
101696767 TTCTTTTTCACTTTCAATCTCTTT
1 TTCTTTTTCTTTTTCAATCTCTTT
101696791 TTCTTTTTCTTT
1 TTCTTTTTCTTT
101696803 CATTTCTTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.63
Consensus pattern (24 bp):
TTCTTTTTCTTTTTCAATCTCTTT
Found at i:101696799 original size:18 final size:18
Alignment explanation
Indices: 101696741--101696799 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
101696731 CTCAAACTCT
101696741 TTTTCATTCTCTTTTTCA
1 TTTTCATTCTCTTTTTCA
* * *
101696759 ATCTCATTTTCTTTTTCA
1 TTTTCATTCTCTTTTTCA
* * *
101696777 CTTTCAATCTCTTTTTCT
1 TTTTCATTCTCTTTTTCA
101696795 TTTTC
1 TTTTC
101696800 TTTCATTTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTCATTCTCTTTTTCA
Found at i:101699290 original size:36 final size:36
Alignment explanation
Indices: 101699243--101699315 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
101699233 AAGAAAGAAG
*
101699243 GAGCTGAAAGTAAGCTCGGTTGAGCTCAAACGAGCT
1 GAGCTGAAAGTAAGCTCAGTTGAGCTCAAACGAGCT
101699279 GAGCTGAAAGTAAGCTCAGTTGAGCTCAAACGAGCT
1 GAGCTGAAAGTAAGCTCAGTTGAGCTCAAACGAGCT
101699315 G
1 G
101699316 GAACGAGCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (36 bp):
GAGCTGAAAGTAAGCTCAGTTGAGCTCAAACGAGCT
Found at i:101699343 original size:20 final size:20
Alignment explanation
Indices: 101699291--101699344 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
101699281 GCTGAAAGTA
*
101699291 AGCTCAGTTGAGCTCAAACG
1 AGCTGAGTTGAGCTCAAACG
** *
101699311 AGCTG-GAACGAGCTCAAATG
1 AGCTGAG-TTGAGCTCAAACG
101699331 AGCTGAGTTGAGCT
1 AGCTGAGTTGAGCT
101699345 GGACGGAGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (20 bp):
AGCTGAGTTGAGCTCAAACG
Found at i:101700401 original size:17 final size:18
Alignment explanation
Indices: 101700381--101700415 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
101700371 TATACACACA
101700381 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
101700398 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
101700416 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:101700684 original size:9 final size:9
Alignment explanation
Indices: 101700670--101700694 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
101700660 TAATTGTTAA
101700670 AACTAATTT
1 AACTAATTT
101700679 AACTAATTT
1 AACTAATTT
101700688 AACTAAT
1 AACTAAT
101700695 CAGCAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (9 bp):
AACTAATTT
Found at i:101701024 original size:50 final size:49
Alignment explanation
Indices: 101700923--101701088 Score: 179
Period size: 50 Copynumber: 3.3 Consensus size: 49
101700913 GGTCGTATCA
* * * * *
101700923 TAAGTGCAGGCTACTATGCGTACCCGAAAAATGTGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAG-ATAAT-TGGTCACGTGTGTAGTAC
* **
101700974 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
* * * * *
101701024 TAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
*
101701073 TATGTGCAGGCTACTA
1 TAAGTGCAGGCTACTA
101701089 TGCATACCAG
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
49 29 0.30
50 45 0.47
51 22 0.23
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
Found at i:101711163 original size:140 final size:143
Alignment explanation
Indices: 101710993--101711284 Score: 344
Period size: 148 Copynumber: 2.0 Consensus size: 143
101710983 GGGAAGGATA
* *
101710993 CAAGTCAATCAAAAATCTGGAGGTGCGCTTGA-T-TTT-ATGATCTGCTAATATG-ACTCATTTT
1 CAAGTCAATCAAAAATCTGGAGGTGAGCTTGATTATTTCACGATCTGCTAATATGTACTCATTTT
* * *
101711054 TTATTGTTTTA-CAGAAGTATAATTAAACGGGAAGCA-AATATTATCTTATATATTTTATTTGTA
66 TTATTATTTTACCA-AAGTAAAATTAAACGGAAAGCAGAA-ATTATCTTATAT-TTTTATTTGTA
* *
101711117 CATCATCTTGATAATC
128 AATCACCTTGATAATC
* * * *
101711133 CAAGTCAATCAGAAATCTGGAGGTGAGCTTGATGTTAGTTTCACGATCTGTTTATATGTTTCTCA
1 CAAGTCAATCAAAAATCTGGAGGTGAGCTTGA--TTA-TTTCACGATCTGCTAATATG-TACTCA
* * * *
101711198 TTTTTTATTATTTTACCAAAGTAAAATTAAACTGAAAGTAGCAATTATTTTATATTTTTATTTGT
62 TTTTTTATTATTTTACCAAAGTAAAATTAAACGGAAAGCAGAAATTATCTTATATTTTTATTTGT
101711263 AAATCACCTTGATAATC
127 AAATCACCTTGATAATC
101711280 CAAGT
1 CAAGT
101711285 ACAAAATGTA
Statistics
Matches: 127, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
140 30 0.24
143 1 0.01
145 3 0.02
146 13 0.10
147 30 0.24
148 47 0.37
149 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (143 bp):
CAAGTCAATCAAAAATCTGGAGGTGAGCTTGATTATTTCACGATCTGCTAATATGTACTCATTTT
TTATTATTTTACCAAAGTAAAATTAAACGGAAAGCAGAAATTATCTTATATTTTTATTTGTAAAT
CACCTTGATAATC
Found at i:101715013 original size:4 final size:4
Alignment explanation
Indices: 101715004--101715034 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
101714994 CAAAAATGCA
101715004 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGT
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGT
101715035 ATATGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.26, T:0.52
Consensus pattern (4 bp):
TGTC
Found at i:101716861 original size:22 final size:24
Alignment explanation
Indices: 101716836--101716890 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
101716826 ATAAGAAGAG
101716836 AAATATTTTAAAAATTACAA-AA-A
1 AAATATTTTAAAAATTA-AAGAATA
* * *
101716859 AATTCTTTTAAAATTTAAAGAATA
1 AAATATTTTAAAAATTAAAGAATA
101716883 AAATATTT
1 AAATATTT
101716891 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTTAAAAATTAAAGAATA
Found at i:101722968 original size:138 final size:137
Alignment explanation
Indices: 101722720--101723142 Score: 679
Period size: 138 Copynumber: 3.1 Consensus size: 137
101722710 TAGAAAAAAG
* *
101722720 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGAGCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
101722785 TATAACTT-TTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATTAATCAAGT
66 TATAA-TTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAA-T
*
101722849 TTATATATT
129 TCATATATT
* *
101722858 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTGGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
101722923 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCGAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC-AATT
101722988 CATATATT
130 CATATATT
* * *
101722996 AATTATATTATTTCCAAAAGAAAATTAATTTCCATGTCTTTTATATTTTGACCGAATTTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
101723061 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATGTTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC-AATT
101723126 CA-ATTATT
130 CATA-TATT
101723134 AATTATATT
1 AATTATATT
101723143 TATGTTCTCT
Statistics
Matches: 266, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
137 3 0.01
138 261 0.98
139 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAATTC
ATATATT
Found at i:101725138 original size:30 final size:30
Alignment explanation
Indices: 101725043--101725139 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
101725033 AGCTCACTCC
** * *
101725043 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
* **
101725073 TAGCTCAACTTCAGCTTA-GTAG-TTTAGCCT
1 TAGCTCAACTTCAGCTCACG-AGCTAAAG-CT
* *
101725103 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAGCT
101725133 TAGCTCA
1 TAGCTCA
101725140 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
29 3 0.06
30 43 0.86
31 4 0.08
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAAGCT
Found at i:101726495 original size:450 final size:450
Alignment explanation
Indices: 101725901--101726800 Score: 1656
Period size: 450 Copynumber: 2.0 Consensus size: 450
101725891 GGACTATTCG
101725901 GCTAGCATAAGATACTAGTATAAATAGTTGGTTATTTTCAATTTGTAAGGGACTTTTGCCAAAAT
1 GCTAGCATAAGATACTAGTATAAATAGTTGGTTATTTTCAATTTGTAAGGGACTTTTGCCAAAAT
* *
101725966 TTTTATTGAATTTAATCTTGTTAGAATTTTCTTCTCTAAACTTTGTTTGAGACTTTGTTGACTTA
66 TTTTATTGAATTTAATCTTGTGAGAATTTTCTTCTCTAAACTTTGTTTGAGAATTTGTTGACTTA
* *
101726031 TCTATCTAGTAGTGGCATCAACCCTGTTTCTTTCAAGCTTATACCAAGGTTCCTATCTTCATAGA
131 TCTACCTAGTAGTGGCATCAACCCTGTTTCTTTCAAGCCTATACCAAGGTTCCTATCTTCATAGA
* *
101726096 TAGTGGGTCGTGGCTTTATCGTTTTAACCATCCACCTTAAGAAACCATAAGTTTCGGGTCGTCAC
196 TAGTGGGTCGCGGCTTTATCGTTTTAACCATCCACCTTAAGAAACCATAAGTTTCGGGTCATCAC
*
101726161 TTTTTAGTGTCGGTTCTACTTATTCTTAAGCTACCCAATTCCATACCCTACGACCTCCCTTGTCA
261 TTTTTAGTGTCGGTTCTACTTATTCTTAAGCTACCCAATTCCATACCCTACGACCACCCTTGTCA
101726226 AACATTAGCAACCAACACCACTCCATCCTTTATGGCCTAAGCCTTAAAGTTACGAACGAAACTTC
326 AACATTAGCAACCAACACCACTCCATCCTTTATGGCCTAAGCCTTAAAGTTACGAACGAAACTTC
* * * * *
101726291 TCGTTAAGACGATCGGGCAACTCAGCATACGACTCGACTCTTCCCGAGGTGGATCGTATC
391 TCGCTAAGACCATCGGGCAACTCAGCATACGACTCAACTCTTACCGAGGCGGATCGTATC
101726351 GCTAGCATAAGATACTAGTATAAATAGTTGGTTATTTTCAATTTGTAAGGGACTTTTGCCAAAAT
1 GCTAGCATAAGATACTAGTATAAATAGTTGGTTATTTTCAATTTGTAAGGGACTTTTGCCAAAAT
101726416 TTTTATTGAATTTAATCTTGTGAGAATTTTCTTCTCTAAACTTTGTTTGAGAATTTGTTGACTTA
66 TTTTATTGAATTTAATCTTGTGAGAATTTTCTTCTCTAAACTTTGTTTGAGAATTTGTTGACTTA
101726481 TCTACCTAGTAGTGGCATCAACCCTGTTTCTTTCAAGCCTATACCAAGGTTCCTATCTTCATAGA
131 TCTACCTAGTAGTGGCATCAACCCTGTTTCTTTCAAGCCTATACCAAGGTTCCTATCTTCATAGA
*
101726546 TAGTGGGTCGCGGCTTTATCGTTTTAACCATCCACCTTAAGAAACCATAAGTTTTGGGTCATCAC
196 TAGTGGGTCGCGGCTTTATCGTTTTAACCATCCACCTTAAGAAACCATAAGTTTCGGGTCATCAC
*
101726611 TTTTTAGTGTCGGTTCTACTTGTTCTTAAGCTACCCAATTCCATACCCTACGACCACCCTTGTCA
261 TTTTTAGTGTCGGTTCTACTTATTCTTAAGCTACCCAATTCCATACCCTACGACCACCCTTGTCA
*
101726676 AACATTAGCAACCAACACCACTCCATCCTTTATGGCCTAAGCCTTAAATTTACGAACGAAACTTC
326 AACATTAGCAACCAACACCACTCCATCCTTTATGGCCTAAGCCTTAAAGTTACGAACGAAACTTC
*
101726741 TCGCTAAGACCATCGGGCAACTCAGCATACGACTCAACTCTTATCGAGGCGGATCGTATC
391 TCGCTAAGACCATCGGGCAACTCAGCATACGACTCAACTCTTACCGAGGCGGATCGTATC
101726801 ATTTGGTATC
Statistics
Matches: 434, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
450 434 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (450 bp):
GCTAGCATAAGATACTAGTATAAATAGTTGGTTATTTTCAATTTGTAAGGGACTTTTGCCAAAAT
TTTTATTGAATTTAATCTTGTGAGAATTTTCTTCTCTAAACTTTGTTTGAGAATTTGTTGACTTA
TCTACCTAGTAGTGGCATCAACCCTGTTTCTTTCAAGCCTATACCAAGGTTCCTATCTTCATAGA
TAGTGGGTCGCGGCTTTATCGTTTTAACCATCCACCTTAAGAAACCATAAGTTTCGGGTCATCAC
TTTTTAGTGTCGGTTCTACTTATTCTTAAGCTACCCAATTCCATACCCTACGACCACCCTTGTCA
AACATTAGCAACCAACACCACTCCATCCTTTATGGCCTAAGCCTTAAAGTTACGAACGAAACTTC
TCGCTAAGACCATCGGGCAACTCAGCATACGACTCAACTCTTACCGAGGCGGATCGTATC
Found at i:101728196 original size:76 final size:77
Alignment explanation
Indices: 101728086--101728255 Score: 261
Period size: 80 Copynumber: 2.2 Consensus size: 77
101728076 GGCACCCACA
101728086 TCAAGGCCCACTTGCAAGGTTAAAGAAAGGGTGAGTTTGGAAACTCA-GTAAGGAAACCCATCCA
1 TCAA-GCCCA-TTGCAAGGTTAAAGAAAGGGTGAGTTTGGAAACTCAGGTAAGGAAACCCATCCA
101728150 AAGCCCAACTCAGC
64 AAGCCCAACTCAGC
* *
101728164 TCAAGCCCATTGCAAGGTTAAAGAAGGGGTGAGTTTGGAAACTCAGTGTGTAAGGAAACCTATCC
1 TCAAGCCCATTGCAAGGTTAAAGAAAGGGTGAGTTTGGAAACTCA--G-GTAAGGAAACCCATCC
*
101728229 AAAGCCCAAGTCAGC
63 AAAGCCCAACTCAGC
101728244 TCAAGCCCATTG
1 TCAAGCCCATTG
101728256 GGCCTAAACC
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
76 35 0.41
77 5 0.06
78 4 0.05
80 41 0.48
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (77 bp):
TCAAGCCCATTGCAAGGTTAAAGAAAGGGTGAGTTTGGAAACTCAGGTAAGGAAACCCATCCAAA
GCCCAACTCAGC
Found at i:101728306 original size:33 final size:35
Alignment explanation
Indices: 101728268--101728347 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
101728258 CCTAAACCCG
*
101728268 TTCAGATAACAGTGATACTGGGCCA-GAG-CCCTT-
1 TTCAGATAACAGTGAAACTGGG-CATGAGCCCCTTA
* * *
101728301 TTCAGATTACA-TTAAACTGGGCATTAGCCCCTTA
1 TTCAGATAACAGTGAAACTGGGCATGAGCCCCTTA
101728335 TTCAGATAACAGT
1 TTCAGATAACAGT
101728348 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.05
32 10 0.26
33 15 0.39
34 10 0.26
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (35 bp):
TTCAGATAACAGTGAAACTGGGCATGAGCCCCTTA
Found at i:101735529 original size:15 final size:15
Alignment explanation
Indices: 101735509--101735538 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101735499 TTATCCGACA
101735509 TGCCACATTGAAGTT
1 TGCCACATTGAAGTT
101735524 TGCCACATTGAAGTT
1 TGCCACATTGAAGTT
101735539 AAAAACCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
TGCCACATTGAAGTT
Found at i:101738746 original size:5 final size:5
Alignment explanation
Indices: 101738736--101738792 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
101738726 AAGAGAAAAC
*
101738736 AAAGA AAAGA AAAGA AGAAGCA AAAGA AGAG- AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAGA A-AAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
101738783 AAAGA AAAGA
1 AAAGA AAAGA
101738793 GCAGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 27 0.61
6 10 0.23
7 3 0.07
ACGTcount: A:0.74, C:0.04, G:0.21, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:101738907 original size:30 final size:29
Alignment explanation
Indices: 101738873--101738953 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
101738863 TTTGGAAAAC
*
101738873 AAAAAGGAAATGAAAAAGAAAATGAGATTG
1 AAAAA-GAAATGAAAAAGAAAATGAGAGTG
***
101738903 AAAAAGAGAATGAAAAAGAGTTTGAGAGTG
1 AAAAAGA-AATGAAAAAGAAAATGAGAGTG
*
101738933 AAAAAGAAGGTGAAAAAGAAA
1 AAAAAGAA-ATGAAAAAGAAA
101738954 TTGAAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.07
30 39 0.93
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (29 bp):
AAAAAGAAATGAAAAAGAAAATGAGAGTG
Found at i:101741550 original size:13 final size:13
Alignment explanation
Indices: 101741532--101741556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101741522 GTATTGATCA
101741532 TGTGTTCACACCT
1 TGTGTTCACACCT
101741545 TGTGTTCACACC
1 TGTGTTCACACC
101741557 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:101747334 original size:11 final size:10
Alignment explanation
Indices: 101747309--101747369 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
101747299 ACCAATAAAA
101747309 TAAA-TGAGC
1 TAAATTGAGC
*
101747318 TGAATTGTAGC
1 TAAATTG-AGC
101747329 TAAATTGAGC
1 TAAATTGAGC
**
101747339 TCGATTGAGC
1 TAAATTGAGC
101747349 TGAAA-TGAGC
1 T-AAATTGAGC
*
101747359 TCAATTGAGC
1 TAAATTGAGC
101747369 T
1 T
101747370 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:101747370 original size:20 final size:20
Alignment explanation
Indices: 101747310--101747370 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
101747300 CCAATAAAAT
*
101747310 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
101747330 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
101747351 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
101747371 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:101748940 original size:21 final size:20
Alignment explanation
Indices: 101748912--101748952 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
101748902 CCCTGCCAGA
*
101748912 TGCCCCACGCCCATGGCCAT
1 TGCCCCACGACCATGGCCAT
*
101748932 TGCCACCACGACCTTGGCCAT
1 TGCC-CCACGACCATGGCCAT
101748953 GACCTCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.17
Consensus pattern (20 bp):
TGCCCCACGACCATGGCCAT
Found at i:101753530 original size:13 final size:13
Alignment explanation
Indices: 101753512--101753536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101753502 GTATTGATCA
101753512 TGTGTTCACACCT
1 TGTGTTCACACCT
101753525 TGTGTTCACACC
1 TGTGTTCACACC
101753537 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:101759900 original size:12 final size:12
Alignment explanation
Indices: 101759872--101759900 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
101759862 TATACCTATA
101759872 TGGTAGAATTTT
1 TGGTAGAATTTT
101759884 T-GTAGAATTTT
1 TGGTAGAATTTT
101759895 TGGTAG
1 TGGTAG
101759901 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:101765259 original size:42 final size:42
Alignment explanation
Indices: 101765199--101765531 Score: 301
Period size: 42 Copynumber: 7.8 Consensus size: 42
101765189 GGGTTATGTA
* *
101765199 TGATTTCGTGTAAAACCATATCTGGGATATGACATCGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * *
101765241 TGATTTTGTGTAAGACCATGTCTAGGATATGGCATTGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
*
101765283 TGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
** *
101765325 TGATTTTTTGTAAGACCATATCTAGGATATGGCATCGATATT
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * * **
101765367 TGATTTCATGTAAGACCATGTCTGAGACATGACATCGATACG
1 TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
* * * * * * **
101765409 AGATATT-GTTTAAAACCATAGCTGGGCTATCGACATCGATACG
1 TGAT-TTCGTGTAAGACCATATCTGGGATAT-GGCATCGATATT
* * *
101765452 AGATATCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATAT
1 TGATTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGATAT-T
** * * *
101765496 GTGATCCCATATAAGACCATATCTGGAATATGGCAT
1 -TGATTTCGTGTAAGACCATATCTGGGATATGGCAT
101765532 TGACATCTTA
Statistics
Matches: 240, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
42 167 0.70
43 45 0.19
44 8 0.03
45 20 0.08
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATT
Found at i:101765448 original size:43 final size:43
Alignment explanation
Indices: 101765397--101765492 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
101765387 TCTGAGACAT
* *
101765397 GACATCGATACGAGATATTGTTTAAAACCATAGCTGGGCTATC
1 GACATCGATACGAGATATCGTGTAAAACCATAGCTGGGCTATC
* * *
101765440 GACATCGATACGAGATATCGTGTAAGACCATAGTTGGGCTATT
1 GACATCGATACGAGATATCGTGTAAAACCATAGCTGGGCTATC
*
101765483 GGCATCGATA
1 GACATCGATA
101765493 TATGTGATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
GACATCGATACGAGATATCGTGTAAAACCATAGCTGGGCTATC
Found at i:101769555 original size:11 final size:13
Alignment explanation
Indices: 101769526--101769558 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
101769516 GGGACATGCC
101769526 TGTGTGGGCAAGT
1 TGTGTGGGCAAGT
101769539 TGTGTGGGCAAGT
1 TGTGTGGGCAAGT
101769552 TGTGTGG
1 TGTGTGG
101769559 TCGCACACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.48, T:0.33
Consensus pattern (13 bp):
TGTGTGGGCAAGT
Found at i:101772356 original size:93 final size:93
Alignment explanation
Indices: 101772197--101772366 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
101772187 CCCATAAGCT
* *
101772197 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
101772262 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
101772290 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
101772355 GAGTTCGGATGC
66 GAGTTCGGATGC
101772367 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:101772363 original size:46 final size:46
Alignment explanation
Indices: 101772188--101772363 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
101772178 TGTAACCCGC
* * *
101772188 CCATAAGCT-AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
101772234 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
101772284 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
101772327 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
101772364 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:101779494 original size:47 final size:47
Alignment explanation
Indices: 101779416--101779678 Score: 400
Period size: 47 Copynumber: 5.6 Consensus size: 47
101779406 CCCTTCGGGA
* * * * * *
101779416 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
101779463 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
101779510 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
101779557 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
101779606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
101779653 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
101779679 CACAATTATC
Statistics
Matches: 198, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 152 0.77
49 46 0.23
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:101779613 original size:96 final size:96
Alignment explanation
Indices: 101779416--101779678 Score: 408
Period size: 96 Copynumber: 2.8 Consensus size: 96
101779406 CCCTTCGGGA
* * * * * * * *
101779416 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
101779479 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
101779510 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
101779575 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
101779606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
101779671 A--TTCACAT
66 ACTTTCACAT
101779679 CACAATTATC
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
94 53 0.34
96 103 0.66
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:101779714 original size:143 final size:141
Alignment explanation
Indices: 101779418--101779678 Score: 396
Period size: 143 Copynumber: 1.8 Consensus size: 141
101779408 CTTCGGGACT
* * * *
101779418 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTT
* *
101779483 TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACATTCATCACATCAG
*
101779548 CCATTAGGCCT
131 CCATTAGGCCA
* * *
101779559 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
1 TATCAC--ATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
* *
101779624 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
64 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACAT
101779679 CACAATTATC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
141 6 0.06
143 102 0.94
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (141 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACATTCACATTCATCACATCAG
CCATTAGGCCA
Found at i:101784487 original size:46 final size:46
Alignment explanation
Indices: 101784386--101784473 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
101784376 TGTAACCCGC
* * * *
101784386 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACGCTCCCAT
* * *
101784432 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACGCTC
101784474 AACCATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGACGCTCCCAT
Found at i:101791969 original size:17 final size:17
Alignment explanation
Indices: 101791944--101791983 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
101791934 CATCAGGTGG
101791944 CACACGGTCGTGTGTCA
1 CACACGGTCGTGTGTCA
* *
101791961 CACATGGTCGTGTTTCA
1 CACACGGTCGTGTGTCA
101791978 CACACG
1 CACACG
101791984 ACTGGGACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (17 bp):
CACACGGTCGTGTGTCA
Found at i:101793076 original size:21 final size:23
Alignment explanation
Indices: 101793050--101793100 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
101793040 TTTCCAATAC
101793050 CAAATCAT-AGTTGAATCA-TTT
1 CAAATCATCAGTTGAATCATTTT
*
101793071 CAAATC-TCTGTTGAATCATTTT
1 CAAATCATCAGTTGAATCATTTT
*
101793093 CGAATCAT
1 CAAATCAT
101793101 GGTCGAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 15 0.60
22 8 0.32
23 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (23 bp):
CAAATCATCAGTTGAATCATTTT
Found at i:101795367 original size:43 final size:43
Alignment explanation
Indices: 101795316--101795407 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
101795306 AGCTACATAT
*
101795316 ACATATATTAATTAGGTGGCCGAATATACCTAGACATATATGC
1 ACATATATTAATTAGGTGGCCGAATATACCTAAACATATATGC
* *
101795359 ACATATATTAGTTAGGTGGCCGAATCTACCTAAACATATATGC
1 ACATATATTAATTAGGTGGCCGAATATACCTAAACATATATGC
101795402 ACATAT
1 ACATAT
101795408 TAAGAATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (43 bp):
ACATATATTAATTAGGTGGCCGAATATACCTAAACATATATGC
Found at i:101795750 original size:43 final size:43
Alignment explanation
Indices: 101795651--101795751 Score: 98
Period size: 43 Copynumber: 2.3 Consensus size: 43
101795641 CTCGGATAAT
101795651 CACACATATCATACAATGCCAATGTCCCAGACGTGGTCTTACATG
1 CACACATAT-AT-CAATGCCAATGTCCCAGACGTGGTCTTACATG
* ** * * *
101795696 TAGTCACATATCGATGCCACTGTCCCAGACAG-GGTCTTAC-TCG
1 CACACATATATCAATGCCAATGTCCCAGAC-GTGGTCTTACAT-G
101795739 CACACATATATCA
1 CACACATATATCA
101795752 GACTCACATA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.02
43 34 0.79
44 3 0.07
45 5 0.12
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
CACACATATATCAATGCCAATGTCCCAGACGTGGTCTTACATG
Found at i:101796316 original size:30 final size:29
Alignment explanation
Indices: 101796282--101796345 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
101796272 TGTTCATACA
*
101796282 AGTCCAT-ATATT-TTATTTATTTCACATTTT
1 AGTCCATCAAATTATTATTT-TTTCA-A-TTT
*
101796312 AGTCCCTCAAATTATTATTTTTTCAATTT
1 AGTCCATCAAATTATTATTTTTTCAATTT
101796341 AGTCC
1 AGTCC
101796346 TAATTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 9 0.30
32 6 0.20
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (29 bp):
AGTCCATCAAATTATTATTTTTTCAATTT
Found at i:101807141 original size:19 final size:19
Alignment explanation
Indices: 101807117--101807154 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101807107 GAGGGTAGAG
101807117 TTGTAACATCCTGATTTTC
1 TTGTAACATCCTGATTTTC
101807136 TTGTAACATCCTGATTTTC
1 TTGTAACATCCTGATTTTC
101807155 GGATTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TTGTAACATCCTGATTTTC
Found at i:101808485 original size:14 final size:14
Alignment explanation
Indices: 101808466--101808493 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101808456 TAGGACATCG
101808466 GAAGAGATCTCAGT
1 GAAGAGATCTCAGT
101808480 GAAGAGATCTCAGT
1 GAAGAGATCTCAGT
101808494 AGCAGTCGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (14 bp):
GAAGAGATCTCAGT
Found at i:101809521 original size:24 final size:24
Alignment explanation
Indices: 101809493--101809560 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
101809483 ATTTGGATTG
101809493 TTTTTATTATGCTTAAAGTTGTAA
1 TTTTTATTATGCTTAAAGTTGTAA
101809517 TTTTTATTATGCTTAAAGTTGTAA
1 TTTTTATTATGCTTAAAGTTGTAA
101809541 -----ATTATGCTTAAAGTTGTAA
1 TTTTTATTATGCTTAAAGTTGTAA
101809560 T
1 T
101809561 AAGGCCGCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
19 19 0.44
24 24 0.56
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (24 bp):
TTTTTATTATGCTTAAAGTTGTAA
Found at i:101811505 original size:21 final size:22
Alignment explanation
Indices: 101811479--101811536 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
101811469 GGTCTAATAC
101811479 CAAATCATAGTCGAATCA-TTT
1 CAAATCATAGTCGAATCATTTT
**
101811500 CAAATCACCGTCGAATCATTTT
1 CAAATCATAGTCGAATCATTTT
* *
101811522 CGAATCATGGTCGAA
1 CAAATCATAGTCGAA
101811537 CAAGTTCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (22 bp):
CAAATCATAGTCGAATCATTTT
Found at i:101817884 original size:21 final size:20
Alignment explanation
Indices: 101817843--101817887 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
101817833 AGCACAGATA
*
101817843 TTCATAAATTTTTAGAATTT
1 TTCATAAATTTTTACAATTT
*
101817863 TTCATCAAA-TTTTACAACTT
1 TTCAT-AAATTTTTACAATTT
101817883 TTCAT
1 TTCAT
101817888 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAATTTTTACAATTT
Found at i:101818968 original size:32 final size:32
Alignment explanation
Indices: 101818927--101818993 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
101818917 GATCATAAGT
**
101818927 TTTGTGTACATACCTATACCATCTCGTAATAA
1 TTTGTGTACATACCTATACCATCTCACAATAA
101818959 TTTGTGTACATACCTATACCATCTCACAATAA
1 TTTGTGTACATACCTATACCATCTCACAATAA
101818991 TTT
1 TTT
101818994 CATACTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (32 bp):
TTTGTGTACATACCTATACCATCTCACAATAA
Found at i:101824662 original size:24 final size:24
Alignment explanation
Indices: 101824635--101824735 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
101824625 AAGGCTGTCA
*
101824635 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
101824659 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
101824683 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
101824707 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
101824731 GGAGA
1 GGAGA
101824736 ATGGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.34, C:0.04, G:0.43, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:101826031 original size:27 final size:26
Alignment explanation
Indices: 101825988--101826047 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
101825978 AAGAATAGTT
*
101825988 AAATTACTTGAATACCCCTATGTATG-A
1 AAATTACTTGAACACCCCTA-G-ATGTA
*
101826015 AAATTAC-TGATACACCCTTAGATGTA
1 AAATTACTTGA-ACACCCCTAGATGTA
101826041 AAATTAC
1 AAATTAC
101826048 CATTATACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 3 0.10
26 12 0.41
27 14 0.48
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACTTGAACACCCCTAGATGTA
Found at i:101826264 original size:54 final size:53
Alignment explanation
Indices: 101826166--101826276 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
101826156 AGGAAGAGTC
*
101826166 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACAT-TATCTATT
* * * **
101826220 CTGGTGGCTCTGCCACGATTATCT-ATTCTGGT-GACTTTGTCACATTATCTATT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGGA-TCTACCACATTATCTATT
101826273 CTGG
1 CTGG
101826277 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 14 0.29
54 35 0.71
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTACCACATTATCTATT
Found at i:101826270 original size:26 final size:26
Alignment explanation
Indices: 101826166--101826276 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
101826156 AGGAAGAGTC
* *
101826166 CTGGTGGCTATGCCACAATTATCTGA-T
1 CTGGTGACTCTGCCAC-ATTATCT-ATT
* *
101826193 CTGGTGGA-TCTACCACATATATCTGTT
1 CTGGT-GACTCTGCCACAT-TATCTATT
*
101826220 CTGGTGGCTCTGCCACGATTATCTATT
1 CTGGTGACTCTGCCAC-ATTATCTATT
* *
101826247 CTGGTGACTTTGTCACATTATCTATT
1 CTGGTGACTCTGCCACATTATCTATT
101826273 CTGG
1 CTGG
101826277 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
26 17 0.25
27 49 0.71
28 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTATT
Found at i:101831094 original size:40 final size:40
Alignment explanation
Indices: 101831034--101831217 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
101831024 TATTCGAATG
* *
101831034 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTAACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
101831074 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGACT
* * *
101831114 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
101831154 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
101831194 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
101831218 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.02
40 120 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:101831167 original size:80 final size:80
Alignment explanation
Indices: 101831034--101831217 Score: 248
Period size: 80 Copynumber: 2.3 Consensus size: 80
101831024 TATTCGAATG
* * *
101831034 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTAACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAG-TCCCGAAGGC
* *
101831098 ATTTGTG-TGAGTTG-CT
65 ATTTATGCT-AG-TGACC
* * *
101831114 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCGAAGGCA
101831179 TTTATGCTAGTGACC
66 TTTATGCTAGTGACC
101831194 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
101831218 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
79 3 0.03
80 89 0.96
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCTAGTGACC
Found at i:101831520 original size:22 final size:22
Alignment explanation
Indices: 101831478--101831521 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
101831468 AAAATGTGCA
* *
101831478 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
101831500 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
101831522 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:101837145 original size:40 final size:40
Alignment explanation
Indices: 101837090--101837171 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
101837080 GACGTTATAG
101837090 ATCTGATCCATCGCACATAATTAATCCATCAGAGGTTGAA
1 ATCTGATCCATCGCACATAATTAATCCATCAGAGGTTGAA
*
101837130 ATCTGATCTATCGCACATAATTAATCCATCAGAGGTTGAA
1 ATCTGATCCATCGCACATAATTAATCCATCAGAGGTTGAA
101837170 AT
1 AT
101837172 TCAACCCGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (40 bp):
ATCTGATCCATCGCACATAATTAATCCATCAGAGGTTGAA
Found at i:101839408 original size:40 final size:40
Alignment explanation
Indices: 101839346--101839529 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
101839336 TATTCGAATG
* *
101839346 ATATCCGGGCTAAG-TCCAGAAGGCTTTTATGCTAGTAACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
* * * *
101839386 ATATCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
101839426 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
101839466 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
101839506 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
101839530 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:101840032 original size:137 final size:137
Alignment explanation
Indices: 101839785--101840071 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
101839775 CGTTACACTC
101839785 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
101839850 AGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 AGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
101839915 ACTGTTA
131 ACTGTTA
101839922 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
101839987 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 AGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
101840052 ACTGTTA
131 ACTGTTA
*
101840059 CCTAAATGGGCTT
1 CCCAAATGGGCTT
101840072 AGGCCCAACA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
AGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:101846932 original size:8 final size:7
Alignment explanation
Indices: 101846904--101846930 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
101846894 AAACATCAAT
101846904 TTTTTTA
1 TTTTTTA
101846911 TTTTTTA
1 TTTTTTA
101846918 TTTTTTA
1 TTTTTTA
101846925 TTTTTT
1 TTTTTT
101846931 TACCAAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:101848653 original size:56 final size:56
Alignment explanation
Indices: 101848593--101848774 Score: 285
Period size: 56 Copynumber: 3.2 Consensus size: 56
101848583 GGTTTTATTG
* * *
101848593 GCACACATAGAAT-GGAATCACATATCGATGCCAACGTTTTAAACTTGGTCTTACTT
1 GCACACATA-TATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
* * * *
101848649 GCACACATATATCAGAATCACATATCGATGCAAATGTATTAAACGTGGTCTTACTC
1 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
101848705 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
1 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
101848761 GCACACATATATCG
1 GCACACATATATCG
101848775 ATGCCATGGT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
55 2 0.02
56 112 0.98
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
Found at i:101852185 original size:141 final size:145
Alignment explanation
Indices: 101851950--101852218 Score: 304
Period size: 142 Copynumber: 1.9 Consensus size: 145
101851940 ATTGAGGTGA
* * *
101851950 GAGCTAGTGTAAGACATGTTTGGGACATGCGTCAGCCTCGGGATATACAAGCTAGTGTAAGACCT
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCT
* * * * * *
101852015 GTCTAGGACAGGGCGTCAGCTTGTTATGTG-T-C-AGTGTAAGA-CTTGTTTGGGACATGGCATC
66 GTCTAGGACACGACATCAGCTTGTAATGTGCTACTAGTGTAAGACCATGTCTGGGACATGGCATC
101852076 GACACTGATAGATGG
131 GACACTGATAGATGG
* * *
101852091 GAGCCAGTGTAAGACCTGTTTGGGACATAGCATTAGCCTCGATATATGA-AAG-TAAGTGTAAGA
1 GAGCCAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGAGATAT-ACAAGCT-AGTGTAAGA
*
101852154 CCTG-CTTGGGACACGACATCTA-CTT-TAATGTGCTAGCTAGTGTAAGACCATGTCTGGGACAT
63 CCTGTC-TAGGACACGACATC-AGCTTGTAATGTGCTA-CTAGTGTAAGACCATGTCTGGGACAT
101852216 GGC
125 GGC
101852219 GTCAGCATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
141 34 0.32
142 44 0.42
143 2 0.02
144 1 0.01
145 9 0.09
146 15 0.14
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (145 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCT
GTCTAGGACACGACATCAGCTTGTAATGTGCTACTAGTGTAAGACCATGTCTGGGACATGGCATC
GACACTGATAGATGG
Found at i:101857048 original size:20 final size:21
Alignment explanation
Indices: 101857009--101857048 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101856999 GTCATAATGG
*
101857009 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
101857030 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
101857049 GCTTTAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:101860845 original size:56 final size:56
Alignment explanation
Indices: 101860785--101860976 Score: 266
Period size: 56 Copynumber: 3.4 Consensus size: 56
101860775 TCCCAAATAG
*
101860785 GGTCTTACTTGCACACATAGAAT-GGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTTGCACACATA-AATCGGAATCACATATCGATGCCAACGTATTAAACGT
101860841 GGTCTTAC-T-CACACATATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTTGCACACATA-A-ATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
101860897 GGTCTTA-TTCGCACACATATATCAGAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTT-GCACACATAAATCGGAATCACATATCGATGCCAACGTATTAAACGT
* *
101860953 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTTGCACACATAAATCG
101860977 ATGCCAACGT
Statistics
Matches: 123, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
54 9 0.07
55 3 0.02
56 102 0.83
57 1 0.01
58 8 0.07
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTTGCACACATAAATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:101860981 original size:43 final size:43
Alignment explanation
Indices: 101860928--101861025 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
101860918 TCAGAATCAC
* * *
101860928 ATATCAATGCCAACGTATTAAACGTGGTCTTACTCGCACACAT
1 ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
*
101860971 ATATCGATGCCAACGTATTAAATGTGGTCTCACTCACACACAT
1 ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
*
101861014 ATAACGATGCCA
1 ATATCGATGCCA
101861026 TGGTCTTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
Found at i:101863897 original size:40 final size:40
Alignment explanation
Indices: 101863839--101864030 Score: 273
Period size: 40 Copynumber: 4.8 Consensus size: 40
101863829 CGGATGATAA
* *
101863839 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
101863879 CCGGGCTAAGTCCTGAAGGCA-TTGTTGCGAGTTACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAT
101863918 CCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
101863959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
101863999 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
101864031 AGCTGTATCC
Statistics
Matches: 138, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.93
41 5 0.04
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:101880500 original size:39 final size:40
Alignment explanation
Indices: 101880455--101880626 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
101880445 GCTCCTCGTT
* * *
101880455 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
101880495 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
101880534 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
101880574 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
101880614 CAAATGCCTTCGG
1 CAAATGCCTTCGG
101880627 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:101880555 original size:40 final size:39
Alignment explanation
Indices: 101880457--101880679 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
101880447 TCCTCGTTCA
* * * *
101880457 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
101880496 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
101880535 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
101880575 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
101880615 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
101880656 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
101880680 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:101880639 original size:80 final size:79
Alignment explanation
Indices: 101880455--101880679 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
101880445 GCTCCTCGTT
* * * * *
101880455 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
101880519 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
101880534 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
101880599 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
101880614 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
101880678 GA
63 GA
101880680 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:101880688 original size:41 final size:41
Alignment explanation
Indices: 101880611--101880688 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
101880601 TTTGTATCTC
* * *
101880611 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
101880652 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
101880689 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:101890818 original size:27 final size:27
Alignment explanation
Indices: 101890788--101890966 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
101890778 ATATTGAGTC
* * * *
101890788 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
101890815 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
101890842 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
101890870 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
101890897 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
101890924 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
101890951 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
101890967 TACAATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:101890927 original size:82 final size:81
Alignment explanation
Indices: 101890809--101890964 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
101890799 TGCTATATAA
* *
101890809 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
101890874 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
101890891 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
101890955 CACTTAGTGC
65 CACTTAGTGC
101890965 TATACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:101894175 original size:23 final size:23
Alignment explanation
Indices: 101894149--101894196 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
101894139 AAGAGATTAA
101894149 ATGGAGATCTTCGATCTTGAGGG
1 ATGGAGATCTTCGATCTTGAGGG
101894172 ATGGAGATCTTCGATCTTGAGGG
1 ATGGAGATCTTCGATCTTGAGGG
101894195 AT
1 AT
101894197 ATCCGCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (23 bp):
ATGGAGATCTTCGATCTTGAGGG
Found at i:101909959 original size:6 final size:6
Alignment explanation
Indices: 101909948--101910219 Score: 260
Period size: 6 Copynumber: 44.8 Consensus size: 6
101909938 AACCAAAATG
*
101909948 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
101909996 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
101910045 AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* *
101910093 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
*
101910142 AGAATC AGAATC AGAATC AGAATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
101910190 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
101910220 GTGAATGCAA
Statistics
Matches: 223, Mismatches: 18, Indels: 50
0.77 0.06 0.17
Matches are distributed among these distances:
5 17 0.08
6 185 0.83
7 16 0.07
8 5 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:101909963 original size:30 final size:30
Alignment explanation
Indices: 101909948--101910219 Score: 365
Period size: 30 Copynumber: 9.4 Consensus size: 30
101909938 AACCAAAATG
*
101909948 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
101909978 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
101910008 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
101910033 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
101910063 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
101910093 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
101910118 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
101910148 AGAATCAGAATCAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
101910178 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
101910209 AGAATCAGAAT
1 AGAATCAGAAT
101910220 GTGAATGCAA
Statistics
Matches: 217, Mismatches: 6, Indels: 37
0.83 0.02 0.14
Matches are distributed among these distances:
24 4 0.02
25 38 0.18
26 2 0.01
27 2 0.01
28 2 0.01
29 4 0.02
30 138 0.64
31 27 0.12
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:101910048 original size:85 final size:85
Alignment explanation
Indices: 101909948--101910219 Score: 519
Period size: 85 Copynumber: 3.2 Consensus size: 85
101909938 AACCAAAATG
101909948 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
101910013 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
101910033 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
101910098 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
101910118 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGA-ATTAGTAACAGAATCAGAA
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCA-ATATTAGTAACAGAATCAGAA
*
101910182 TCAGAATCAGAATTACGTGAC
65 TCAGAATCAGAATTAGGTGAC
101910203 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
101910220 GTGAATGCAA
Statistics
Matches: 185, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
85 184 0.99
86 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:101910554 original size:9 final size:9
Alignment explanation
Indices: 101910540--101910581 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
101910530 GAAATATATA
101910540 ATTTTTTTT
1 ATTTTTTTT
101910549 ATTTTTTTT
1 ATTTTTTTT
101910558 ATTTTCCTTTT
1 ATTTT--TTTT
*
101910569 -TTTTTCTT
1 ATTTTTTTT
101910577 ATTTT
1 ATTTT
101910582 CTCAATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 3 0.10
9 18 0.62
10 4 0.14
11 4 0.14
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:101914020 original size:3 final size:3
Alignment explanation
Indices: 101914012--101914036 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
101914002 TTGCTTTTCA
101914012 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
101914037 CACTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:101922140 original size:27 final size:27
Alignment explanation
Indices: 101922110--101922519 Score: 490
Period size: 27 Copynumber: 15.2 Consensus size: 27
101922100 GTAATTTCAC
* * *
101922110 AATCAAGGGCAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
101922137 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
***
101922164 AA-CTGAGGGTAAACCCGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* * **
101922191 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
101922218 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
101922245 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
101922272 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
**
101922299 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
101922326 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
101922353 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
101922380 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
**
101922407 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
101922434 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
101922461 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
101922488 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
101922515 AATCG
1 AATCG
101922520 GGAGTACTTT
Statistics
Matches: 328, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.02
27 316 0.96
28 6 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:101922266 original size:108 final size:108
Alignment explanation
Indices: 101922098--101922550 Score: 605
Period size: 108 Copynumber: 4.2 Consensus size: 108
101922088 AGGGGTATTT
* * * * *
101922098 TAGTAATTTCAC-AATCAAGGGCAAAACGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTTT
1 TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCT
* * *
101922161 GTAAACTGAGGGTAAACCCGTAATTCTGTAAATCAAGGGTAAAA
65 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
101922205 TGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
1 TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
*
101922270 TAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
66 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* *
101922313 TAATAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTC
1 TAGTAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTC
*
101922376 TGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
64 TGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* *
101922421 TAATAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTC
1 TAGTAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTC
* * ***
101922484 TATAAACTGAGGGTAAAACGGTAATTTTGTAAATCG-GGAGTACTT
64 TGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAA
* *
101922529 TGGTAATTTTACAAGTCGAGGG
1 TAGTAATTTTACAAATCGAGGG
101922551 CATTTCAGTA
Statistics
Matches: 317, Mismatches: 22, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
106 2 0.01
107 16 0.05
108 292 0.92
109 5 0.02
110 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (108 bp):
TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:101922550 original size:54 final size:54
Alignment explanation
Indices: 101922115--101922519 Score: 636
Period size: 54 Copynumber: 7.5 Consensus size: 54
101922105 TTCACAATCA
* * *
101922115 AGGGCAAAACGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTGTAAACTG
* * * * *
101922169 AGGGTAAACCCGTAATTCTGTAAATCAAGGGTAAAATGGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA-AACT-G
101922223 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
* *
101922277 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
101922331 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
* *
101922385 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
*
101922439 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
*
101922493 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
101922520 GGAGTACTTT
Statistics
Matches: 325, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
52 2 0.01
53 4 0.01
54 312 0.96
55 5 0.02
56 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
Found at i:101928942 original size:25 final size:25
Alignment explanation
Indices: 101928900--101928948 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
101928890 CTTTATTATT
* *
101928900 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
101928925 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
101928949 GGTCATCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:101931611 original size:36 final size:36
Alignment explanation
Indices: 101931571--101931642 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
101931561 TGTATGGTTG
*
101931571 TTAATTTAAATTTTTTAATTGATAAATGAGATTGAA
1 TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
101931607 TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
1 TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
101931643 ATGATTGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (36 bp):
TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
Found at i:101931641 original size:18 final size:18
Alignment explanation
Indices: 101931587--101931647 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
101931577 TAAATTTTTT
101931587 AATTGATAAATGAGATTG
1 AATTGATAAATGAGATTG
* **
101931605 AATTAATTTAAAT--TTTTG
1 AATTGA--TAAATGAGATTG
101931623 AATTGATAAATGAGATTG
1 AATTGATAAATGAGATTG
*
101931641 AAATGAT
1 AATTGAT
101931648 TGAGGTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 5 0.16
18 22 0.69
20 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
AATTGATAAATGAGATTG
Found at i:101933566 original size:25 final size:25
Alignment explanation
Indices: 101933527--101933583 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
101933517 GTAAGGAGGG
101933527 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
101933551 GATAAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
101933576 GATCAAGG
1 GAT-AAGG
101933584 AGCAAGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.39, T:0.19
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:101935025 original size:27 final size:27
Alignment explanation
Indices: 101934983--101935093 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
101934973 AGGAAGTGTC
*
101934983 CTGGTGGCTATGCCACATATATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
101935010 CTGGTGGCTCTACCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATATATCTGA-T
* *
101935037 CTGGTGGCTCTGCCATA-ATTATCTGTT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* * * *
101935064 CTGGTGACTTTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
101935090 CTGG
1 CTGG
101935094 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 14 0.20
27 57 0.80
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:101935081 original size:54 final size:53
Alignment explanation
Indices: 101934983--101935093 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 53
101934973 AGGAAGTGTC
* *
101934983 CTGGTGGCTATGCCACATATATCTGATCTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTATGCCAAATATATCTGATCTGGTGACTCTACCACAT-TATCTATT
* * * ** *
101935037 CTGGTGGCTCTGCCATAAT-TATCTGTTCTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTATGCCA-AATATATCTGATCTGGTGACTCTACCACATTATCTATT
101935090 CTGG
1 CTGG
101935094 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
53 11 0.23
54 35 0.73
55 2 0.04
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCAAATATATCTGATCTGGTGACTCTACCACATTATCTATT
Found at i:101941435 original size:25 final size:26
Alignment explanation
Indices: 101941401--101941451 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
101941391 AGGGGATAAA
101941401 GGAGAAGATTTAGGAGCTGAT-AAGG
1 GGAGAAGATTTAGGAGCTGATCAAGG
101941426 GGAGAAGATTTAGGAGCTGATCAAGG
1 GGAGAAGATTTAGGAGCTGATCAAGG
101941452 AGCAAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.20
Consensus pattern (26 bp):
GGAGAAGATTTAGGAGCTGATCAAGG
Found at i:101941458 original size:25 final size:23
Alignment explanation
Indices: 101941399--101941458 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 23
101941389 GGAGGGGATA
101941399 AAGGAGAAGATTTAGGAGCTGAT
1 AAGGAGAAGATTTAGGAGCTGAT
101941422 AAGGGGAGAAGATTTAGGAGCTGAT
1 AA--GGAGAAGATTTAGGAGCTGAT
101941447 CAAGGAGCAAGA
1 -AAGGAG-AAGA
101941459 GTTGGTCGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 25 0.76
26 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.37, T:0.17
Consensus pattern (23 bp):
AAGGAGAAGATTTAGGAGCTGAT
Found at i:101942893 original size:27 final size:27
Alignment explanation
Indices: 101942854--101942963 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
101942844 GGAAGCGTCT
* * * *
101942854 TGGTGGCTATGCCACATTTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
101942881 TGGTGGCTCTGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
101942908 TGGTGGCTTTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
* * *
101942935 TAGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
101942961 TGG
1 TGG
101942964 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 13 0.18
27 58 0.82
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGTTC
Found at i:101945378 original size:26 final size:26
Alignment explanation
Indices: 101945329--101945378 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
101945319 CACTTACTGC
* *
101945329 TACTGGCAGCTACGCTGCGTTATTAT
1 TACTGGCAGCTACGCTACGATATTAT
**
101945355 TACTGGCAGCTTTGCTACGATATT
1 TACTGGCAGCTACGCTACGATATT
101945379 GGTGTACTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTACGCTACGATATTAT
Found at i:101947302 original size:78 final size:78
Alignment explanation
Indices: 101947173--101947484 Score: 615
Period size: 78 Copynumber: 4.0 Consensus size: 78
101947163 ATCAAGCTAC
*
101947173 CATGTTGGATAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
101947238 TATGTGTCATTAT
66 TATGTGTCATTAT
101947251 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
101947316 TATGTGTCATTAT
66 TATGTGTCATTAT
101947329 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
101947394 TATGTGTCATTAT
66 TATGTGTCATTAT
101947407 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
101947472 TATGTGTCATTAT
66 TATGTGTCATTAT
101947485 GATATGGCCA
Statistics
Matches: 233, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 233 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (78 bp):
CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
TATGTGTCATTAT
Found at i:101965312 original size:38 final size:38
Alignment explanation
Indices: 101965270--101965363 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 38
101965260 TTAAAGACCT
*
101965270 GCAGGCTTCGTGCTGGTAAAATATCCA-GGTTAAATCCC
1 GCAGGCTTCGTGCTGGTAAAATAT-CAGGGATAAATCCC
**
101965308 GCAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCC
1 GCAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCC
* * *
101965346 GTAGGCCTAGTGCTGGTA
1 GCAGGCTTCGTGCTGGTA
101965364 TTATATTCGG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
37 2 0.04
38 47 0.96
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCC
Found at i:101965723 original size:171 final size:169
Alignment explanation
Indices: 101965367--101965817 Score: 676
Period size: 171 Copynumber: 2.6 Consensus size: 169
101965357 GCTGGTATTA
* * *
101965367 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTGTATTTAGGCCTTCGTGCCTAGC
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCC-GTGATGTGTATTCAGGCCTTCGTGCCTAGC
* *
101965432 AGGCTTCGTGCCGGCGATGTGTATTTAGGCCTTCGTGCCTAGA---TTCGTGCCGATGATGTATA
65 AGGCTTCGTGCCGG-TATGTGTATTTGGGCCTTCGTGCCTAGAGGCTTCGTGCCGATGATGTATA
101965494 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
129 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
*
101965535 TATT-TAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCAGGCCTTCGTGCCTAG
1 TATTCGA-GCCTTCGTGCCTAGCAGGCTTCGTGCC-GTGATGTGTATTCAGGCCTTCGTGCCTAG
* * * * *
101965599 CAGGCTTCGTGCTGGTATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGT
64 CAGGCTTCGTGCCGGTATGTGTATTTGGGCCTTCGTGCCTAG-AGGCTTCGTGCCGATGATGTAT
*
101965664 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
128 ATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
* *
101965706 TATTCGAGCCTTCGTGCCTAGCAGGCTTCCTGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCG-TGATGTGTATTCAGGCCTTCGTGCCTAGC
101965771 AGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGTAGGC
65 AGGCTTCGTGCCGGT-ATGTGTATTTGGGCCTTCGTGCCTAG-AGGC
101965818 GTAATGCCGG
Statistics
Matches: 255, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
167 23 0.09
168 73 0.29
170 1 0.00
171 129 0.51
172 29 0.11
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (169 bp):
TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGTGATGTGTATTCAGGCCTTCGTGCCTAGCA
GGCTTCGTGCCGGTATGTGTATTTGGGCCTTCGTGCCTAGAGGCTTCGTGCCGATGATGTATATT
CGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
Found at i:101965830 original size:43 final size:43
Alignment explanation
Indices: 101965367--101965817 Score: 687
Period size: 43 Copynumber: 10.6 Consensus size: 43
101965357 GCTGGTATTA
*
101965367 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** *
101965410 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** * *
101965453 TATTTAGGCCTTCGTGCCTAG-A---TTCGTGCCGATGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
101965492 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** *
101965535 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
101965578 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGT-ATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
101965620 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
101965663 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
101965706 TATTCGAGCCTTCGTGCCTAGCAGGCTTCCTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
101965749 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
101965792 TATTTGGGCCTTCGTGCCTAGTAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
101965818 GTAATGCCGG
Statistics
Matches: 374, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
39 33 0.09
40 1 0.00
42 40 0.11
43 300 0.80
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:101966125 original size:25 final size:25
Alignment explanation
Indices: 101966090--101966167 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
101966080 ATATACGTTC
101966090 GAATAATGTTAGTACTCAATTGATAT
1 GAAT-ATGTTAGTACTCAATTGATAT
*
101966116 GAATATGTTA-TA-T--A--GAAAAT
1 GAATATGTTAGTACTCAATTG-ATAT
101966136 G---ATGTTAGTACTCAATTGATAT
1 GAATATGTTAGTACTCAATTGATAT
101966158 GAATATGTTA
1 GAATATGTTA
101966168 TATGGAACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 21
0.63 0.03 0.33
Matches are distributed among these distances:
17 6 0.15
18 2 0.05
19 2 0.05
20 4 0.10
21 2 0.05
22 4 0.10
23 2 0.05
24 2 0.05
25 12 0.30
26 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (25 bp):
GAATATGTTAGTACTCAATTGATAT
Done.