Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 268 of 297
Found at i:91342835 original size:47 final size:45
Alignment explanation
Indices: 91342689--91342905 Score: 159
Period size: 47 Copynumber: 4.7 Consensus size: 45
91342679 TATACGTGCT
* * * * * **
91342689 GATGCATGTACCAGACATGTCTTACACTAGC-A-CAACTCTTAGAA
1 GATGCATATCCCAGACATGTCTTACACTGGCAATCATCTC-TGGCC
* * * * *
91342733 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCC
1 GATGCATATCCCAGACATGTCTTACACTGGCAATCATC-TC-TGGCC
* *
91342780 GATGCATATCCCAAACATGTCTTACACTGGCAATCGTCTCTGTGCC
1 GATGCATATCCCAGACATGTCTTACACTGGCAATCATCTCTG-GCC
* * * * * * *
91342826 GATGCCATATCCCAGGCATGGCATTATACTGACACTCATAATTTGGCC
1 GATG-CATATCCCAGACATGTC-TTACACTGGCAATCAT-CTCTGGCC
*
91342874 GATGCATGTCCCAGACATGTCTTACACTGGCA
1 GATGCATATCCCAGACATGTCTTACACTGGCA
91342906 CACAAGAAAT
Statistics
Matches: 135, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
44 27 0.20
45 2 0.01
46 21 0.16
47 63 0.47
48 19 0.14
49 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (45 bp):
GATGCATATCCCAGACATGTCTTACACTGGCAATCATCTCTGGCC
Found at i:91344934 original size:51 final size:51
Alignment explanation
Indices: 91344858--91344956 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
91344848 CTTGAAACTT
91344858 GAGAACACAACATCTCAACATGTCTTCTAAGATCTGTATCACTCTTTCAGA
1 GAGAACACAACATCTCAACATGTCTTCTAAGATCTGTATCACTCTTTCAGA
* *
91344909 GAGAACACAACATCTCAACATGTCTTCTAAGATCTGTATTATTCTTTC
1 GAGAACACAACATCTCAACATGTCTTCTAAGATCTGTATCACTCTTTC
91344957 CGACTGTCTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (51 bp):
GAGAACACAACATCTCAACATGTCTTCTAAGATCTGTATCACTCTTTCAGA
Found at i:91357213 original size:47 final size:46
Alignment explanation
Indices: 91357156--91357283 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
91357146 ATCGTCGAGG
* * *
91357156 CCGATGCATGTCCCAAACATGTCTTACACTGGCAGTCGT-CTCTGTC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCAGTCATAATCTG-C
* * * * *
91357202 CCGATGCCATGTCCCAGACATGGTCTTATACTGACATTCATAATTTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAGTCATAATCTGC
91357250 CCGATGCATGTCCCAGACATGTCTTACACTGGCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA
91357284 CACAAGGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 18 0.26
47 27 0.39
48 21 0.30
49 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCAGTCATAATCTGC
Found at i:91365445 original size:13 final size:13
Alignment explanation
Indices: 91365427--91365451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91365417 CCGAAACTAG
91365427 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
91365440 AAAGAAAAAAAA
1 AAAGAAAAAAAA
91365452 ATGCTCATCC
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:91366570 original size:29 final size:28
Alignment explanation
Indices: 91366534--91366608 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
91366524 TCATGAGATT
*
91366534 GGCACTAAGTGTACGGGTTTAAATTGTACA
1 GGCACTAAGTGTACGAGTTTAAA--GTACA
*
91366564 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTACGAGTTTAAAGTACA
*
91366591 TGGCACTAAGTGTGCGAG
1 -GGCACTAAGTGTACGAG
91366609 GTTGATTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 36 0.88
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTACGAGTTTAAAGTACA
Found at i:91366829 original size:174 final size:174
Alignment explanation
Indices: 91366564--91366891 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
91366554 AAATTGTACA
91366564 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGAGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGAGGTTGATTATTAAGCACTATG
* * *
91366629 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
91366694 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
91366738 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGAGGTTGATTATTAAGCACTATG
*
91366803 TGTGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
91366868 TTTTGGACAGCGAAAAAGGTAAGT
131 TTTTGGACAGCGAAAAAGGTAAGT
91366892 ACCTTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGAGGTTGATTATTAAGCACTATG
TGTGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:91370213 original size:27 final size:27
Alignment explanation
Indices: 91370183--91370360 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
91370173 ATATTGAGTC
* * * *
91370183 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
91370210 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
91370237 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
91370265 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
91370292 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
91370319 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
91370346 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
91370361 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:91370322 original size:82 final size:81
Alignment explanation
Indices: 91370204--91370359 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
91370194 TGCTATATAA
* *
91370204 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
91370269 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
91370286 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
91370350 CACTTAGTGC
65 CACTTAGTGC
91370360 TGTACAATTT
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:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:91370859 original size:12 final size:12
Alignment explanation
Indices: 91370842--91370868 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
91370832 ATGGCATACT
91370842 TATGTATATATA
1 TATGTATATATA
91370854 TATGTATATATA
1 TATGTATATATA
91370866 TAT
1 TAT
91370869 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:91375795 original size:79 final size:82
Alignment explanation
Indices: 91375684--91375868 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
91375674 GCTACTCGTT
* *
91375684 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
91375747 GGATTTAGTAAC-TCGCA
65 AGATATAGTAACTTAGCA
* **
91375764 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
* *
91375827 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
91375844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
91375869 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCA
GATATAGTAACTTAGCA
Found at i:91375801 original size:39 final size:40
Alignment explanation
Indices: 91375684--91375868 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
91375674 GCTACTCGTT
*
91375684 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
91375724 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
91375764 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
91375803 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
91375844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
91375869 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:91378294 original size:19 final size:19
Alignment explanation
Indices: 91378257--91378294 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91378247 ACCTGTCAGA
*
91378257 AGAAAAAAAATGAAGAATT
1 AGAAAAAAAATGAAAAATT
91378276 AGAAAATAAAAT-AAAAATT
1 AGAAAA-AAAATGAAAAATT
91378295 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
AGAAAAAAAATGAAAAATT
Found at i:91379041 original size:14 final size:13
Alignment explanation
Indices: 91379020--91379052 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
91379010 GGAATATCAA
91379020 AACAAGAATTAAG
1 AACAAGAATTAAG
91379033 AACACAGAATTAAG
1 AACA-AGAATTAAG
91379047 AACAAG
1 AACAAG
91379053 TCAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:91384768 original size:28 final size:28
Alignment explanation
Indices: 91384690--91384792 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
91384680 ATTGCATGAC
* * *
91384690 TATGAATGTGATTGGGCCTGACGAGACA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
91384718 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
91384746 TATGAATGTGATTGGGCAC-GATGGCCCA
1 TATGAATGTGATTGGGC-CTGATGGGCCA
* *
91384774 CATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
91384793 AAAGGGGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
27 1 0.02
28 63 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:91388278 original size:17 final size:17
Alignment explanation
Indices: 91388256--91388290 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
91388246 CAAAGGTAAG
*
91388256 TACTTTTCCCAACTACC
1 TACTTTGCCCAACTACC
91388273 TACTTTGCCCAACTACC
1 TACTTTGCCCAACTACC
91388290 T
1 T
91388291 TGGAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.03, T:0.34
Consensus pattern (17 bp):
TACTTTGCCCAACTACC
Found at i:91395009 original size:40 final size:40
Alignment explanation
Indices: 91394925--91395140 Score: 244
Period size: 40 Copynumber: 5.4 Consensus size: 40
91394915 AAGCCAAGTA
* * * *
91394925 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
* *
91394963 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
91395003 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* * *
91395043 CCTTCGGGACTTAGCCCGGATGTATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
91395083 CCTTCGGGACTTAGCCCGGAA-CTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCC-GAATATAGTAACT--CGCACAAATG
91395124 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
91395141 AGTTATCATC
Statistics
Matches: 156, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 100 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:91396305 original size:27 final size:27
Alignment explanation
Indices: 91396275--91396328 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
91396265 CTCCAAGCTC
*
91396275 TTTCTCTTCCTTTCTTTCCTCTATTCG
1 TTTCCCTTCCTTTCTTTCCTCTATTCG
91396302 TTTCCCTTCCTTTCTTTCCTCTATTCG
1 TTTCCCTTCCTTTCTTTCCTCTATTCG
91396329 GTCAAAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.04, C:0.35, G:0.04, T:0.57
Consensus pattern (27 bp):
TTTCCCTTCCTTTCTTTCCTCTATTCG
Found at i:91397251 original size:22 final size:22
Alignment explanation
Indices: 91397226--91397267 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
91397216 AATTAACCAC
91397226 ACCATCACCGCACCACCACCTT
1 ACCATCACCGCACCACCACCTT
* *
91397248 ACCATCGCTGCACCACCACC
1 ACCATCACCGCACCACCACC
91397268 GTGATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.55, G:0.07, T:0.12
Consensus pattern (22 bp):
ACCATCACCGCACCACCACCTT
Found at i:91398337 original size:24 final size:24
Alignment explanation
Indices: 91398310--91398357 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
91398300 TTTACTGCAA
*
91398310 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
91398334 TATTGAGTGGCTTGACCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
91398358 GCAACTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:91406736 original size:18 final size:17
Alignment explanation
Indices: 91406713--91406755 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
91406703 ATTGATAACA
91406713 TATAAAAGTTTTAAAACT
1 TATAAAAGTTTT-AAACT
* *
91406731 TATAAAAATTTTCAACT
1 TATAAAAGTTTTAAACT
*
91406748 TTTAAAAG
1 TATAAAAG
91406756 GCCACACGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTAAACT
Found at i:91407884 original size:44 final size:41
Alignment explanation
Indices: 91407836--91407933 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 41
91407826 AATGATTTCT
*
91407836 CACACTTAGTGCCATCTTAACTAGCCGAAACTAAG-TCAGTATCG
1 CACACTTAGTGCCAT-TT-ACTAGCCGAAACT-AGTTCA-AATCG
* * *
91407880 CACACTTAGTGCC-TTTAGTAGCCGAACCTAGTTTAAATCG
1 CACACTTAGTGCCATTTACTAGCCGAAACTAGTTCAAATCG
91407920 CACACTTAGTGCCA
1 CACACTTAGTGCCA
91407934 ATGCTTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
40 19 0.40
41 13 0.27
42 2 0.04
43 1 0.02
44 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTTAGTGCCATTTACTAGCCGAAACTAGTTCAAATCG
Found at i:91416884 original size:85 final size:85
Alignment explanation
Indices: 91416755--91416933 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
91416745 TATTTTATTG
91416755 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
91416820 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
91416840 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
91416905 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
91416925 CCCATGCTC
1 CCCATGCTC
91416934 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:91417329 original size:17 final size:17
Alignment explanation
Indices: 91417307--91417339 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91417297 AGTTGTCACA
91417307 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
91417324 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
91417340 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:91424796 original size:49 final size:49
Alignment explanation
Indices: 91424679--91424907 Score: 176
Period size: 49 Copynumber: 4.6 Consensus size: 49
91424669 TGTGAGAACA
* * * * * *
91424679 CATGTGTAGTACCATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TT-GGTCG
*
91424731 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTT-GGTCG
** * * ** * * * *
91424781 CAT-TGTAGTACTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTT-GGTCG
* * * *
91424831 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-GTCGGATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTGGTCG
91424880 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
91424908 TGCATACCAG
Statistics
Matches: 140, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 59 0.42
50 19 0.14
51 27 0.19
52 34 0.24
53 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTGGTCG
Found at i:91424857 original size:100 final size:100
Alignment explanation
Indices: 91424728--91424915 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 100
91424718 TGGTTTTAGG
91424728 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CTCAGATAGTT-GGTCGCATGTGTAGTA
** *
91424791 CTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGA
64 CTAAGTGCAGGCTACTATGCATACCCGACAACTTCGA
* * *
91424828 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGTCGGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
91424893 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
91424916 AGATAGCTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 9 0.11
100 71 0.89
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCTCAGATAGTTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGACAACTTCGA
Found at i:91424950 original size:100 final size:100
Alignment explanation
Indices: 91424743--91424950 Score: 222
Period size: 100 Copynumber: 2.1 Consensus size: 100
91424733 TGTGTAGTAC
**
91424743 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCTTGCTACTA
1 TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
* * ** * * *
91424808 TGCGTACCCGACAACTTCGATCACGTGTGTAGTAC
66 TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
* * *
91424843 TAAGTGCAGGCTACTACGTGT-GTCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTAC
1 TAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCGCAT-TGTAGTACTAAGTGCAGGCTAC
* * * * *
91424906 TATGCATACCAGATAGCTTCGGTTACAAGGGTGGCAA
64 TATGCATACCAGACAACTTCGATCACAAGGGTAGCAA
*
91424943 TATGTGCA
1 TAAGTGCA
91424951 AGCAACCGTG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
99 9 0.10
100 79 0.90
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATTGTAGTACTAAGTGCAGGCTACTA
TGCATACCAGACAACTTCGATCACAAGGGTAGCAA
Found at i:91425344 original size:29 final size:30
Alignment explanation
Indices: 91425289--91425348 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
91425279 ACGGTGTAAG
91425289 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
91425319 AAAAAGAATTTCATATTATGAG-TATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
91425348 A
1 A
91425349 TTTTTGTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (30 bp):
AAAAAGAATTTCATATTATGAGATATTTGA
Found at i:91430182 original size:25 final size:25
Alignment explanation
Indices: 91430151--91430200 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
91430141 AAACGATAAT
91430151 CTCCAAGCTGAATAACAGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
* **
91430176 CTCCAAGCTGTATAATGGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
91430201 ATACGATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (25 bp):
CTCCAAGCTGAATAACAGTAAGCTC
Found at i:91439886 original size:48 final size:46
Alignment explanation
Indices: 91439820--91440134 Score: 281
Period size: 48 Copynumber: 6.6 Consensus size: 46
91439810 ACATGTCGAC
* * * * * *
91439820 GCCATATCCCAGATATGGTCTTATACGAAGTCTCATATTAGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AAG-CACATATTAATGCCGAT
* *
91439868 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATAATCGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACAAGCACATAT-TAAT-GCCGAT
* * *
91439916 GCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AA-GCACATATTAATGCCGAT
** * * *
91439964 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACAAG--CACATATTAATGCCGAT
* * * * *
91440012 GCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACAAGC--ACATATTAATGCCGAT
* * *
91440060 GCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATCTCGGATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACAAGCACAT-AT-T--AATGCCGAT
91440109 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
91440135 GGGATCTCAT
Statistics
Matches: 228, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.00
46 9 0.04
47 5 0.02
48 172 0.75
49 35 0.15
50 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (46 bp):
GCCATGTCCCAGACATGGTCTTACACAAGCACATATTAATGCCGAT
Found at i:91439964 original size:96 final size:97
Alignment explanation
Indices: 91439864--91440134 Score: 422
Period size: 96 Copynumber: 2.8 Consensus size: 97
91439854 ATATTAGTGT
91439864 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
*
91439928 ACATGGTCTTACACTAACACACATATCAACGC
66 ACATGGTCTTACACTAACAAACATATCAACGC
* *
91439960 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA-CGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
* *
91440024 ACATGATCTTACACTAGCAAACATATCAACGC
66 ACATGGTCTTACACTAACAAACATATCAACGC
* * * * *
91440056 CAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGGAT-GCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AATCGCCGATGCCATGTCCCA
91440120 GACATGGTCTTACAC
65 GACATGGTCTTACAC
91440135 GGGATCTCAT
Statistics
Matches: 159, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
96 126 0.79
97 33 0.21
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATCGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAACAAACATATCAACGC
Found at i:91440034 original size:144 final size:145
Alignment explanation
Indices: 91439865--91440134 Score: 436
Period size: 144 Copynumber: 1.9 Consensus size: 145
91439855 TATTAGTGTC
* * *
91439865 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAA-CGCCAATGCCATGTCCCAGA
91439929 CATGGTCTTACACTAACACACATATC-AACGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 CATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
91439993 CACACATATCAACGCT
130 CACACATATCAACGCT
91440009 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
* * * * * *
91440074 ATGGTCTTACACTAGCTCTCATCTCGGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
66 ATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACAC
91440135 GGGATCTCAT
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
144 80 0.70
145 35 0.30
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (145 bp):
GATGCCATGTCCCAGACATGATCTTACACTAGCAAACATATCAACGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTAACACACATATCGAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
ACACATATCAACGCT
Found at i:91449299 original size:17 final size:17
Alignment explanation
Indices: 91449277--91449331 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
91449267 ATGGCCAGCT
91449277 CGTGTGGCTCACACGGG
1 CGTGTGGCTCACACGGG
91449294 CGTGTGGC-CAGC-C---
1 CGTGTGGCTCA-CACGGG
91449307 CGTGTGGCTCACACGGG
1 CGTGTGGCTCACACGGG
*
91449324 CATGTGGC
1 CGTGTGGC
91449332 AACCCATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
16 3 0.10
17 16 0.52
ACGTcount: A:0.11, C:0.31, G:0.40, T:0.18
Consensus pattern (17 bp):
CGTGTGGCTCACACGGG
Found at i:91449302 original size:30 final size:30
Alignment explanation
Indices: 91449256--91449331 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
91449246 CATGAGCTGG
* * *
91449256 CACATGGGCATATGGCCAGCTCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
*
91449286 CACACGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
91449316 CACACGGGCATGTGGC
1 CACACGGGCATGTGGC
91449332 AACCCATGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.14, C:0.30, G:0.37, T:0.18
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAGCCCGTGTGGCT
Found at i:91458684 original size:19 final size:21
Alignment explanation
Indices: 91458648--91458695 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
91458638 TAAATAATAT
91458648 ATTTTTAATTATTGTAATT-A
1 ATTTTTAATTATTGTAATTGA
91458668 ATTTTTAATTCA-T-TAATTGA
1 ATTTTTAATT-ATTGTAATTGA
91458688 ATTTTTAA
1 ATTTTTAA
91458696 ATATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTAATTATTGTAATTGA
Found at i:91462877 original size:14 final size:13
Alignment explanation
Indices: 91462858--91462905 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
91462848 ATAGGTACGT
*
91462858 AAAAAAAAGTTCGA
1 AAAAAAAAATT-GA
91462872 AAAAAAAAATTG-
1 AAAAAAAAATTGA
91462884 -AAAAAAAATTGA
1 AAAAAAAAATTGA
91462896 AAAGAAAAAA
1 AAA-AAAAAA
91462906 AAATTGCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 11 0.37
13 3 0.10
14 16 0.53
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:91462887 original size:11 final size:11
Alignment explanation
Indices: 91462873--91462903 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
91462863 AAAGTTCGAA
91462873 AAAAAAAATTG
1 AAAAAAAATTG
91462884 AAAAAAAATTG
1 AAAAAAAATTG
91462895 AAAAGAAAA
1 AAAA-AAAA
91462904 AAAAATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:91462904 original size:13 final size:12
Alignment explanation
Indices: 91462858--91462904 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
91462848 ATAGGTACGT
*
91462858 AAAAAAAAGTTCG
1 AAAAAAAAATT-G
91462871 AAAAAAAAAATTG
1 -AAAAAAAAATTG
91462884 -AAAAAAAATTG
1 AAAAAAAAATTG
91462895 AAAAGAAAAA
1 AAAA-AAAAA
91462905 AAAATTGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 11 0.37
12 3 0.10
13 6 0.20
14 10 0.33
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:91465160 original size:17 final size:17
Alignment explanation
Indices: 91465128--91465177 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
91465118 GCGAAAATAC
91465128 AAAAGAAAAGAAAAATGAT
1 AAAA-AAAAG-AAAATGAT
91465147 AAAAAAAAGAAAAT--T
1 AAAAAAAAGAAAATGAT
* *
91465162 CAAAAAAAGAGAATGA
1 AAAAAAAAGAAAATGA
91465178 AAAGAGAGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 13 0.48
17 5 0.19
18 5 0.19
19 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAAAAAGAAAATGAT
Found at i:91471304 original size:32 final size:33
Alignment explanation
Indices: 91471268--91471336 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
91471258 TAGTTTTTAT
91471268 AAAATATTTT-CAGAAAAT-T-TGCCAAACACTAG
1 AAAATATTTTACA-AAAATCTAT-CCAAACACTAG
*
91471300 AAAATATTTTACAAAGATCTATCCAAACACTAG
1 AAAATATTTTACAAAAATCTATCCAAACACTAG
91471333 AAAA
1 AAAA
91471337 GTAAGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 14 0.42
33 18 0.55
34 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAAAAATCTATCCAAACACTAG
Found at i:91475831 original size:25 final size:25
Alignment explanation
Indices: 91475797--91475866 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
91475787 CTCTTTTAAT
*
91475797 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
91475822 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
91475847 AACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
91475867 AGCACTTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:91476706 original size:27 final size:27
Alignment explanation
Indices: 91476676--91476737 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
91476666 GGGCATATTC
91476676 GTCATTTTACCATACAGGGG-TGTTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
* *
91476703 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
91476730 GTCTTTTT
1 GTCATTTT
91476738 GCCTATTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:91476831 original size:27 final size:27
Alignment explanation
Indices: 91476771--91476979 Score: 136
Period size: 27 Copynumber: 7.7 Consensus size: 27
91476761 TTTCATCCTA
* * * *
91476771 CAAGGGTGTTTTGGTAAATCTAC-AAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
**
91476797 CAAGGGTATTTCGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
91476824 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* ** *
91476853 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
91476880 CAGGGGTAATTT-GGTAATTTTACAAAT
1 CAAGGGT-ATTTCGGTAATTTTACAAAC
** * *
91476907 TGATGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
91476933 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* *
91476961 TAAGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
91476980 CTACCCTATA
Statistics
Matches: 144, Mismatches: 32, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
26 22 0.15
27 87 0.60
28 20 0.14
29 15 0.10
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:91477047 original size:27 final size:27
Alignment explanation
Indices: 91477011--91477102 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
91477001 ATAATTTCAC
*
91477011 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* *
91477038 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* * *
91477065 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTGTA
*
91477092 TATCGAGGGTA
1 AATCGAGGGTA
91477103 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTGTA
Found at i:91479262 original size:13 final size:13
Alignment explanation
Indices: 91479226--91479317 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 13
91479216 ATCCAATGTT
* *
91479226 CCATTTTATATAT
1 CCATTTCATATAA
*
91479239 CTATTTCCATATAA
1 CCATTT-CATATAA
91479253 CCGA-TTCATATAA
1 CC-ATTTCATATAA
91479266 CCATTTCATAT-A
1 CCATTTCATATAA
*
91479278 TCATTTTTCATATAA
1 CCA--TTTCATATAA
* * *
91479293 TCAATTCGTATAA
1 CCATTTCATATAA
*
91479306 CCATTTTATATA
1 CCATTTCATATA
91479318 TTTATTTCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
12 4 0.06
13 37 0.60
14 16 0.26
15 5 0.08
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:91479263 original size:27 final size:24
Alignment explanation
Indices: 91479233--91479350 Score: 58
Period size: 27 Copynumber: 4.5 Consensus size: 24
91479223 GTTCCATTTT
91479233 ATATATCTATTTCCATATAACCGATTC
1 ATATATC-ATTT-CATATAACC-ATTC
* *
91479260 ATATAACCATTTCATAT-ATCATTTTTC
1 ATAT-ATCATTTCATATAACCA---TTC
* * *
91479287 ATATAATCAATTCGTATAACCATTTT
1 ATAT-ATCATTTCATATAACCA-TTC
* *
91479313 ATATATTTATTTCCACATAACCAATTC
1 ATATA-TCATTT-CATATAACC-ATTC
91479340 ATATATCATTT
1 ATATATCATTT
91479351 TTTAGATATC
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
24 1 0.01
25 3 0.04
26 21 0.30
27 39 0.56
28 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATATCATTTCATATAACCATTC
Found at i:91479290 original size:40 final size:39
Alignment explanation
Indices: 91479226--91479344 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
91479216 ATCCAATGTT
* *
91479226 CCATTTTATATATCTATTTCCATATAACCGATTCATATAA
1 CCATTTTATATATCT-TTTTCATATAACCAATTCATATAA
* * *
91479266 CCATTTCATATATCATTTTTCATATAATCAATTCGTATAA
1 CCATTTTATATATC-TTTTTCATATAACCAATTCATATAA
*
91479306 CCATTTTATATAT-TTATTTCCACATAACCAATTCATATA
1 CCATTTTATATATCTT-TTT-CATATAACCAATTCATATA
91479345 TCATTTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 61 0.91
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (39 bp):
CCATTTTATATATCTTTTTCATATAACCAATTCATATAA
Found at i:91480853 original size:44 final size:42
Alignment explanation
Indices: 91480805--91480904 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
91480795 ATAATAATTC
* * **
91480805 CGCACACTTAGTGCCATCTCAATTAACCGAAGCTATTTCGGTAT
1 CGCACACTTAGTGCCA-CTCAAGTAACCGAAGCTAATTC-AAAT
*
91480849 CGCACACTTAGTG-C-CTCAAGTAGCCGAAGCTAATTCAAAT
1 CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
*
91480889 AGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
91480905 AATACCATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 14 0.29
41 20 0.42
43 1 0.02
44 13 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CGCACACTTAGTGCCACTCAAGTAACCGAAGCTAATTCAAAT
Found at i:91487131 original size:30 final size:30
Alignment explanation
Indices: 91487082--91487153 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
91487072 CAAAATATGG
*
91487082 AAGCCTTTGTGGCCGTTCTCTG-ACAAGTGA
1 AAGCCTTTGTGGCCATTCTC-GAACAAGTGA
* * *
91487112 AAGCCTTTGTGGCTATTCTCGAATAAGTGG
1 AAGCCTTTGTGGCCATTCTCGAACAAGTGA
*
91487142 AAGCCTATGTGG
1 AAGCCTTTGTGG
91487154 TTGTTCTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (30 bp):
AAGCCTTTGTGGCCATTCTCGAACAAGTGA
Found at i:91487231 original size:56 final size:56
Alignment explanation
Indices: 91487162--91487284 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
91487152 GGTTGTTCTT
* * *
91487162 TGTTATACATGAGCCCTTGTGGCTGATTTTGTTAAATGCGCCTTCATGATAAAGTA
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
* * ** *
91487218 TGTTATATGTGAGCCCTTGTGGATGATTTTGTTAAATGTGCCTTTGTGACAAAGTT
1 TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
91487274 TGTTATATATG
1 TGTTATATATG
91487285 GCCTCTTCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (56 bp):
TGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCGCCTTCATGACAAAGTA
Found at i:91489916 original size:47 final size:47
Alignment explanation
Indices: 91489850--91489973 Score: 230
Period size: 47 Copynumber: 2.6 Consensus size: 47
91489840 GATGCGAACG
*
91489850 TCCGAACTCATTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
*
91489897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
91489944 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
91489974 CTTATGGATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCA
Found at i:91490018 original size:46 final size:48
Alignment explanation
Indices: 91489808--91490026 Score: 190
Period size: 47 Copynumber: 4.7 Consensus size: 48
91489798 TGGGCATCCT
* * *
91489808 AACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGA-ACG-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
* * * * *
91489854 AACTCATTGAGTTGAGTCCGAGTTCA-TGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-ACGCA-CCG
* * * * *
91489901 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-ACGCA-CCG
91489948 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ACGC-CCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
*
91489994 AGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 A-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91490027 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 4 0.03
46 57 0.38
47 74 0.50
48 5 0.03
50 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (48 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACACGCACCG
Found at i:91496657 original size:26 final size:26
Alignment explanation
Indices: 91496622--91496682 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
91496612 GAATATATTT
*
91496622 ATCAAAATTTTA-CTAGTGGTAAAATC
1 ATCAAAATTTTACCAAG-GGTAAAATC
*
91496648 ATCAACATTTTACCAAGGGTAAAATC
1 ATCAAAATTTTACCAAGGGTAAAATC
91496674 ATCAAAATT
1 ATCAAAATT
91496683 GTTTTATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (26 bp):
ATCAAAATTTTACCAAGGGTAAAATC
Found at i:91500955 original size:29 final size:29
Alignment explanation
Indices: 91500920--91500993 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
91500910 GTTGTGAGAT
* *
91500920 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
91500949 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
91500978 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
91500994 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:91506039 original size:40 final size:40
Alignment explanation
Indices: 91505946--91506163 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
91505936 AAGCCAAGTA
* * *
91505946 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
91505984 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
91506024 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
91506064 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
91506104 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
91506145 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
91506164 TTATCATCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.11
40 104 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:91515011 original size:17 final size:17
Alignment explanation
Indices: 91514989--91515047 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
91514979 ATGCATGGTG
91514989 AATGTGAATTGTTTGGA
1 AATGTGAATTGTTTGGA
*
91515006 AATGTG-ATT-TATGGCA
1 AATGTGAATTGTTTGG-A
* *
91515022 TGAATGTGAAATGTTTGGT
1 --AATGTGAATTGTTTGGA
91515041 AATGTGA
1 AATGTGA
91515048 GCTATTGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 13 0.39
18 6 0.18
19 2 0.06
20 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.39
Consensus pattern (17 bp):
AATGTGAATTGTTTGGA
Found at i:91519176 original size:43 final size:42
Alignment explanation
Indices: 91519120--91519200 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
91519110 TTACATGTAA
* * *
91519120 TCTCGTATTGATGCCAATAGGCCA-ACTATAGTCTTACACGAAG
1 TCTCATATCGATGCC-ATAGCCCATA-TATAGTCTTACACGAAG
*
91519163 TCTCATATCGATGCCATATCCCATATATAGTCTTACAC
1 TCTCATATCGATGCCATAGCCCATATATAGTCTTACAC
91519201 ATAATCTCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 19 0.58
43 14 0.42
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCTCATATCGATGCCATAGCCCATATATAGTCTTACACGAAG
Found at i:91524046 original size:7 final size:8
Alignment explanation
Indices: 91524026--91524055 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
91524016 TTGATCTAAA
91524026 GAAAAATT
1 GAAAAATT
91524034 GAAAAATT
1 GAAAAATT
91524042 GAAAAATT
1 GAAAAATT
91524050 GAAAAA
1 GAAAAA
91524056 GAAAATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (8 bp):
GAAAAATT
Found at i:91525095 original size:15 final size:17
Alignment explanation
Indices: 91525073--91525110 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
91525063 CGTATAGCCC
91525073 TATATTTT-TTAA-TTT
1 TATATTTTATTAAGTTT
*
91525088 TCTATTTTATTAAGTTT
1 TATATTTTATTAAGTTT
91525105 TATATT
1 TATATT
91525111 CATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTATTAAGTTT
Found at i:91528305 original size:44 final size:44
Alignment explanation
Indices: 91528242--91528330 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
91528232 CAGCACCTCA
*
91528242 AACAACTTCTAATCTTTATTCCTAGTCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
91528286 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
91528330 A
1 A
91528331 GTGTTAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (44 bp):
AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
Found at i:91530337 original size:20 final size:20
Alignment explanation
Indices: 91530314--91530379 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
91530304 TCGAAATTCA
91530314 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
* ** * *
91530334 TAATTTATAGTCGAAATTCA-
1 TAATTTA-ATTATAAAATAAT
91530354 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
91530374 TAATTT
1 TAATTT
91530380 GTACTTAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TAATTTAATTATAAAATAAT
Found at i:91530349 original size:40 final size:40
Alignment explanation
Indices: 91530303--91530379 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
91530293 AGTAAATTTT
91530303 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
91530343 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTT
91530380 GTACTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (40 bp):
GTCGAAATTCATAATTTAATTATAAAATAATTAATTTATA
Found at i:91531908 original size:16 final size:18
Alignment explanation
Indices: 91531887--91531920 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
91531877 ATTGGAATTT
91531887 TTACTTA-TT-ATTTTTA
1 TTACTTAGTTAATTTTTA
91531903 TTACTTAGTTAATTTTTA
1 TTACTTAGTTAATTTTTA
91531921 GTTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTACTTAGTTAATTTTTA
Found at i:91532761 original size:6 final size:6
Alignment explanation
Indices: 91532749--91532788 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
91532739 TAGGTTTGTA
* *
91532749 AAAATG GAAATG -GAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
91532789 AGGGATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:91532771 original size:17 final size:18
Alignment explanation
Indices: 91532749--91532788 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
91532739 TAGGTTTGTA
* *
91532749 AAAATGGAAATG-GAATG
1 AAAATGAAAATGAAAATG
91532766 AAAATGAAAATGAAAATG
1 AAAATGAAAATGAAAATG
91532784 AAAAT
1 AAAAT
91532789 AGGGATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGAAAATG
Found at i:91535771 original size:16 final size:15
Alignment explanation
Indices: 91535751--91535793 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
91535741 TTAAAAAAAT
91535751 TAATATTAAAAATT-
1 TAATATTAAAAATTC
*
91535765 TAAAATATAAATAATTC
1 TAATAT-TAAA-AATTC
91535782 TAATATTAAAAA
1 TAATATTAAAAA
91535794 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 8 0.33
17 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATTAAAAATTC
Found at i:91538143 original size:51 final size:52
Alignment explanation
Indices: 91538048--91538148 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 52
91538038 ATTAAATTTA
* * * *
91538048 TTTAGTTTAAATTTGAAAAAGTTAATTTAAATAAGTTAAATTATATAAATAT
1 TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
*
91538100 TTTA-TTTAATATTTGAAAAAATT-ATGATAAA-AAATTAACTTATAAAAAT
1 TTTAGTTTAA-ATTTGAAAAAATTAAT-ATAAATAAATTAAATTATAAAAAT
91538149 TCACTTAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
51 22 0.52
52 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (52 bp):
TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
Found at i:91545003 original size:23 final size:23
Alignment explanation
Indices: 91544921--91545007 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
91544911 CCTGATCAGT
*
91544921 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
91544943 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
91544963 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
91544986 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
91545008 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:91546071 original size:147 final size:147
Alignment explanation
Indices: 91545804--91546096 Score: 568
Period size: 147 Copynumber: 2.0 Consensus size: 147
91545794 GAATTTTAAG
*
91545804 CATATAAATTCCAACCTATAATTAGTTTTATACAATTTTTAATGATTTTTCAAATTTAGAACAGG
1 CATATAAATTCCAACCTATAATTAGTTTTATACAATTTTTAATGATTTTTCAAAGTTAGAACAGG
*
91545869 GGAATCTGAATTCATTCTGATCTTGTCTCACAAAACTTATAATATCTCATGATCTATAATTCCGT
66 GGAATCTGAATTCATTCTGACCTTGTCTCACAAAACTTATAATATCTCATGATCTATAATTCCGT
91545934 TGCTTACACCGTTTCTA
131 TGCTTACACCGTTTCTA
91545951 CATATAAATTCCAACCTATAATTAGTTTTATACAATTTTTAATGATTTTTCAAAGTTAGAACAGG
1 CATATAAATTCCAACCTATAATTAGTTTTATACAATTTTTAATGATTTTTCAAAGTTAGAACAGG
91546016 GGAATCTGAATTCATTCTGACCTTGTCTCACAAAACTTATAATATCTCATGATCTATAATTCCGT
66 GGAATCTGAATTCATTCTGACCTTGTCTCACAAAACTTATAATATCTCATGATCTATAATTCCGT
91546081 TGCTTACACCGTTTCT
131 TGCTTACACCGTTTCT
91546097 TCTATACAAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (147 bp):
CATATAAATTCCAACCTATAATTAGTTTTATACAATTTTTAATGATTTTTCAAAGTTAGAACAGG
GGAATCTGAATTCATTCTGACCTTGTCTCACAAAACTTATAATATCTCATGATCTATAATTCCGT
TGCTTACACCGTTTCTA
Found at i:91546684 original size:27 final size:30
Alignment explanation
Indices: 91546639--91546693 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
91546629 GCTCGAATGC
*
91546639 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
91546668 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
91546694 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:91552998 original size:21 final size:21
Alignment explanation
Indices: 91552970--91553052 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
91552960 TGATCAGTAT
*
91552970 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
91552991 ATGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
91553012 ACGACACACGAGGTGCCTCAAA
1 ACGACACACAAAGTGCCT-AAA
*
91553034 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
91553053 GATCAGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 32 0.67
22 1 0.02
23 15 0.31
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:91553036 original size:23 final size:22
Alignment explanation
Indices: 91552968--91553042 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
91552958 CCTGATCAGT
** *
91552968 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
* *
91552990 A-ATGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
91553010 ATACGACACACGAGGTGCCTCAA
1 ATACGACACACGAGGTGCCT-AA
91553033 ATACGACACA
1 ATACGACACA
91553043 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.02
21 31 0.72
22 1 0.02
23 10 0.23
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:91554584 original size:27 final size:30
Alignment explanation
Indices: 91554539--91554593 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
91554529 GCTCGAATGC
*
91554539 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
91554568 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
91554594 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:91554636 original size:4 final size:4
Alignment explanation
Indices: 91554627--91554658 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
91554617 TATAATAATA
91554627 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
91554659 TACCATCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:91555104 original size:77 final size:77
Alignment explanation
Indices: 91554977--91555129 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
91554967 GAATTTTGGG
*
91554977 TCATTACATTTCTCCCCTCTTTATAAATTTCGTCCTCGAAATTTACCTGAGAATAGATGAGGATA
1 TCATTACATTTCTCCCCCCTTTATAAATTTCGTCCTCGAAATTTACCTGAGAATAGATGAGGATA
91555042 TTGTGCTCTCAA
66 TTGTGCTCTCAA
*
91555054 TCATTACATTTCTCCCCCCTTTATAAATTTCGTCCTCGAAATTTATCTGAGAATAGATGAGGATA
1 TCATTACATTTCTCCCCCCTTTATAAATTTCGTCCTCGAAATTTACCTGAGAATAGATGAGGATA
91555119 TTGTGCTCTCA
66 TTGTGCTCTCA
91555130 TTTTTCCGAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (77 bp):
TCATTACATTTCTCCCCCCTTTATAAATTTCGTCCTCGAAATTTACCTGAGAATAGATGAGGATA
TTGTGCTCTCAA
Found at i:91572946 original size:46 final size:46
Alignment explanation
Indices: 91572884--91573250 Score: 230
Period size: 46 Copynumber: 7.5 Consensus size: 46
91572874 TATTATAAAT
*
91572884 TAGTAGTACACTACATGATAAAAACAATATTTTCCAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
* * * *
91572930 TAGTATTACACCACATGATAACTAAAAATTAATAATATTATCCAAGTACATAAT
1 TAGTAGTACACCACATG---A-TAAAAA-CAAT-AT-TT-TCCAAGTGCATAAC
* * ** * *
91572984 TAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
* * * *
91573030 TAGTATTACACCACATGATAACTAAAAATTAATAATATTATCCAAGTACATAAT
1 TAGTAGTACACCACATG---A-TAAAAA-CAAT-AT-TT-TCCAAGTGCATAAC
* * ** * *
91573084 TAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
* * * *
91573130 TAGTATTACACCACATGATAACTAAAAATTAATAATATTATCCAAGTACATAAT
1 TAGTAGTACACCACATG---A-TAAAAA-CAAT-AT-TT-TCCAAGTGCATAAC
* * ** * *
91573184 TAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAAC
1 TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
*
91573230 TAGTATTACACCACATGATAA
1 TAGTAGTACACCACATGATAA
91573251 CTAAAAATTA
Statistics
Matches: 239, Mismatches: 58, Indels: 48
0.69 0.17 0.14
Matches are distributed among these distances:
46 96 0.40
47 3 0.01
48 6 0.03
49 10 0.04
50 26 0.11
51 9 0.04
52 6 0.03
53 4 0.02
54 79 0.33
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (46 bp):
TAGTAGTACACCACATGATAAAAACAATATTTTCCAAGTGCATAAC
Found at i:91572974 original size:54 final size:54
Alignment explanation
Indices: 91572909--91573302 Score: 377
Period size: 54 Copynumber: 7.7 Consensus size: 54
91572899 TGATAAAAAC
* *
91572909 AATATTTTCCAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* * * * *
91572963 AATATTATCCAAGTACATAATTAGTAGTACACCATATGGTAAC-------T-AC
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* *
91573009 AATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* * * * *
91573063 AATATTATCCAAGTACATAATTAGTAGTACACCATATGGTAAC-------T-AC
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* *
91573109 AATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* * * * *
91573163 AATATTATCCAAGTACATAATTAGTAGTACACCATATGGTAAC-------T-AC
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
* *
91573209 AATATTATCTAAGTGCATAACTAGTATTACACCACATGATAACTAAAAATTAAT
1 AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
*
91573263 AATATTATCCAAGTACATAATTAGTAGTACTACACCACAT
1 AATATTATCCAAGTACATAACTAGTA-T--TACACCACAT
91573303 TAAAGAATAT
Statistics
Matches: 268, Mismatches: 45, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
46 114 0.43
47 3 0.01
53 3 0.01
54 137 0.51
55 1 0.00
57 10 0.04
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (54 bp):
AATATTATCCAAGTACATAACTAGTATTACACCACATGATAACTAAAAATTAAT
Found at i:91573054 original size:100 final size:100
Alignment explanation
Indices: 91572881--91573292 Score: 761
Period size: 100 Copynumber: 4.1 Consensus size: 100
91572871 TAATATTATA
* * * ** * *
91572881 AATTAGTAGTACACTACATGATAAAAACAATATTTTCCAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
91572946 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
91572981 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
91573046 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
91573081 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
91573146 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
91573181 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
1 AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
91573246 GATAACTAAAAATTAATAATATTATCCAAGTACAT
66 GATAACTAAAAATTAATAATATTATCCAAGTACAT
91573281 AATTAGTAGTAC
1 AATTAGTAGTAC
91573293 TACACCACAT
Statistics
Matches: 305, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 305 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (100 bp):
AATTAGTAGTACACCATATGGTAACTACAATATTATCTAAGTGCATAACTAGTATTACACCACAT
GATAACTAAAAATTAATAATATTATCCAAGTACAT
Found at i:91574288 original size:32 final size:32
Alignment explanation
Indices: 91574247--91574325 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
91574237 TGTCAATCAT
91574247 TTCAATATCCAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
91574279 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
*
91574311 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
91574326 ATTAATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.52, C:0.20, G:0.01, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:91574324 original size:21 final size:21
Alignment explanation
Indices: 91574307--91574353 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
91574297 TAAAACATAA
91574307 TAATTTCAAAATCCAACAAAT
1 TAATTTCAAAATCCAACAAAT
*
91574328 TAATTTCAATATCCAACCAATAT
1 TAATTTCAAAATCCAA-CAA-AT
91574351 TAA
1 TAA
91574354 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 3 0.13
23 5 0.22
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATTTCAAAATCCAACAAAT
Found at i:91579761 original size:39 final size:39
Alignment explanation
Indices: 91579707--91579785 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
91579697 ATCCGAAGCG
91579707 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
1 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
91579746 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
1 GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
91579785 G
1 G
91579786 TCTCATTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (39 bp):
GCCTTTAAACGATCACGAATCACTTTAACTTTTTCTTCA
Found at i:91586939 original size:19 final size:19
Alignment explanation
Indices: 91586902--91586940 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
91586892 TGTTGATAAC
*
91586902 AAGCACACCCTAGAAGAAG
1 AAGCACACCCAAGAAGAAG
* *
91586921 AAGCACATCCAAGATGAAG
1 AAGCACACCCAAGAAGAAG
91586940 A
1 A
91586941 GGAGAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (19 bp):
AAGCACACCCAAGAAGAAG
Found at i:91603629 original size:14 final size:14
Alignment explanation
Indices: 91603610--91603637 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
91603600 TCAGAACTCT
91603610 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
91603624 TGCTTATTGTCTAA
1 TGCTTATTGTCTAA
91603638 CTTTACTATG
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:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TGCTTATTGTCTAA
Found at i:91607758 original size:20 final size:20
Alignment explanation
Indices: 91607720--91607767 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
91607710 TAAATTCTAA
* **
91607720 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
91607740 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
91607760 AAA-ATAAA
1 AAAGATAAA
91607768 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:91607808 original size:15 final size:15
Alignment explanation
Indices: 91607788--91607819 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
91607778 TAAATAATCC
*
91607788 TAATAATTATCTTAA
1 TAATAATTATCCTAA
91607803 TAATAATTATCCTAA
1 TAATAATTATCCTAA
91607818 TA
1 TA
91607820 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTATCCTAA
Found at i:91610018 original size:4 final size:4
Alignment explanation
Indices: 91610009--91610033 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
91609999 CCATGATTTA
91610009 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
91610034 GGACTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:91613038 original size:18 final size:18
Alignment explanation
Indices: 91613001--91613038 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
91612991 GTAAAAAAGC
**
91613001 ATGCATAAAAATATTGAA
1 ATGCATAAAAATATCAAA
91613019 ATGCATAAAAATATCAAA
1 ATGCATAAAAATATCAAA
91613037 AT
1 AT
91613039 AAAACTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (18 bp):
ATGCATAAAAATATCAAA
Found at i:91616030 original size:25 final size:25
Alignment explanation
Indices: 91615991--91616072 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
91615981 TCATTAGGGT
*
91615991 TACCAATTTATAGCTTGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
91616016 TACGGATTTATAGCTTGTAAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
* *
91616041 TACCGATTCATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTTGTGAGAGCA
91616066 TACCGAT
1 TACCGAT
91616073 CTTCAGCTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTTGTGAGAGCA
Found at i:91616080 original size:25 final size:24
Alignment explanation
Indices: 91616001--91616081 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
91615991 TACCAATTTA
* * *
91616001 TAGCTTGTGAGAGCATACGGATTT
1 TAGCTCGTGAGAGCATACCGATCT
* * *
91616025 ATAGCTTGTAAGAGCATACCGATTCA
1 -TAGCTCGTGAGAGCATACCGA-TCT
91616051 TAGCTCGTGAGAGCATACCGATCT
1 TAGCTCGTGAGAGCATACCGATCT
91616075 TCAGCTC
1 T-AGCTC
91616082 AAATGAGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.06
25 43 0.91
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TAGCTCGTGAGAGCATACCGATCT
Found at i:91616089 original size:25 final size:25
Alignment explanation
Indices: 91616061--91616118 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
91616051 TAGCTCGTGA
*
91616061 GAGCATACCGATCTT-CAGCTCAAAT
1 GAGCATACCAAT-TTACAGCTCAAAT
**
91616086 GAGCATACCAATTTACAGCTCGTAT
1 GAGCATACCAATTTACAGCTCAAAT
91616111 GAGCATAC
1 GAGCATAC
91616119 ATGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTTACAGCTCAAAT
Found at i:91619864 original size:39 final size:39
Alignment explanation
Indices: 91619747--91620749 Score: 1811
Period size: 39 Copynumber: 25.6 Consensus size: 39
91619737 GCTCCTCGTT
* *
91619747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
91619787 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
91619827 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91619866 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91619905 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91619944 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91619983 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620022 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620061 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620100 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620139 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620178 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620217 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620256 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620295 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620334 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620373 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620412 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620451 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620490 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620529 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620568 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620607 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
91620646 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
91620685 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
91620726 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
91620750 CATCATTCAA
Statistics
Matches: 945, Mismatches: 11, Indels: 15
0.97 0.01 0.02
Matches are distributed among these distances:
39 873 0.92
40 61 0.06
41 11 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:91628481 original size:26 final size:26
Alignment explanation
Indices: 91628452--91628516 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
91628442 ATTTTAATCT
*
91628452 AATTTAATATAAAAATATTTATATTA-
1 AATTTAAT-TAAAAATAATTATATTAG
* *
91628478 AATTATATTTAATAATAATTATATTAG
1 AATT-TAATTAAAAATAATTATATTAG
*
91628505 AATATAATTAAA
1 AATTTAATTAAA
91628517 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTAATTAAAAATAATTATATTAG
Found at i:91628498 original size:21 final size:20
Alignment explanation
Indices: 91628474--91628533 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
91628464 AAATATTTAT
91628474 ATTAAATTATATTTAATAATA
1 ATTAAATTAT-TTTAATAATA
**
91628495 ATT--A-TATTAGAAT-ATA
1 ATTAAATTATTTTAATAATA
91628511 ATTAAATTATTTTTAATAATA
1 ATTAAATTA-TTTTAATAATA
91628532 AT
1 AT
91628534 CCTATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 4 0.13
19 3 0.10
20 5 0.17
21 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTAAATTATTTTAATAATA
Found at i:91628511 original size:16 final size:17
Alignment explanation
Indices: 91628478--91628519 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
91628468 ATTTATATTA
*
91628478 AATTATATT-TAATAAT
1 AATTATATTAGAATAAT
91628494 AATTATATTAGAAT-AT
1 AATTATATTAGAATAAT
*
91628510 AATTAAATTA
1 AATTATATTA
91628520 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTATATTAGAATAAT
Found at i:91628540 original size:37 final size:37
Alignment explanation
Indices: 91628474--91628549 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
91628464 AAATATTTAT
* *
91628474 ATTAAATTATATTTAATAATAATTATATTAGAATATA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
* * *
91628511 ATTAAATTATTTTTAATAATAATCCTATTAAAATTTA
1 ATTAAATTATATTTAATAATAATCATATTAAAATATA
91628548 AT
1 AT
91628550 AATAATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATA
Found at i:91632010 original size:4 final size:4
Alignment explanation
Indices: 91632001--91632044 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
91631991 TGCTATTGAG
91632001 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
91632045 GCAGATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:91638874 original size:15 final size:16
Alignment explanation
Indices: 91638854--91638886 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
91638844 ATATATACAT
91638854 AAAAGAAAAA-TTTTG
1 AAAAGAAAAACTTTTG
91638869 AAAAGAAAAACTTTTG
1 AAAAGAAAAACTTTTG
91638885 AA
1 AA
91638887 CCGACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAAGAAAAACTTTTG
Found at i:91644712 original size:14 final size:14
Alignment explanation
Indices: 91644693--91644719 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91644683 GAAATTGGTT
91644693 TAAATTTGGAAGTC
1 TAAATTTGGAAGTC
91644707 TAAATTTGGAAGT
1 TAAATTTGGAAGT
91644720 TATGATAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
TAAATTTGGAAGTC
Found at i:91646776 original size:56 final size:55
Alignment explanation
Indices: 91646701--91646806 Score: 185
Period size: 56 Copynumber: 1.9 Consensus size: 55
91646691 CATTTATGAG
*
91646701 TAATCCATGTACATTTGCAAATGAATCATTTCTCATTTTCATTTCCATTTCCACNC
1 TAATCCATCTACATTTGCAAATGAATCATTTCTCATTTTCATTTCCATTTCCAC-C
*
91646757 TAATTCATCTACATTTGCAAATGAATCATTTCTCATTTTCATTTCCATTT
1 TAATCCATCTACATTTGCAAATGAATCATTTCTCATTTTCATTTCCATTT
91646807 TGAGAAAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.44
Consensus pattern (55 bp):
TAATCCATCTACATTTGCAAATGAATCATTTCTCATTTTCATTTCCATTTCCACC
Found at i:91651671 original size:20 final size:18
Alignment explanation
Indices: 91651651--91651685 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91651641 GTATCAGAAT
*
91651651 ATAACAACACATGTAATA
1 ATAAAAACACATGTAATA
*
91651669 ATACAAACACATGTAAT
1 ATAAAAACACATGTAAT
91651686 GCAAAGAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (18 bp):
ATAAAAACACATGTAATA
Found at i:91653235 original size:22 final size:21
Alignment explanation
Indices: 91653200--91653272 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
91653190 AAAAGGTATC
* *
91653200 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
91653221 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
91653244 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
91653263 TGC-AATCATA
1 TACAAATCATA
91653273 ACTAAGATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:91653243 original size:23 final size:22
Alignment explanation
Indices: 91653200--91653257 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
91653190 AAAAGGTATC
* *
91653200 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
91653221 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
91653244 TGCATATCATATCT
1 TACAAATCATATCT
91653258 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:91653260 original size:19 final size:19
Alignment explanation
Indices: 91653236--91653358 Score: 195
Period size: 19 Copynumber: 6.8 Consensus size: 19
91653226 AATCATATCT
91653236 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91653255 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
91653273 ACTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
91653290 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91653309 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
91653327 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
91653344 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
91653359 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91653304 original size:54 final size:54
Alignment explanation
Indices: 91653236--91653358 Score: 237
Period size: 54 Copynumber: 2.3 Consensus size: 54
91653226 AATCATATCT
91653236 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
*
91653290 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
91653344 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
91653359 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATAACTAAGATTGTATCATA
Found at i:91653355 original size:35 final size:36
Alignment explanation
Indices: 91653236--91653355 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
91653226 AATCATATCT
*
91653236 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
* *
91653273 ACTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
91653309 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
91653344 TCTAAGATTGCA
1 TCTAAGATTGCA
91653356 TATTGAAGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 36 0.47
36 15 0.20
37 25 0.33
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:91660726 original size:20 final size:20
Alignment explanation
Indices: 91660701--91660760 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
91660691 AATATATAAT
*
91660701 AATATAAAATATAGTAAATA
1 AATATAAAATATAATAAATA
*
91660721 AATATATAATATAATAAATA
1 AATATAAAATATAATAAATA
* *
91660741 ATAAATAATATATACATAAA
1 A-ATATAAAATATA-ATAAA
91660761 ATATATTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 19 0.58
21 9 0.27
22 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AATATAAAATATAATAAATA
Found at i:91660741 original size:7 final size:7
Alignment explanation
Indices: 91660717--91660760 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
91660707 AAATATAGTA
91660717 AATAAAT
1 AATAAAT
91660724 ATATAATAT
1 A-ATAA-AT
91660733 AATAAAT
1 AATAAAT
91660740 AATAAAT
1 AATAAAT
*
91660747 AATATAT
1 AATAAAT
91660754 ACATAAA
1 A-ATAAA
91660761 ATATATTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 17 0.53
8 12 0.38
9 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:91660741 original size:39 final size:41
Alignment explanation
Indices: 91660691--91660785 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 41
91660681 TAATATTTAG
91660691 AATAT-AT-AATAATATAA-AATATAGTAAAT-AAATATA-T
1 AATATAATAAATAATATAATAATATA-TAAATAAAATATATT
*
91660728 AATATAATAAATAATA-AATAATATATACATAAAATATATT
1 AATATAATAAATAATATAATAATATATAAATAAAATATATT
91660768 AGATGATAA-AAATAATAT
1 A-AT-ATAATAAATAATAT
91660786 TTTATGATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
37 5 0.10
38 8 0.16
39 20 0.41
40 2 0.04
41 10 0.20
42 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (41 bp):
AATATAATAAATAATATAATAATATATAAATAAAATATATT
Found at i:91660745 original size:27 final size:27
Alignment explanation
Indices: 91660625--91660763 Score: 81
Period size: 27 Copynumber: 5.0 Consensus size: 27
91660615 AAATAAAAAC
* *
91660625 ATATAATAACATAATATA-ATTAGTAGT-
1 ATATAATAA-ATAATATATAATA-TAATA
*
91660652 ATATAAT-AA-AATATATAATATGAATC
1 ATATAATAAATAATATATAATAT-AATA
* * * *
91660678 GTATAATATTTAGAATATATAATAATATAAA
1 ATATAATA--AATAATATATAAT-ATA-ATA
*
91660709 ATATAGTAAATAAATATATAATATAATA
1 ATATAATAAAT-AATATATAATATAATA
*
91660737 A-ATAATAAATAATATATACATAAAATA
1 ATATAATAAATAATATATA-ATATAATA
91660764 TATTAGATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
24 7 0.08
25 6 0.07
26 15 0.17
27 22 0.25
28 3 0.03
29 5 0.06
30 21 0.24
31 9 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
ATATAATAAATAATATATAATATAATA
Found at i:91660763 original size:23 final size:23
Alignment explanation
Indices: 91660717--91660760 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
91660707 AAATATAGTA
91660717 AATAAATATATAATATAATAAAT
1 AATAAATATATAATATAATAAAT
91660740 AATAAATA-AT-ATATACATAAA
1 AATAAATATATAATATA-ATAAA
91660761 ATATATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAAATATATAATATAATAAAT
Found at i:91661992 original size:48 final size:48
Alignment explanation
Indices: 91661928--91662038 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 48
91661918 TTGTTTGGGT
91661928 TTGGG-TGTAA-CGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
* *
91661974 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCTAAAGGTTTAGGCTAA
1 TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
91662022 TTGGGTTGTAACCGGGT
1 TTGGGTTGTAACCGGGT
91662039 GCTGGGTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 5 0.08
47 5 0.08
48 51 0.84
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.34
Consensus pattern (48 bp):
TTGGGTTGTAACCGGGTTAATAGATTTTGGGCCAAAGGTTTAAGCTAA
Found at i:91663152 original size:27 final size:27
Alignment explanation
Indices: 91663105--91663208 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
91663095 CGAGGCTGCT
*
91663105 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGACAG-AGCCACCAGATAC
*
91663132 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGACAGAGCCACCAGATAC
*
91663158 AGAAATATGTGACAGAGCCACCAGAT-C
1 AGATAT-TGTGACAGAGCCACCAGATAC
* * *
91663185 AGATAATTATGGCATAGCCACCAG
1 AGAT-ATTGTGACAGAGCCACCAG
91663209 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.11
27 55 0.85
28 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
AGATATTGTGACAGAGCCACCAGATAC
Found at i:91664869 original size:25 final size:26
Alignment explanation
Indices: 91664833--91664887 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
91664823 TGAAATTTCC
91664833 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
91664859 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
91664884 ATCA
1 ATCA
91664888 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:91667132 original size:40 final size:40
Alignment explanation
Indices: 91667077--91667182 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
91667067 TACGAATTGT
* *
91667077 TACACCGGCCTGAAGCTTGCTAGGCACTGAGCCCGATA-A
1 TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
* * * *
91667116 GTACACTGGCATGAAGCTTACTAGGTATTTAGCCCGATAGA
1 -TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
* *
91667157 TACACTAGCACGAAGCTTGCTAGGCA
1 TACACTGGCATGAAGCTTGCTAGGCA
91667183 ACAAGGCCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (40 bp):
TACACTGGCATGAAGCTTGCTAGGCACTGAGCCCGATAGA
Found at i:91671192 original size:22 final size:23
Alignment explanation
Indices: 91671167--91671222 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
91671157 AAATTATTGT
91671167 TTATAAAATA-TAAAA-TTACTTA
1 TTATAAAATATTAAAATTTAC-TA
91671189 TTATATAAATAATTAAAATTTACTA
1 TTATA-AAAT-ATTAAAATTTACTA
91671214 TT-TAAAATA
1 TTATAAAATA
91671223 AAAGTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 6 0.20
23 8 0.27
24 3 0.10
25 9 0.30
26 4 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATAAAATATTAAAATTTACTA
Found at i:91671207 original size:25 final size:23
Alignment explanation
Indices: 91671170--91671223 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
91671160 TTATTGTTTA
91671170 TAAAAT-A-TAAAA-TTACTTATT
1 TAAAATAATTAAAATTTAC-TATT
91671191 ATATAAATAATTAAAATTTACTATT
1 -TA-AAATAATTAAAATTTACTATT
91671216 TAAAATAA
1 TAAAATAA
91671224 AAGTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 3 0.11
25 9 0.32
26 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAATAATTAAAATTTACTATT
Found at i:91708321 original size:19 final size:18
Alignment explanation
Indices: 91708292--91708332 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 18
91708282 TTGTAAAAGT
91708292 TGTGAAAATGAGTAGAAAAA
1 TGTGAAAATGAG-AG-AAAA
91708312 TGTG-AAATGAGAGAAAA
1 TGTGAAAATGAGAGAAAA
91708329 TGTG
1 TGTG
91708333 TAACACCCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 7 0.33
20 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (18 bp):
TGTGAAAATGAGAGAAAA
Found at i:91709754 original size:279 final size:279
Alignment explanation
Indices: 91709254--91709811 Score: 1107
Period size: 279 Copynumber: 2.0 Consensus size: 279
91709244 TTTAGAGTTC
91709254 AACCAAAAATGTACCAAAAGGGCTTTGATAGTGTGGACGACTTCGACTTCGACAATCCCGAGTCC
1 AACCAAAAATGTACCAAAAGGGCTTTGATAGTGTGGACGACTTCGACTTCGACAATCCCGAGTCC
91709319 GATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAAAGAAACGGAATAAGCATTTAATGCTT
66 GATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAAAGAAACGGAATAAGCATTTAATGCTT
91709384 AGTAAGTTTTGAGCAATGAAATCATGCACAACTGAAGTATAGCATTCATACGACTAAACGAATAA
131 AGTAAGTTTTGAGCAATGAAATCATGCACAACTGAAGTATAGCATTCATACGACTAAACGAATAA
*
91709449 TTTCATATACACATTTTCTCACAATCATACCTACTTCACATTTTCAACCCTTATATTCATACATA
196 TTTCATATACACATTTTCTCACAATCATACCTACTTCACATTTCCAACCCTTATATTCATACATA
91709514 AGAAATCAACTTGACTAAA
261 AGAAATCAACTTGACTAAA
91709533 AACCAAAAATGTACCAAAAGGGCTTTGATAGTGTGGACGACTTCGACTTCGACAATCCCGAGTCC
1 AACCAAAAATGTACCAAAAGGGCTTTGATAGTGTGGACGACTTCGACTTCGACAATCCCGAGTCC
91709598 GATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAAAGAAACGGAATAAGCATTTAATGCTT
66 GATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAAAGAAACGGAATAAGCATTTAATGCTT
91709663 AGTAAGTTTTGAGCAATGAAATCATGCACAACTGAAGTATAGCATTCATACGACTAAACGAATAA
131 AGTAAGTTTTGAGCAATGAAATCATGCACAACTGAAGTATAGCATTCATACGACTAAACGAATAA
91709728 TTTCATATACACATTTTCTCACAATCATACCTACTTCACATTTCCAACCCTTATATTCATACATA
196 TTTCATATACACATTTTCTCACAATCATACCTACTTCACATTTCCAACCCTTATATTCATACATA
91709793 AGAAATCAACTTGACTAAA
261 AGAAATCAACTTGACTAAA
91709812 CGCCGGAAGC
Statistics
Matches: 278, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 278 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (279 bp):
AACCAAAAATGTACCAAAAGGGCTTTGATAGTGTGGACGACTTCGACTTCGACAATCCCGAGTCC
GATAGCTGACGAACCAAAATCTATAAAACAGAGAATCAAAGAAACGGAATAAGCATTTAATGCTT
AGTAAGTTTTGAGCAATGAAATCATGCACAACTGAAGTATAGCATTCATACGACTAAACGAATAA
TTTCATATACACATTTTCTCACAATCATACCTACTTCACATTTCCAACCCTTATATTCATACATA
AGAAATCAACTTGACTAAA
Found at i:91710053 original size:40 final size:40
Alignment explanation
Indices: 91709963--91710172 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
91709953 ACCCAATTAT
* ** *
91709963 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
91710001 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
91710041 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
91710081 CTTCGGGGCTTAGCCCGGA-ATTAGTAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * *
91710121 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
91710161 CTTCGGGACTTA
1 CTTCGGGACTTA
91710173 ACCCCGTTAG
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 121 0.81
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:91722950 original size:77 final size:77
Alignment explanation
Indices: 91722860--91723027 Score: 255
Period size: 77 Copynumber: 2.2 Consensus size: 77
91722850 ATGGCCTGAC
*
91722860 ACACAGTCGTGTGGGACACACGGGCGTATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
1 ACACAGTCGTGTGGGACACACGAGCGTATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
*
91722925 CATGGTTAATAG
66 CACGGTTAATAG
* * ** * *
91722937 ACACAGTCGTGTGGGATACACGAGCGTCTCTGAAGCTGTGTTGATACATGGGCTAAAAGCATATA
1 ACACAGTCGTGTGGGACACACGAGCGTATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
91723002 CACGGTTAATAG
66 CACGGTTAATAG
*
91723014 ACACGGTCGTGTGG
1 ACACAGTCGTGTGG
91723028 CCCAACACGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (77 bp):
ACACAGTCGTGTGGGACACACGAGCGTATCCCAAGCTGTATTGATACATGGGATAAAAGCATATA
CACGGTTAATAG
Found at i:91725113 original size:24 final size:25
Alignment explanation
Indices: 91725081--91725140 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
91725071 TTTCATTTGT
91725081 TTTTATTTTTATT-TTCAATTG-TAA
1 TTTTATTTTTATTGTT-AATTGTTAA
*
91725105 TTTTATTTTTATTGTTAATTGTTTTA
1 TTTTATTTTTATTGTTAATTG-TTAA
91725131 TTTTATTTTT
1 TTTTATTTTT
91725141 TAGACTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 18 0.56
25 2 0.06
26 12 0.38
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTATTGTTAATTGTTAA
Done.