Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 157 of 284
Found at i:52550870 original size:30 final size:30
Alignment explanation
Indices: 52550836--52550896 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52550826 TATTTAATAC
*
52550836 AAACTTTGGAAAAATTACGCTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
52550866 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
52550896 A
1 A
52550897 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:52556136 original size:49 final size:51
Alignment explanation
Indices: 52556010--52556142 Score: 189
Period size: 51 Copynumber: 2.6 Consensus size: 51
52556000 TCTATTGTGA
* *
52556010 GGTCACATGTGTAGTACTAAGTACAGGCTACTATGCGTACTCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAACTTC
* * * *
52556061 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAACTTC
*
52556110 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
52556143 TACGTACCAG
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 30 0.41
50 2 0.03
51 41 0.56
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAACTTC
Found at i:52565958 original size:33 final size:33
Alignment explanation
Indices: 52565921--52565986 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
52565911 CTAAACCCAC
52565921 AACCTACTTATCCATGATCGAACCATGTCCCTA
1 AACCTACTTATCCATGATCGAACCATGTCCCTA
*
52565954 AACCTACTTATCTATGATCGAACCATGTCCCTA
1 AACCTACTTATCCATGATCGAACCATGTCCCTA
52565987 GAAGACTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (33 bp):
AACCTACTTATCCATGATCGAACCATGTCCCTA
Found at i:52567035 original size:34 final size:34
Alignment explanation
Indices: 52566997--52567063 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
52566987 ACTAAGGCTA
*
52566997 TTTTTGTGATGCAATTGCCCATATCTCTATACAC
1 TTTTTGTGATGCAATTGCCCATATATCTATACAC
52567031 TTTTTGTGATGCAATTGCCCATATATCTATACA
1 TTTTTGTGATGCAATTGCCCATATATCTATACA
52567064 AGGGCCACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (34 bp):
TTTTTGTGATGCAATTGCCCATATATCTATACAC
Found at i:52569706 original size:15 final size:16
Alignment explanation
Indices: 52569688--52569721 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
52569678 TCTGGTATCA
*
52569688 TGGATTTCTTTATT-T
1 TGGATTTATTTATTCT
52569703 TGGATTTATTTATTCT
1 TGGATTTATTTATTCT
52569719 TGG
1 TGG
52569722 CTTCTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (16 bp):
TGGATTTATTTATTCT
Found at i:52572576 original size:51 final size:51
Alignment explanation
Indices: 52572500--52572639 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 51
52572490 TGAGGTCGCA
*
52572500 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAGAT-ACTTAGATCACG
* *** ** *
52572551 TGTGTAGTAATAAGTGCAGGCTACTACATGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAGATACTTAGATCACG
52572601 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAGATA
52572640 GCTTTGGCTA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
50 43 0.58
51 31 0.42
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAGATACTTAGATCACG
Found at i:52574242 original size:18 final size:18
Alignment explanation
Indices: 52574221--52574279 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
52574211 CTCAATTTAC
52574221 CCTATAGTAGTCCTACTA
1 CCTATAGTAGTCCTACTA
52574239 CCTATAG-AG---T--T-
1 CCTATAGTAGTCCTACTA
*
52574250 CC-ATTGTAGTCCTACTA
1 CCTATAGTAGTCCTACTA
52574267 CCTATAGTAGTCC
1 CCTATAGTAGTCC
52574280 CTCAGTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 16
0.63 0.04 0.33
Matches are distributed among these distances:
10 3 0.10
11 4 0.13
12 1 0.03
14 2 0.06
16 1 0.03
17 4 0.13
18 16 0.52
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (18 bp):
CCTATAGTAGTCCTACTA
Found at i:52581297 original size:17 final size:17
Alignment explanation
Indices: 52581275--52581316 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
52581265 GTTCTCTTAC
52581275 CCGTGTGAGTCACACGG
1 CCGTGTGAGTCACACGG
52581292 CCGTGTGAGTCACACGG
1 CCGTGTGAGTCACACGG
*
52581309 TCGTGTGA
1 CCGTGTGA
52581317 CCCCTACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (17 bp):
CCGTGTGAGTCACACGG
Found at i:52588086 original size:14 final size:15
Alignment explanation
Indices: 52588061--52588093 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
52588051 TATTTTCAGT
52588061 ATTTATTATGTGTGA
1 ATTTATTATGTGTGA
52588076 ATTTA-TATGTGTGA
1 ATTTATTATGTGTGA
52588090 ATTT
1 ATTT
52588094 TTTGTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTTATTATGTGTGA
Found at i:52589266 original size:45 final size:43
Alignment explanation
Indices: 52589217--52589324 Score: 121
Period size: 45 Copynumber: 2.5 Consensus size: 43
52589207 AAGATTTCTG
*
52589217 ATATGTGTTCTCGTGTAAGACCACGTCAGGGACATTGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCACGTCAGGGACATCGGCATCG-T
* * **
52589262 ATATGTGGTTACGTGTAAGACCATGTTTGGGACATCGGCATCGT
1 ATATGT-GTTTCGTGTAAGACCACGTCAGGGACATCGGCATCGT
*
52589306 AT-T-TGATTCGTGTAAGACC
1 ATATGTGTTTCGTGTAAGACC
52589325 CTGTCTAGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 13 0.24
42 1 0.02
43 1 0.02
44 3 0.05
45 34 0.62
46 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
ATATGTGTTTCGTGTAAGACCACGTCAGGGACATCGGCATCGT
Found at i:52606489 original size:43 final size:43
Alignment explanation
Indices: 52606441--52606555 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
52606431 TGTGATTACA
* *
52606441 TGTAAGACCATGTCTGGGACATTGGCATTGT-ATTGAGATTCCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTCAAT-AGATTCCG
* *
52606484 TGTAAGACCATGTCTGGGACATTGGCATCGTCAATCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTCAATAGATTCCG
* *
52606527 TGTAAGACCTTGTCT-GGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
52606556 ATATGTGATA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 13 0.20
43 50 0.77
44 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTCAATAGATTCCG
Found at i:52619323 original size:42 final size:43
Alignment explanation
Indices: 52619223--52619325 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 43
52619213 CAATGCCGAC
* * * * **
52619223 GTCCCGAACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCGGACATGGTCTTACACGAAATTCAATATCGATGCCAAT
* * *
52619266 GTCTCAGACAGGGTCTTACACGAAATT-ATATAT-GATGCCAAT
1 GTCCCGGACATGGTCTTACACGAAATTCA-ATATCGATGCCAAT
52619308 GTCCCGGACATGGTCTTA
1 GTCCCGGACATGGTCTTA
52619326 TACGTAAAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 23 0.49
43 24 0.51
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
GTCCCGGACATGGTCTTACACGAAATTCAATATCGATGCCAAT
Found at i:52622784 original size:20 final size:19
Alignment explanation
Indices: 52622741--52622777 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52622731 AGGGACTAAA
* *
52622741 ATGAAAAGTTGTAAAATTG
1 ATGAAAAATTCTAAAATTG
52622760 ATGAAAAATTCTAAAATT
1 ATGAAAAATTCTAAAATT
52622778 TTATGAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
ATGAAAAATTCTAAAATTG
Found at i:52625388 original size:31 final size:31
Alignment explanation
Indices: 52625352--52625412 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
52625342 AGTACAACTT
52625352 ACTCATCACCATCCAATACAACTCATATTGC
1 ACTCATCACCATCCAATACAACTCATATTGC
52625383 ACTCATCACCATCCAATACAACTCATATTG
1 ACTCATCACCATCCAATACAACTCATATTG
52625413 TATACATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (31 bp):
ACTCATCACCATCCAATACAACTCATATTGC
Found at i:52625649 original size:49 final size:49
Alignment explanation
Indices: 52625576--52625694 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
52625566 TGCTGACGCT
* * *
52625576 ATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGTGAG-GCCGATGCC
1 ATGTCCCAGACA-GGTCTTACACTAGCTCTCATACA-TCAGTGCCGATGCC
* * * *
52625626 ATGTCCCAGATAGGTCTTACACTATCTCTCATCCATCAGTGTCGATGCC
1 ATGTCCCAGACAGGTCTTACACTAGCTCTCATACATCAGTGCCGATGCC
*
52625675 ATGTCCCAGACATGTCTTAC
1 ATGTCCCAGACAGGTCTTAC
52625695 TCTGACACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.05
49 45 0.76
50 11 0.19
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTAGCTCTCATACATCAGTGCCGATGCC
Found at i:52625789 original size:48 final size:48
Alignment explanation
Indices: 52625718--52625840 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
52625708 AAGCTGACAT
* * **
52625718 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
* *
52625766 CATGTCCCAAACATGTCTTACACT-GTCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTTAAATATCACGAGGCCGATG
* *
52625814 CATGTCCTAGACATGTATTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
52625841 ACACATATCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 62 0.97
49 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
Found at i:52625845 original size:142 final size:143
Alignment explanation
Indices: 52625576--52625837 Score: 315
Period size: 141 Copynumber: 1.9 Consensus size: 143
52625566 TGCTGACGCT
* * *
52625576 ATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGTGAGGCCGATGCCATGTCCCAGATAGGT
1 ATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATGCCATGTCCCAAACAGGT
* * * *
52625641 CTTACACTATCTCTCATCCATCAGTGTCGATGCCATGTCCCAGACATGTCTTACTCTGACACACC
66 CTTACACTATCTCTAATCCATCAGTGCCGATGCCATGTCCCAGACATGTATTACACTGACACACC
52625706 ACAAGCTGACATC
131 ACAAGCTGACATC
* *
52625719 ATGTCTCAGACA-GGTCTTACACTAGCTTGT-ATATCA-CGAGGCCGATG-CATGTCCCAAACAT
1 ATGTCCCAGACATGGTCTTACACTAGCTT-TCATAT-AGCGAGGCCGATGCCATGTCCCAAACAG
* * *
52625780 GTCTTACACTGTCT-TAAATATC-TCGAG-GCCGATG-CATGTCCTAGACATGTATTACACT
64 GTCTTACACTATCTCT-AAT-CCATC-AGTGCCGATGCCATGTCCCAGACATGTATTACACT
52625838 AGCACACATA
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
140 22 0.22
141 34 0.33
142 33 0.32
143 13 0.13
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (143 bp):
ATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATGCCATGTCCCAAACAGGT
CTTACACTATCTCTAATCCATCAGTGCCGATGCCATGTCCCAGACATGTATTACACTGACACACC
ACAAGCTGACATC
Found at i:52625849 original size:48 final size:48
Alignment explanation
Indices: 52625749--52625851 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 48
52625739 ACTAGCTTGT
* **
52625749 ATATCACGAGGCCGATGCATGTCCCAAACATGTCTTACACTGTCTTAA
1 ATATCACGAGGCCGATGCATGTCCCAAACATGTATTACACTGTCACAA
* * * *
52625797 ATATCTCGAGGCCGATGCATGTCCTAGACATGTATTACACTAG-CACAC
1 ATATCACGAGGCCGATGCATGTCCCAAACATGTATTACACT-GTCACAA
52625845 ATATCAC
1 ATATCAC
52625852 CCATTATCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
ATATCACGAGGCCGATGCATGTCCCAAACATGTATTACACTGTCACAA
Found at i:52626825 original size:33 final size:33
Alignment explanation
Indices: 52626786--52626884 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
52626776 TCAAGGGTTA
52626786 TCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGC
1 TCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGC
* *** *
52626819 TCCATAG-TA-AG-AAATTTCAAGGGTT-----C
1 TCCATAGCTAGGGTTTGTTTCAA-GCTTCCAAGC
52626845 TCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGC
1 TCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGC
52626878 TCCATAG
1 TCCATAG
52626885 TAAGTGATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
26 8 0.17
27 2 0.04
28 4 0.09
29 6 0.13
30 6 0.13
31 4 0.09
32 2 0.04
33 15 0.32
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (33 bp):
TCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGC
Found at i:52626863 original size:59 final size:59
Alignment explanation
Indices: 52626771--52626888 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
52626761 CATTAGGCCA
52626771 AAATTTCAAGGGTTATCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAG
1 AAATTTCAAGGGTTATCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAG
*
52626830 AAATTTCAAGGGTTCTCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAG
1 AAATTTCAAGGGTTATCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAG
52626889 TGATTCCAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (59 bp):
AAATTTCAAGGGTTATCCATAGCTAGGGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAG
Found at i:52641780 original size:39 final size:39
Alignment explanation
Indices: 52641748--52641832 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
52641738 GCGGGGCTTT
* *
52641748 AGCCCGGACATATTTCCAGCACGTAGCCTGCGGACCTTA
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTA
* * * *
52641787 AGTCCGGATATAATTCCAGCACATAGCCTGCAGACCCTA
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTA
52641826 AGTCCCG
1 AG-CCCG
52641833 ATATACATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.20
Consensus pattern (39 bp):
AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTA
Found at i:52641836 original size:39 final size:39
Alignment explanation
Indices: 52641761--52641837 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
52641751 CCGGACATAT
* * * *
52641761 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCCGATATAA
52641800 TTCCAGCACATAGCCTGCAGACCCTAAGTCCCGATATA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCCGATATA
52641838 CATCACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCCTAAGTCCCGATATAA
Found at i:52644185 original size:21 final size:20
Alignment explanation
Indices: 52644146--52644185 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52644136 TTTGTTCTTC
*
52644146 TTTTCTTATTTCAATTAATA
1 TTTTCTTATTTCAAATAATA
*
52644166 TTTTTTTATTTCAAAATAAT
1 TTTTCTTATTTC-AAATAAT
52644186 GCAAATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTCTTATTTCAAATAATA
Found at i:52650105 original size:48 final size:48
Alignment explanation
Indices: 52650034--52650256 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 48
52650024 AAGCTGACGC
* * * *
52650034 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * ** * * *
52650082 CATGTCCTAGACATGTCTTACACTAGC-TCT-CGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * *
52650128 CATG-CCCAGATATGTCTTACACTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * *
52650175 CATGTCCCAGACATGTCTTACACTGGCTCT-CAT-GCT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TATATATCTCGAGGCCGATG
* * **
52650221 CATGTCCCATAAATGTCTTACACTAGCACATATATC
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATC
52650257 ACACATTATC
Statistics
Matches: 137, Mismatches: 32, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
45 19 0.14
46 49 0.36
47 19 0.14
48 49 0.36
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:52650220 original size:46 final size:46
Alignment explanation
Indices: 52650034--52650244 Score: 169
Period size: 48 Copynumber: 4.5 Consensus size: 46
52650024 AAGCTGACGC
* * * * * * * *
52650034 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTGGC-TCT-CATCTCGTGGCTGATG
* * * * *
52650082 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGTC-GATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTC-GTGGCTGATG
* * *
52650128 CATG-CCCAGATATGTCTTACACTGGCT-TAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT---CATCTCGTGGCTGATG
52650175 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCAT-CTCGTGGCTGATG
* *
52650221 CATGTCCCATAAATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
52650245 AGCACATATA
Statistics
Matches: 132, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 20 0.15
46 45 0.34
47 18 0.14
48 47 0.36
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTGGCTGATG
Found at i:52650221 original size:93 final size:93
Alignment explanation
Indices: 52650034--52650247 Score: 252
Period size: 93 Copynumber: 2.3 Consensus size: 93
52650024 AAGCTGACGC
* * ** *
52650034 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGAAGCATGTCCTAGACATGTC
1 CATGTCCCAGAAATGTCTTACACTAGCTTAAATATCGCGAGGCCGAAGCATGTCCCAGACATGTC
* *
52650099 TTACACTAGCTCTCGTCTCAATGTCGATG
66 TTACACTAGCTCTCATCT-AATGGCGATG
* * * * *
52650128 CATG-CCCAGATATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCCAGAAATGTCTTACACTAGCTTAAATATCGCGAGGCCGAAGCATGTCCCAGACATGTC
* *
52650192 TTACACTGGCTCTCATGCT-GTGGCTGATG
66 TTACACTAGCTCTCAT-CTAATGGC-GATG
*
52650221 CATGTCCCATAAATGTCTTACACTAGC
1 CATGTCCCAGAAATGTCTTACACTAGC
52650248 ACATATATCA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 3 0.03
93 73 0.72
94 25 0.25
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGAAATGTCTTACACTAGCTTAAATATCGCGAGGCCGAAGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTAATGGCGATG
Found at i:52665069 original size:22 final size:22
Alignment explanation
Indices: 52665022--52665070 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
52665012 GCGAATGTAG
*
52665022 GATTAAAATTAAATCTTTAAGG
1 GATTAAAATTAAATCTTTAAGA
*
52665044 GATTAAAATT-AATTTTTAATGA
1 GATTAAAATTAAATCTTTAA-GA
52665066 GATTA
1 GATTA
52665071 GTCACGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (22 bp):
GATTAAAATTAAATCTTTAAGA
Found at i:52665377 original size:22 final size:23
Alignment explanation
Indices: 52665347--52665389 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
52665337 GCCAATGAGA
*
52665347 GATTTAAATTAATTT-ATTAAGG
1 GATTAAAATTAATTTAATTAAGG
*
52665369 GATTAAAATTATTTTAATTAA
1 GATTAAAATTAATTTAATTAA
52665390 AATAAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (23 bp):
GATTAAAATTAATTTAATTAAGG
Found at i:52669485 original size:43 final size:43
Alignment explanation
Indices: 52669325--52669496 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
52669315 CATAGGATTC
*
52669325 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * * *
52669368 CGAT-TTGAGATTTATGTGTAAGACAATGTCTGGGACATCGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
52669412 C-ATATATGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
52669454 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
52669497 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 27 0.27
43 42 0.42
44 28 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:52671924 original size:52 final size:51
Alignment explanation
Indices: 52671815--52671981 Score: 241
Period size: 52 Copynumber: 3.3 Consensus size: 51
52671805 CGGTGGCCAA
* * *
52671815 CACATAGTACCACCCTTGT-AGTCAAAGTTATCTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAGTGGCCTT
*
52671866 CACATAGTACAACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGTGGCCTT
* *
52671918 CACATAGTACCGCACTTGTGACC-AAGCTATC-TCTTCTCAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
52671967 CACATAGTACCACAC
1 CACATAGTACCACAC
52671982 CTGAGTCACT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 31 0.29
51 34 0.32
52 41 0.39
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (51 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
Found at i:52680454 original size:43 final size:43
Alignment explanation
Indices: 52680395--52680514 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
52680385 GAACTCATTG
* *
52680395 ACCGGCATTA-CGCCTGCTAAGCTCGAAGCCCGATATTAACTC
1 ACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAACTC
* *
52680437 ACCGGTATTATAGCCTGCTAGGCTCGAAGCCCAATATTAACTC
1 ACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAACTC
* *
52680480 ACCGGCATTGTAGCCTGCTAGGCTTGAAGGCCCGA
1 ACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
52680515 ATAGTACCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 9 0.13
43 54 0.79
44 5 0.07
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (43 bp):
ACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAACTC
Found at i:52687285 original size:7 final size:7
Alignment explanation
Indices: 52687273--52687304 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52687263 TGAGTGAGAC
52687273 TGAGCAG
1 TGAGCAG
52687280 TGAGCAG
1 TGAGCAG
52687287 TGAGCAG
1 TGAGCAG
*
52687294 TGAACAG
1 TGAGCAG
52687301 TGAG
1 TGAG
52687305 ACAGAGCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.41, T:0.16
Consensus pattern (7 bp):
TGAGCAG
Found at i:52688310 original size:20 final size:22
Alignment explanation
Indices: 52688268--52688313 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
52688258 TTCCTTTTTG
*
52688268 TTTT-TTTTACTTTTGTTATTA
1 TTTTATTTTACTTTTGTTACTA
52688289 TTTTATTTTA-TTTT-TTACTA
1 TTTTATTTTACTTTTGTTACTA
52688309 TTTTA
1 TTTTA
52688314 CTACTACTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTATTTTACTTTTGTTACTA
Found at i:52706296 original size:49 final size:49
Alignment explanation
Indices: 52706237--52706553 Score: 306
Period size: 49 Copynumber: 6.5 Consensus size: 49
52706227 GAAGTCAATA
* *
52706237 CCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCCAATG
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG
* * * *
52706286 CCATGTCCCAGATAGGTCTTACACTGGCTCTCATATATCG-GTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGATG
* * ** * * *
52706335 CCATGTCCCAGACATGGTCTTAAACTGGCTAGCA-A-ATTGAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCGAGGCCGATG
* * * * *
52706383 TCGTGTCCCAAACAGGTCTTACACTGAATTTCATATATCAAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG
* * * * *
52706432 CCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATC-AGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGATG
* *
52706481 CCATGTCTCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCCGATG
*
52706530 -CATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
52706554 AGCTCTCGTC
Statistics
Matches: 219, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
47 14 0.06
48 47 0.21
49 139 0.63
50 19 0.09
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG
Found at i:52706449 original size:146 final size:146
Alignment explanation
Indices: 52706184--52706501 Score: 458
Period size: 146 Copynumber: 2.2 Consensus size: 146
52706174 GATAAAAAGC
* * * * *
52706184 CGATGCCATATCCCAGACATAGTCTTACACTGGCTACCACATTGAAGTCAATACCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTACCAAATTGAAGTCAATACCATGTCCCAAA
* * * *
52706249 TAGGTCTTACACTGACTTTCATATATCGAGGCCAATGCCATGTCCCAGATAGGTCTTACACTGGC
66 CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
*
52706314 TCTCATATATCGGTGT
131 TCTCATATATCAGTGT
* * ** *
52706330 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTAGCAAATTGAAGTCGATGTCGTGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTACCAAATTGAAGTCAATACCATGTCCCAAA
* *
52706395 CAGGTCTTACACTGAATTTCATATATCAAGGCCGATGCCATGTCCCAGGCAGGTCTTACACTGGC
66 CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
*
52706460 TCTCATCTATCAGTGT
131 TCTCATATATCAGTGT
*
52706476 CGATGCCATGTCTCAGACA-GGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
52706502 CACTAGCTTG
Statistics
Matches: 153, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
145 7 0.05
146 146 0.95
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (146 bp):
CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTACCAAATTGAAGTCAATACCATGTCCCAAA
CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
TCTCATATATCAGTGT
Found at i:52706536 original size:146 final size:146
Alignment explanation
Indices: 52706184--52706649 Score: 450
Period size: 146 Copynumber: 3.2 Consensus size: 146
52706174 GATAAAAAGC
* * * * * * * * **
52706184 CGATGCCATATCCCAGACATAGTCTTACACTGGCTACCACATTGAAGTCAATACCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTAGCTAGCAAATTGAAGCCGATGTCATGTCCCAGA
* * * *
52706249 TAGGTCTTACACTGACTTTCATATATCGAGGCCAATGCCATGTCCCAGATAGGTCTTACACTGGC
66 CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
*
52706314 TCTCATATATCGGTGT
131 TCTCATATATCAGTGT
* * * *
52706330 CGATGCCATGTCCCAGACATGGTCTTAAACTGGCTAGCAAATTGAAGTCGATGTCGTGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTAGCTAGCAAATTGAAGCCGATGTCATGTCCCAGA
* *
52706395 CAGGTCTTACACTGAATTTCATATATCAAGGCCGATGCCATGTCCCAGGCAGGTCTTACACTGGC
66 CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
*
52706460 TCTCATCTATCAGTGT
131 TCTCATATATCAGTGT
* * * * * *
52706476 CGATGCCATGTCTCAGACA-GGTCTTACACTAGCTTGTATATCTCGAGGCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTAAACTAGCTAGCAAAT-T-GAAGCCGATGTCATGTCCCA
* ** * * * * *
52706539 GACATGTCTTACACT--AGCTC-TCGTCTCAATGCCAATG-CATGTCTCAGACATGTCTTACACT
64 GACAGGTCTTACACTGAATTTCAT-ATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACT
* * *
52706600 GGCACTCAT-GAT--GTGG
128 GGCTCTCATATATCAGTGT
* *
52706616 CTAATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 C-GATGCCATGTCCCAGACATGGTCTTAAACTAGCT
52706650 CTCGTCTCAA
Statistics
Matches: 272, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
140 30 0.11
141 3 0.01
142 2 0.01
143 30 0.11
144 14 0.05
145 17 0.06
146 168 0.62
147 8 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (146 bp):
CGATGCCATGTCCCAGACATGGTCTTAAACTAGCTAGCAAATTGAAGCCGATGTCATGTCCCAGA
CAGGTCTTACACTGAATTTCATATATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGC
TCTCATATATCAGTGT
Found at i:52706590 original size:46 final size:46
Alignment explanation
Indices: 52706482--52706691 Score: 235
Period size: 46 Copynumber: 4.5 Consensus size: 46
52706472 GTGTCGATGC
* * ** * * *
52706482 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCTCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCAATG
*
52706530 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
1 CATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
* * * * * *
52706576 CATGTCTCAGACATGTCTTACACTGGCACTC--ATGATGTGGCTAATG
1 CATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCA-AT-GCCAATG
*
52706622 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
1 CATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
52706668 CATGTCTCAGACATGTCTTACACT
1 CATGTCTCAGACATGTCTTACACT
52706692 GGCACTCATG
Statistics
Matches: 135, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 102 0.76
47 3 0.02
48 27 0.20
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
Found at i:52706641 original size:92 final size:92
Alignment explanation
Indices: 52706527--52706737 Score: 422
Period size: 92 Copynumber: 2.3 Consensus size: 92
52706517 CTCGAGGCCG
52706527 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCATGTCTCAGACATGT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCATGTCTCAGACATGT
52706592 CTTACACTGGCACTCATGATGTGGCTA
66 CTTACACTGGCACTCATGATGTGGCTA
52706619 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCATGTCTCAGACATGT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCATGTCTCAGACATGT
52706684 CTTACACTGGCACTCATGATGTGGCTA
66 CTTACACTGGCACTCATGATGTGGCTA
52706711 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
52706738 GGTTCACATA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 119 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATGCATGTCTCAGACATGT
CTTACACTGGCACTCATGATGTGGCTA
Found at i:52706685 original size:138 final size:140
Alignment explanation
Indices: 52706424--52706739 Score: 327
Period size: 138 Copynumber: 2.2 Consensus size: 140
52706414 CATATATCAA
* * * * * * *
52706424 GGCCGATGCCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCAGTGTC-GATGCCATGTC
1 GGCCAATG-CATGTCCCAGACATGTCTTACACTGGCACTCAT-GAT--GTGGCTAATG-CATGTC
* * * * *
52706488 TCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACAC
61 CCAGACAGGTCTTACACTAGCTTCTACATCTCAAGGCCAATGCATGTCCCAGACATGTCTTACAC
* *
52706553 TAGCTCTCGTC-TCAAT
126 TAGCACTCATCAT--AT
*
52706569 -GCCAATGCATGTCTCAGACATGTCTTACACTGGCACTCATGATGTGGCTAATGCATGTCCCAGA
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTAATGCATGTCCCAGA
* * * * *
52706633 CATGTCTTACACTAGC-TCT-CGTCTCAATGCCAATGCATGTCTCAGACATGTCTTACACTGGCA
66 CAGGTCTTACACTAGCTTCTACATCTCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCA
* *
52706696 CTCATGATGT
131 CTCATCATAT
*
52706706 GGCTAATGCATGTCCCAGACATGTCTTACACTGG
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGG
52706740 TTCACATACC
Statistics
Matches: 144, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
137 1 0.01
138 71 0.49
139 3 0.02
140 29 0.20
141 3 0.02
142 2 0.01
143 29 0.20
144 6 0.04
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (140 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTAATGCATGTCCCAGA
CAGGTCTTACACTAGCTTCTACATCTCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCA
CTCATCATAT
Found at i:52706714 original size:46 final size:46
Alignment explanation
Indices: 52706527--52706739 Score: 236
Period size: 46 Copynumber: 4.6 Consensus size: 46
52706517 CTCGAGGCCG
* * * * * *
52706527 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATGAT--GTGGCTA
*
52706573 ATGCATGTCTCAGACATGTCTTACACTGGCACTCATGATGTGGCTA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTA
* * * * * *
52706619 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATGAT--GTGGCTA
*
52706665 ATGCATGTCTCAGACATGTCTTACACTGGCACTCATGATGTGGCTA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTA
52706711 ATGCATGTCCCAGACATGTCTTACACTGG
1 ATGCATGTCCCAGACATGTCTTACACTGG
52706740 TTCACATACC
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 3 0.02
46 133 0.96
47 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTA
Found at i:52707149 original size:29 final size:30
Alignment explanation
Indices: 52707072--52707152 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
52707062 TATTTTGGGT
* *
52707072 AAAATGACCATTTTGA-CCTTAGACTTTCAC
1 AAAATGACCATTTT-ACCCCTAGACTTTCAA
**
52707102 AAAATGACCATTTCGCCCCTA-ACTTTCAA
1 AAAATGACCATTTTACCCCTAGACTTTCAA
*
52707131 AAAATGACTATTTTACCCCTAG
1 AAAATGACCATTTTACCCCTAG
52707153 GCCCGAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (30 bp):
AAAATGACCATTTTACCCCTAGACTTTCAA
Found at i:52712501 original size:42 final size:42
Alignment explanation
Indices: 52712403--52712549 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
52712393 ATGCAAACAC
* * * *
52712403 CCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGT
1 CCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCAATGT
* *
52712446 CCCAGGCAAGGTCTTACACGAAATCAAATACGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCAAATACGATGCCAATGT
* **
52712488 CTCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAACAT
1 CCCAGACATGGTCTTACACG-AAATCA-AA-TACGATGCCAATGT
* *
52712532 CCCAGACGTAGTCTTACA
1 CCCAGACATGGTCTTACA
52712550 TGATAACACA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.32
43 31 0.36
44 27 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAAATCAAATACGATGCCAATGT
Found at i:52717032 original size:19 final size:19
Alignment explanation
Indices: 52717008--52717045 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
52716998 GTTCTACGCA
52717008 CTCTTATGGCATGCACTAT
1 CTCTTATGGCATGCACTAT
52717027 CTCTTATGGCATGCACTAT
1 CTCTTATGGCATGCACTAT
52717046 GTCTGAGACT
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:0.26, G:0.16, T:0.37
Consensus pattern (19 bp):
CTCTTATGGCATGCACTAT
Found at i:52728574 original size:13 final size:14
Alignment explanation
Indices: 52728548--52728577 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
52728538 ATAAAAAATG
52728548 ATAATTATTAATAT
1 ATAATTATTAATAT
52728562 ATAATTA-TAATAT
1 ATAATTATTAATAT
52728575 ATA
1 ATA
52728578 TTAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATTAATAT
Found at i:52732329 original size:267 final size:268
Alignment explanation
Indices: 52731848--52732375 Score: 776
Period size: 267 Copynumber: 2.0 Consensus size: 268
52731838 ATTCAAAAAG
** *
52731848 TGCACATACTATTCCCTATAGCATGTCAATAGTATCTTAACAACTTCTCTAAGTTTACAAGAGTA
1 TGCACATACTATTCCCTATAGCATGTCAATAGTATCTTAACAACTTCTCTAAAATTACAAGAGCA
* *
52731913 AAGTTTAAGTAACAATTCAATTTTGTTTCACTGCAATCATATTCACATATTCACTCATTCATTTA
66 AAGTTTAAGTAACAATTAAATTTCGTTTCACTGCAATCATATTCACATATTCACTCATTCATTTA
***
52731978 TGCACATATCCATACACATTGCCACTTGATACTTTTTAGAGTAGCACCCATATATCATAATCATA
131 TGCACATATCCATACACATTGCCACTTGATACTTCCCAGAGTAGCACCCATATATCATAATCATA
* * * *
52732043 ATCAAGGATTCAATAGGCAACCATTCATGTTTTAATCTAAGATTTTGTACTCTCTTGCTCTTATA
196 ATCAAGGATTCAATAGGCAACCATTCATATTTTAATCTAAGAGTTTATAATCTCTTGCTCTTATA
52732108 TTCGACAA
261 TTCGACAA
* * *
52732116 TGCACATACTATTTCCTATAGCATGTCAATTGTATGC-T-ATAACTTCTCTAAAATT-CGAAGAG
1 TGCACATACTATTCCCTATAGCATGTCAATAGTAT-CTTAACAACTTCTCTAAAATTAC-AAGAG
*
52732178 CAAAGTTTAAGTAACAATTAAATTTCGTTTCACTGCAATCATATTCACATATTCACTCTTTCATT
64 CAAAGTTTAAGTAACAATTAAATTTCGTTTCACTGCAATCATATTCACATATTCACTCATTCATT
** * * * * *
52732243 TATGCATGTGTGCATACTCATTGCGACTTGATACTTCCCA-ATGTAGCACCCATATATCATAGTC
129 TATGCACATATCCATACACATTGCCACTTGATACTTCCCAGA-GTAGCACCCATATATCATAATC
* *
52732307 ATAATCAAGGATTCAGTAGGCAACCATTCATATTTTAATGTAAGAGTTTATAATCTCTTGCTCTT
193 ATAATCAAGGATTCAATAGGCAACCATTCATATTTTAATCTAAGAGTTTATAATCTCTTGCTCTT
52732372 ATAT
258 ATAT
52732376 CCGGTTGTCA
Statistics
Matches: 232, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
266 2 0.01
267 195 0.84
268 34 0.15
269 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (268 bp):
TGCACATACTATTCCCTATAGCATGTCAATAGTATCTTAACAACTTCTCTAAAATTACAAGAGCA
AAGTTTAAGTAACAATTAAATTTCGTTTCACTGCAATCATATTCACATATTCACTCATTCATTTA
TGCACATATCCATACACATTGCCACTTGATACTTCCCAGAGTAGCACCCATATATCATAATCATA
ATCAAGGATTCAATAGGCAACCATTCATATTTTAATCTAAGAGTTTATAATCTCTTGCTCTTATA
TTCGACAA
Found at i:52735343 original size:1 final size:1
Alignment explanation
Indices: 52735337--52735371 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
52735327 CATTCAATTG
52735337 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
52735372 CAAGAGAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:52739317 original size:41 final size:41
Alignment explanation
Indices: 52739146--52739305 Score: 157
Period size: 41 Copynumber: 3.9 Consensus size: 41
52739136 GGGTCTAAAT
*
52739146 CCGAGCTTGGTCTTGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
52739187 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * **
52739227 CCG-GACTTAGTTTCGAAGGGCCTACGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCTCGAAGGGCTTTTGAGCCAGT-G-CTAATAA
*
52739268 CCGAGCTTGGTCTCGAAGGGTTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
52739306 GAATCGGGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.04
40 34 0.35
41 55 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:52742730 original size:87 final size:88
Alignment explanation
Indices: 52742463--52742735 Score: 241
Period size: 87 Copynumber: 3.1 Consensus size: 88
52742453 ACTGGCAGTT
* **** * *
52742463 TTAACC-ATAAACACTAGTGGTTTATCCA-CAAATTACTGGCAGCTTTATCTACAAA-CTGTTAT
1 TTAACCTAAAAACACTAGTGGTTTATCCATTTTTTTACTGGCAGC-TTATCTACAAACCCGTTCT
* * *
52742525 GCATTTACAACCACT-GACAATGTA
65 GTATTCACAACCACTAG-CAGTGTA
* * ** * *
52742549 TTAATCTACAAACACTAGTGGTTTATCCATTTGTTTTTTACTGAAAACTATTATCTACAAACCCA
1 TTAACCTAAAAACACTAGTGGTTTATCCA--T-TTTTTTACTGGCAGC--TTATCTACAAACCCG
* * ** *
52742614 ATCTGTATTCACAACCATTAGTGGCGTA
61 TTCTGTATTCACAACCACTAGCAGTGTA
*
52742642 TTAACCTAAAAACACTAGTGGTTTATCCATTTTTTTATTGGCAGC-TATCTACAAACCCGTTCTG
1 TTAACCTAAAAACACTAGTGGTTTATCCATTTTTTTACTGGCAGCTTATCTACAAACCCGTTCTG
*
52742706 TATTCACAACTACTAGCAGTGTA
66 TATTCACAACCACTAGCAGTGTA
52742729 TTAACCT
1 TTAACCT
52742736 GCAACACTTG
Statistics
Matches: 145, Mismatches: 34, Indels: 15
0.75 0.18 0.08
Matches are distributed among these distances:
86 5 0.03
87 63 0.43
90 11 0.08
91 9 0.06
92 11 0.08
93 45 0.31
94 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (88 bp):
TTAACCTAAAAACACTAGTGGTTTATCCATTTTTTTACTGGCAGCTTATCTACAAACCCGTTCTG
TATTCACAACCACTAGCAGTGTA
Found at i:52745907 original size:48 final size:47
Alignment explanation
Indices: 52745804--52745931 Score: 172
Period size: 47 Copynumber: 2.7 Consensus size: 47
52745794 AGTTTCTTGT
* **
52745804 GTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCGTAGAGATGA
1 GTGCCAGTATAAGACATGTCTGGGACATGGCATCGGCACAGAGATGA
*
52745850 GTGCCAGTATAAGACCATGTCTAGGACATGGCCAT-GGCACAGAGATGA
1 GTGCCAGTATAAGA-CATGTCTGGGACATGG-CATCGGCACAGAGATGA
*
52745898 GTGCTAGTATAAGACATGTCTGGGACAT-GCATCG
1 GTGCCAGTATAAGACATGTCTGGGACATGGCATCG
52745932 ACGTCGATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.04
46 15 0.21
47 26 0.36
48 25 0.35
49 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
GTGCCAGTATAAGACATGTCTGGGACATGGCATCGGCACAGAGATGA
Found at i:52746046 original size:48 final size:47
Alignment explanation
Indices: 52745813--52746217 Score: 194
Period size: 48 Copynumber: 8.5 Consensus size: 47
52745803 TGTGCCAGTG
* * * *
52745813 TAAGACATGTCTGGGACATGCATCGGCGTAGA-GATGAGT-GCCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCTCGATGAT-AATAGCTAGTA
* * *
52745859 TAAGACCATGTCTAGGACATGGCCAT-GGCAC-AGA-GATGAGT-GCTAGTA
1 TAAGA-CATGTCTGGGACAT-G-CATCGGC-CTCGATGAT-AATAGCTAGTA
* * * * * * *
52745907 TAAGACATGTCTGGGACATGCATCGACGTCGATAATGACAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGATGATAATAGCTAGTA
* ** * *
52745954 TAAGACGTGTCTGGGACATGCATC-AACACG-TGTATACTAGAGCTAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCTCGATG-ATA--ATAGCTAGTA
*
52746002 TAAGACCATGTCT-GGACATGGCATCGGCCTCGATGATAATAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATAATAGCTAGTA
* * ** * ** *
52746050 TAAGACGTGTCTAGGACACACATCGG-CT--AAGAGTTGT-GCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGATGA-TAATAGCTAGTA
* *
52746094 TAAGACATGTCTGGGACATGCATCAG--TACG-TGTATACGAGAGCTAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGATG-ATA--ATAGCTAGTA
* ** * *
52746142 TAAGACCATGTCTGGGACATAGCATCAGCCTCGATGATGCTAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATAATAGCTAGTA
*
52746191 TAAGACCATGTCTAGGACATGGCATCG
1 TAAGA-CATGTCTGGGACAT-GCATCG
52746218 ACAACTTATC
Statistics
Matches: 278, Mismatches: 52, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 31 0.11
45 8 0.03
46 18 0.06
47 68 0.24
48 72 0.26
49 58 0.21
50 13 0.05
51 6 0.02
52 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGATGATAATAGCTAGTA
Found at i:52746136 original size:140 final size:142
Alignment explanation
Indices: 52745950--52746209 Score: 416
Period size: 140 Copynumber: 1.8 Consensus size: 142
52745940 AATGACAGCC
* *
52745950 AGTGTAAGACGTGTCTGGGACATGCATCAACACGTGTATACTAGAGCTAGTATAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACACGTGTATACGAGAGCTAGTATAAGACCATGTCT
* * * *
52746015 -GGACATGGCATCGGCCTCGATGATAATAGCTAGTGTAAGA-CGTGTCTAGGACACACATCGGCT
66 GGGACATAGCATCAGCCTCGATGATAATAGCCAGTGTAAGACCATGTCTAGGACACACATCGGCT
52746078 AAGAGTTGTGCT
131 AAGAGTTGTGCT
**
52746090 AGTGTAAGACATGTCTGGGACATGCATCAGTACGTGTATACGAGAGCTAGTATAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAACACGTGTATACGAGAGCTAGTATAAGACCATGTCT
**
52746155 GGGACATAGCATCAGCCTCGATGATGCTAGCCAGTGTAAGACCATGTCTAGGACA
66 GGGACATAGCATCAGCCTCGATGATAATAGCCAGTGTAAGACCATGTCTAGGACA
52746210 TGGCATCGAC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
140 61 0.56
141 35 0.32
142 12 0.11
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACACGTGTATACGAGAGCTAGTATAAGACCATGTCT
GGGACATAGCATCAGCCTCGATGATAATAGCCAGTGTAAGACCATGTCTAGGACACACATCGGCT
AAGAGTTGTGCT
Found at i:52748341 original size:16 final size:17
Alignment explanation
Indices: 52748320--52748354 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
52748310 TAATGTCTAG
52748320 GAAAAATA-TTAATTGA
1 GAAAAATACTTAATTGA
52748336 GAAAAATATCTTAATTGA
1 GAAAAATA-CTTAATTGA
52748354 G
1 G
52748355 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.31
Consensus pattern (17 bp):
GAAAAATACTTAATTGA
Found at i:52749547 original size:31 final size:31
Alignment explanation
Indices: 52749509--52749655 Score: 195
Period size: 31 Copynumber: 4.7 Consensus size: 31
52749499 AAATGACAAA
52749509 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
52749540 TGAAAAGTGGTAGCTTCTGCTTCCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
52749571 TGAAAAATGGTAGCTCCGACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * * *
52749602 TGAAAAATGGTAGCTCCGGCTACCTGATTAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
52749633 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
52749656 AAGTGACAAG
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:52749743 original size:47 final size:46
Alignment explanation
Indices: 52749673--52749845 Score: 166
Period size: 47 Copynumber: 3.7 Consensus size: 46
52749663 AAGTGATTTC
** *
52749673 CGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
* * *
52749719 CTGTATAAGTCCATATCTGGGATATGGCATCAGTAAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
* * * * *
52749766 CGTATAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTA--AGATATATGA-TA
* * * * *
52749815 CATGTAAGACCATAGCTGGGCTATGACATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
52749846 ATATATGAAG
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
46 30 0.28
47 40 0.37
48 9 0.08
49 28 0.26
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
Found at i:52757035 original size:141 final size:140
Alignment explanation
Indices: 52756790--52757157 Score: 490
Period size: 141 Copynumber: 2.6 Consensus size: 140
52756780 CTTGTGCGCC
** * * * *
52756790 AGTGTAAGACATGTCTGGGACATGCATT-GGCGTAG-AGATGAGTGCCAGTATAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATTACACGT-GTATACGAGAGCTAGTATAAGACCATGTCT
** * * *
52756853 GGGACATAACATCGGCCTCGATAATGATAGCCAGTGTAAGACGTGTCTGGGACACGCATC-AGCT
65 GGGACATGGCATCGGCCTCGATAATAATAGCCAGTGTAAGACATGTCTGGGACACGAATCGA-CT
52756917 AAGAGTTGTGCT
129 AAGAGTTGTGCT
* *
52756929 AGTGTAAGACATGTCTGGGACATGCATTAACACGTGTATACGAGAGCTAGGACAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATT-ACACGTGTATACGAGAGCTAGTATAAGACCATGTCT
* * * * *
52756994 GGGACATGGCATGGGCCTTGATGATAATAGCCAGTGTAAGACATGTCTGGGACATGAATCGATTA
65 GGGACATGGCATCGGCCTCGATAATAATAGCCAGTGTAAGACATGTCTGGGACACGAATCGACTA
52757059 AGAGTTGTGCT
130 AGAGTTGTGCT
* * *
52757070 AGTGTAAGACATGTCTGGGACATGCATCAGTACATGTATACGAGAGCTAGTATAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATTA-CACGTGTATACGAGAGCTAGTATAAGACCATGTCT
52757135 GGGACATGGCATCGGCCTCGATA
65 GGGACATGGCATCGGCCTCGATA
52757158 GCCAGTGTAA
Statistics
Matches: 198, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
139 28 0.14
140 2 0.01
141 167 0.84
142 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATTACACGTGTATACGAGAGCTAGTATAAGACCATGTCTG
GGACATGGCATCGGCCTCGATAATAATAGCCAGTGTAAGACATGTCTGGGACACGAATCGACTAA
GAGTTGTGCT
Found at i:52757139 original size:49 final size:46
Alignment explanation
Indices: 52756926--52757147 Score: 154
Period size: 49 Copynumber: 4.7 Consensus size: 46
52756916 TAAGAGTTGT
*
52756926 GCTAGTGTAAGACATGTCTGGGACATGCATTA-ACACGTGTATACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGACA--TGTATA-GAGA
* ** * * *
52756974 GCTAG-GACAAGACCATGTCTGGGACATGGCATGGGCCTTGATGATA-ATA
1 GCTAGTG-TAAGA-CATGTCTGGGACAT-GCATCAGACATG-T-ATAGAGA
* * *
52757023 GCCAGTGTAAGACATGTCTGGGACATGAATC-G--AT-TA-AGAGTTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGACATGTATAGA---GA
52757067 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTACATGTATACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-ACATGTATA-GAGA
*
52757115 GCTAGTATAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
52757148 GGCCTCGATA
Statistics
Matches: 137, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 1 0.01
44 30 0.22
45 1 0.01
46 1 0.01
47 4 0.03
48 37 0.27
49 42 0.31
50 12 0.09
51 6 0.04
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGACATGTATAGAGA
Found at i:52761585 original size:87 final size:87
Alignment explanation
Indices: 52761439--52761597 Score: 273
Period size: 87 Copynumber: 1.8 Consensus size: 87
52761429 TGTTTACCAT
**
52761439 TTTGTTCTTTGGGATTTTGAGCTTTGCATTCGAGGTTTTATGTGATGGAAGTTTAGTACATTTAG
1 TTTGTTCTTTAAGATTTTGAGCTTTGCATTCGAGGTTTTATGTGATGGAAGTTTAGTACATTTAG
52761504 GTTAATTCTCTTCATATGCTGG
66 GTTAATTCTCTTCATATGCTGG
* * *
52761526 TTTGTTCTTTAAGATTTTGAGCTTTGTATTCGGGGTTTTGTGTGATGGAAGTTTAGTACATTTAG
1 TTTGTTCTTTAAGATTTTGAGCTTTGCATTCGAGGTTTTATGTGATGGAAGTTTAGTACATTTAG
52761591 GTTAATT
66 GTTAATT
52761598 TTTTTTCCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (87 bp):
TTTGTTCTTTAAGATTTTGAGCTTTGCATTCGAGGTTTTATGTGATGGAAGTTTAGTACATTTAG
GTTAATTCTCTTCATATGCTGG
Found at i:52773325 original size:71 final size:72
Alignment explanation
Indices: 52773233--52773376 Score: 263
Period size: 71 Copynumber: 2.0 Consensus size: 72
52773223 AATTAGGTGG
52773233 TTTACTTTATATGGTTAGAATAATTATCTAATCTAGTTTTAATAGAAACAAACGGTATAGTCATA
1 TTTACTTTATATGGTTAGAATAATTATCTAATCTAGTTTTAATAGAAACAAACGGTATAGTCATA
52773298 TGAATTT
66 TGAATTT
* *
52773305 TTTA-TTTATATGGTTAGAATAATTATTTAATCTATTTTTAATAGAAACAAACGGTATAGTCATA
1 TTTACTTTATATGGTTAGAATAATTATCTAATCTAGTTTTAATAGAAACAAACGGTATAGTCATA
52773369 TGAATTT
66 TGAATTT
52773376 T
1 T
52773377 GTACAGGGAG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 66 0.94
72 4 0.06
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.44
Consensus pattern (72 bp):
TTTACTTTATATGGTTAGAATAATTATCTAATCTAGTTTTAATAGAAACAAACGGTATAGTCATA
TGAATTT
Found at i:52781530 original size:41 final size:41
Alignment explanation
Indices: 52781485--52781569 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
52781475 CATAATGACA
*
52781485 TACCTCGTCCTAAAAGCTATCTTAGGTACATTCAATTTTTT
1 TACCTCGTCCTAAAAGCTATCTTAGGTACATCCAATTTTTT
52781526 TACCTCGTCCTAAAAGCTATCTTAGGTACATCCAATTTTTT
1 TACCTCGTCCTAAAAGCTATCTTAGGTACATCCAATTTTTT
52781567 TAC
1 TAC
52781570 ACGCAGTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (41 bp):
TACCTCGTCCTAAAAGCTATCTTAGGTACATCCAATTTTTT
Found at i:52797545 original size:17 final size:18
Alignment explanation
Indices: 52797512--52797545 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52797502 ATTAATAAAC
52797512 AATTGGTTTGATGATGTT
1 AATTGGTTTGATGATGTT
*
52797530 AATTGTTTTGAT-ATGT
1 AATTGGTTTGATGATGT
52797546 GTCGTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (18 bp):
AATTGGTTTGATGATGTT
Found at i:52797794 original size:67 final size:68
Alignment explanation
Indices: 52797655--52797783 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 68
52797645 AGAAGCTATG
* * *
52797655 GTCCACTAAGACAATAAACACTGGGATTATGAGGTGTAAGACCATAGCTCAATTATAGCAACCAA
1 GTCCACTAAGACAATAAACACGGGGATTAT-AGGTGTAAGACCATAACTCAACTATAGCAACCAA
52797720 TGGA
65 TGGA
* * * *
52797724 GTCCATTAAGACAGTAAACACGGGG--TATATGGTGTAAGACCATAACTCGACTATGGCAAC
1 GTCCACTAAGACAATAAACACGGGGATTATA-GGTGTAAGACCATAACTCAACTATAGCAAC
52797784 ATAGAGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 1 0.02
67 29 0.56
69 22 0.42
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (68 bp):
GTCCACTAAGACAATAAACACGGGGATTATAGGTGTAAGACCATAACTCAACTATAGCAACCAAT
GGA
Found at i:52799203 original size:25 final size:25
Alignment explanation
Indices: 52799160--52799212 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
52799150 TACTAAGAAG
* * * *
52799160 TTACCATTGTTATTTCAATACAGTA
1 TTACCATGGTGATTCCAATACAATA
52799185 TTACCATGGTGATTCCAATACAATA
1 TTACCATGGTGATTCCAATACAATA
52799210 TTA
1 TTA
52799213 GGATTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (25 bp):
TTACCATGGTGATTCCAATACAATA
Found at i:52799324 original size:75 final size:75
Alignment explanation
Indices: 52799221--52799409 Score: 270
Period size: 75 Copynumber: 2.5 Consensus size: 75
52799211 TAGGATTACA
* * * * * **
52799221 AAGATTTTGCAAATGCTAATTAACGGTGATTCCAATACAATACTAAGATTACAAAGATTTTGGAG
1 AAGATTTTGCAAATGCAAATGAATGGTGATTCTAATACAATACTAAGATAACAAAGATTTTACAG
52799286 ACATAGTACT
66 ACATAGTACT
* *
52799296 AGGATTTTGCAAATGCAAATGAATGGTGATTCTAATACAATACTAAGATAATAAAGATTTTACAG
1 AAGATTTTGCAAATGCAAATGAATGGTGATTCTAATACAATACTAAGATAACAAAGATTTTACAG
* *
52799361 ATATAGTATT
66 ACATAGTACT
*
52799371 AAGATTTTGCAAATGTAAATGAATGGTGATTCTAATACA
1 AAGATTTTGCAAATGCAAATGAATGGTGATTCTAATACA
52799410 TTTACCATGG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 101 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (75 bp):
AAGATTTTGCAAATGCAAATGAATGGTGATTCTAATACAATACTAAGATAACAAAGATTTTACAG
ACATAGTACT
Found at i:52802354 original size:26 final size:26
Alignment explanation
Indices: 52802325--52802401 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
52802315 ATCTGCTGAG
*
52802325 CTGAAACATC-GATAAGCTCACACGAA
1 CTGAAACATCAG-TAAGCTCATACGAA
52802351 CTGAAACATCAGTAAGCTCATACGAA
1 CTGAAACATCAGTAAGCTCATACGAA
*
52802377 CTAAAACATCAGTAAGCTCATACGA
1 CTGAAACATCAGTAAGCTCATACGA
52802402 GCTATGGTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (26 bp):
CTGAAACATCAGTAAGCTCATACGAA
Found at i:52810456 original size:9 final size:9
Alignment explanation
Indices: 52810444--52810471 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
52810434 ATATGAAATT
52810444 GAAAAGAAA
1 GAAAAGAAA
52810453 GAAAAGAAA
1 GAAAAGAAA
52810462 GAAAAGAAA
1 GAAAAGAAA
52810471 G
1 G
52810472 GAGAGGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:52810980 original size:25 final size:24
Alignment explanation
Indices: 52810952--52811014 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 24
52810942 ACTTTGGCGC
52810952 GCTCTCTGATTATTAGCA-TATTAGT
1 GCTCTCTG-TTATTAGCACT-TTAGT
*
52810977 GCTCTTTG-TA-TAGCACTTTAGT
1 GCTCTCTGTTATTAGCACTTTAGT
52810999 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
52811015 TGCATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 17 0.53
23 4 0.12
24 1 0.03
25 10 0.31
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACTTTAGT
Found at i:52815193 original size:39 final size:40
Alignment explanation
Indices: 52815092--52815356 Score: 267
Period size: 40 Copynumber: 6.7 Consensus size: 40
52815082 TCGAATGATG
* *
52815092 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
52815131 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52815172 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52815211 TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
52815250 AACCGGGCTATG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
52815290 TCCGGGTTAAGTCCCGAAGGAATTTTGTGCGAGTTGCT--T
1 TCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTAAT
*
52815329 TAACCGGGCTATGTCCCGAAGGCATTTG
1 T--CCGGGCTAAGTCCCGAAGGCATTTG
52815357 AACGAGTAGC
Statistics
Matches: 188, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
39 68 0.36
40 79 0.42
41 41 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52815229 original size:79 final size:79
Alignment explanation
Indices: 52815093--52815356 Score: 318
Period size: 79 Copynumber: 3.3 Consensus size: 79
52815083 CGAATGATGT
* * * * **
52815093 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
52815156 TGTGCGAGTTACTA-ATT
63 TGTGCGAGTTACTATA-A
*
52815173 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
*
52815238 GAGAGTTACTATAA
66 GCGAGTTACTATAA
* * *
52815252 CCGGGCTATGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGAATTTTG
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA-TTTG
* *
52815317 TGCGAGTTGCTTTAA
65 TGCGAGTTACTATAA
*
52815332 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTTG
52815357 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 105 0.65
80 43 0.27
81 13 0.08
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAA
Found at i:52820458 original size:55 final size:55
Alignment explanation
Indices: 52820398--52820508 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
52820388 ATAATTAAAG
*
52820398 GCATATAAAAGAAATAAAGAAAGAAAAAGAGAGAATATTGAAACAAAATAGAGAA
1 GCATATAAAAGAAACAAAGAAAGAAAAAGAGAGAATATTGAAACAAAATAGAGAA
* *
52820453 GCATATAAAAGAAACAAAGAGAGAAAAAGAGAGAATATTGAAACGAAATAGAGAA
1 GCATATAAAAGAAACAAAGAAAGAAAAAGAGAGAATATTGAAACAAAATAGAGAA
52820508 G
1 G
52820509 AACATGGGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.12
Consensus pattern (55 bp):
GCATATAAAAGAAACAAAGAAAGAAAAAGAGAGAATATTGAAACAAAATAGAGAA
Found at i:52821594 original size:22 final size:22
Alignment explanation
Indices: 52821544--52821624 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 22
52821534 GAACTTTAGC
*
52821544 GTGCTCTCTGATTATTAACACATTA
1 GTGCTCTCTG--T-TTAGCACATTA
*
52821569 GTGCTCTCTGTTTAGCACATTC
1 GTGCTCTCTGTTTAGCACATTA
* * *
52821591 GTGCTCTCTATATAGCACTTTA
1 GTGCTCTCTGTTTAGCACATTA
52821613 GTGCTCTCTGTT
1 GTGCTCTCTGTT
52821625 CATTAGTGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 37 0.77
23 1 0.02
25 10 0.21
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACATTA
Found at i:52822726 original size:23 final size:23
Alignment explanation
Indices: 52822700--52822778 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
52822690 AGCTCTATTG
*
52822700 AGCTGAAACAGTAATCTCTGACA
1 AGCTGAAACAGTAAGCTCTGACA
*
52822723 AGCTAAAACAGTAAGCTCTGACA
1 AGCTGAAACAGTAAGCTCTGACA
*
52822746 AGCTGAAACAATAAGCTCTGACA
1 AGCTGAAACAGTAAGCTCTGACA
52822769 AGCTGAAACA
1 AGCTGAAACA
52822779 TCGGTAAGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCTCTGACA
Found at i:52824223 original size:25 final size:21
Alignment explanation
Indices: 52824170--52824209 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
52824160 TCCCCATCAG
52824170 TTAAGTTTCTTCAAAAAAATT
1 TTAAGTTTCTTCAAAAAAATT
52824191 TTAAGTTTCTTCAAAAAAA
1 TTAAGTTTCTTCAAAAAAA
52824210 AATTTTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
TTAAGTTTCTTCAAAAAAATT
Found at i:52827413 original size:40 final size:40
Alignment explanation
Indices: 52827319--52827543 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
52827309 TATTCGAATG
*
52827319 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
52827360 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
52827400 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
52827440 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
52827480 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
52827520 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
52827544 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:52827499 original size:80 final size:80
Alignment explanation
Indices: 52827319--52827579 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
52827309 TATTCGAATG
* * * *
52827319 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
52827384 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
52827400 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
52827465 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
52827480 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
52827545 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
52827559 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52827580 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:52827533 original size:120 final size:120
Alignment explanation
Indices: 52827319--52827579 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
52827309 TATTCGAATG
* * *
52827319 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
52827384 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
52827440 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
52827503 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
52827559 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
52827580 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:52836205 original size:204 final size:205
Alignment explanation
Indices: 52835854--52836263 Score: 768
Period size: 204 Copynumber: 2.0 Consensus size: 205
52835844 GCCATATATG
52835854 TATAGATTCCTTTTCGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACCCAGTACA
1 TATAGATTCCTTTTCGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACCCAGTACA
* *
52835919 GGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGAATCCTGAAACAGGGGAGACTTT
66 GGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCAAACCCTGAAACAGGGGAGACTTT
52835984 AACTAATAAACTGTACTAATTGGCTTGACCAAAAATTCTAGAAAAAAAATTATAGATGAACATAT
131 AACTAATAAACTGTACTAATTGGCTTGACCAAAAATTCTAGAAAAAAAATTATAGATGAACATAT
52836049 GAGTCTAGTT
196 GAGTCTAGTT
* * *
52836059 TATAGATTCCTTTTTGAGTCTAG-TTCTATAGAAACAAACGGCATCGGTATTGAAACCCTGTACA
1 TATAGATTCCTTTTCGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACCCAGTACA
52836123 GGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCAAACCCTGAAACAGGGGAGACTTT
66 GGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCAAACCCTGAAACAGGGGAGACTTT
52836188 AACTAATAAACTGTACTAATTGGCTTGACCAAAAATTCTAGAAAAAAAATTATAGATGAACATAT
131 AACTAATAAACTGTACTAATTGGCTTGACCAAAAATTCTAGAAAAAAAATTATAGATGAACATAT
52836253 GAGTCTAGTT
196 GAGTCTAGTT
52836263 T
1 T
52836264 CAGGAAAAAT
Statistics
Matches: 200, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
204 178 0.89
205 22 0.11
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (205 bp):
TATAGATTCCTTTTCGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACCCAGTACA
GGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCAAACCCTGAAACAGGGGAGACTTT
AACTAATAAACTGTACTAATTGGCTTGACCAAAAATTCTAGAAAAAAAATTATAGATGAACATAT
GAGTCTAGTT
Found at i:52839931 original size:50 final size:49
Alignment explanation
Indices: 52839811--52839983 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 49
52839801 TATAATGTCA
52839811 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCG
* * * *
52839860 ACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATTCG-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-A-AATCGAGGCCG
* * * **
52839910 ATGCCATGTCCTAGACATGGTCTTATACTGACACATC-TTAT--A-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCAAAATCGAGGCCG
52839956 ATG-CATGTCCCAGACAT-GTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
52839984 GCTCTCGCCT
Statistics
Matches: 104, Mismatches: 14, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.10
45 13 0.12
46 7 0.07
48 2 0.02
49 33 0.32
50 32 0.31
51 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCG
Found at i:52843917 original size:44 final size:46
Alignment explanation
Indices: 52843855--52843944 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
52843845 ATTTGTATTA
*
52843855 TATATATAAGTGTTATTATAT-AAAAAAA-TCCATTTAAAATAATT
1 TATATATAAGTCTTATTATATAAAAAAAAGTCCATTTAAAATAATT
**
52843899 TATATATAAGTCTTATTATATAAAAAAAAGTTTATTTAAAATAATT
1 TATATATAAGTCTTATTATATAAAAAAAAGTCCATTTAAAATAATT
52843945 CAATAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 20 0.49
45 7 0.17
46 14 0.34
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (46 bp):
TATATATAAGTCTTATTATATAAAAAAAAGTCCATTTAAAATAATT
Found at i:52849256 original size:103 final size:104
Alignment explanation
Indices: 52849027--52849292 Score: 401
Period size: 103 Copynumber: 2.6 Consensus size: 104
52849017 GTTGTACATA
** *
52849027 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
52849092 TTGAAATGTGAAAGGGGGTTGCTATGTGATGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGATGATTCCCCC
* *
52849131 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCAATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
*
52849195 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGATGATTCCCCC
* * *
52849234 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
52849293 AATAACGGTT
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
103 81 0.55
104 65 0.45
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGATGATTCCCCC
Found at i:52850886 original size:13 final size:13
Alignment explanation
Indices: 52850868--52850892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52850858 TTTTTCCATT
52850868 TAGTTATATACTA
1 TAGTTATATACTA
52850881 TAGTTATATACT
1 TAGTTATATACT
52850893 CTAGCAGTTT
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TAGTTATATACTA
Found at i:52851201 original size:108 final size:108
Alignment explanation
Indices: 52850994--52851498 Score: 420
Period size: 108 Copynumber: 4.7 Consensus size: 108
52850984 AAGTGGCTTC
* * * * * * * * * ***
52850994 TACTTACGGTA-TTTACGAATCTCACGGTTTACTGATTTACAATCATAACCTTCTATTTTTGGGA
1 TACTTACGGGATTTTATGAATCTCACAGTCTGCTAATTTACAATCACAGCCTTCTACTTACAGGA
* * *
52851058 TTTTA-AAACTCTCACAGTCCACTGATTTACAATCACGACCTTT
66 TTTTACAAA-TCTCACAGTTCACTAATTTACGATCACGACCTTT
* ** * *
52851101 TACTTTA-GGGATTTTATGAATCTCACAGTTTGCTAATTTACCTTCACAGCCTTTTACTTACGGG
1 TAC-TTACGGGATTTTATGAATCTCACAGTCTGCTAATTTACAATCACAGCCTTCTACTTACAGG
* * *
52851165 ATTTTACGAATCTCACAGTTCGCTAATTTACGATCACGACCTTC
65 ATTTTACAAATCTCACAGTTCACTAATTTACGATCACGACCTTT
* * * * * *
52851209 TACTTACTGGATTTTATGAATCTCA-TGATCCGCTAATTTACAATCAAAACCTTCTACTTTCAGG
1 TACTTACGGGATTTTATGAATCTCACAG-TCTGCTAATTTACAATCACAGCCTTCTACTTACAGG
* * ** *
52851273 ATTTTACGAATATCACAGTTTGCTAATTTACGATCATGA-CTTT
65 ATTTTACAAATCTCACAGTTCACTAATTTACGATCACGACCTTT
* *
52851316 CTACTTACGAGATTTTACGAATCTCACAGTCCT-CTAATTTACAATCAC-GACCTTCTACTTACA
1 -TACTTACGGGATTTTATGAATCTCACAGT-CTGCTAATTTACAATCACAG-CCTTCTACTTACA
* *
52851379 GGATTTTACAAATCTCACAATTCACTAATTTATGATCACGACC---
63 GGATTTTACAAATCTCACAGTTCACTAATTTACGATCACGACCTTT
* ** ** * * * * * * *
52851422 TACTTGCAAGATTTTACAAATCTCACGGTCCGCTGATTTACAATCACGGCCTTCAACATACAAGA
1 TACTTACGGGATTTTATGAATCTCACAGTCTGCTAATTTACAATCACAGCCTTCTACTTACAGGA
52851487 -TTTACATAATCT
66 TTTTACA-AATCT
52851499 TATAGATTAC
Statistics
Matches: 327, Mismatches: 58, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
104 7 0.02
105 57 0.17
106 1 0.00
107 13 0.04
108 244 0.75
109 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.36
Consensus pattern (108 bp):
TACTTACGGGATTTTATGAATCTCACAGTCTGCTAATTTACAATCACAGCCTTCTACTTACAGGA
TTTTACAAATCTCACAGTTCACTAATTTACGATCACGACCTTT
Found at i:52851409 original size:162 final size:160
Alignment explanation
Indices: 52850991--52851410 Score: 470
Period size: 162 Copynumber: 2.6 Consensus size: 160
52850981 CACAAGTGGC
* * * ** * ***
52850991 TTCTACTTACGG-TATTTACGAATCTCACGGTTTACTGATTTACAATCATAACCTTCTATTTTTG
1 TTCTACTTACGGAT-TTTACGAATCTCACAGTCT-CTAATTTACAATCACGACCTTCTACTTACA
* * ** * *
52851055 GGATTTTAAAACTCTCACAGTCCACTGATTTACAATCACGACCTTTTACTTTAGGGATTTTATGA
64 GGATTTTAAAA-TCTCACAATCCACTAATTTACAATCAAAACCTTCTACTTTAGGGATTTTACGA
* * *
52851120 ATCTCACAGTTTGCTAATTTACCTTCACAGCCT
128 ATATCACAGTTTGCTAATTTACCATCACAGACT
* * *
52851153 TT-TACTTACGGGATTTTACGAATCTCACAGTTCGCTAATTTACGATCACGACCTTCTACTTACT
1 TTCTACTTAC-GGATTTTACGAATCTCACAG-TCTCTAATTTACAATCACGACCTTCTACTTACA
* ** *
52851217 GGATTTTATGAATCTCATGATCCGCTAATTTACAATCAAAACCTTCTACTTTCA-GGATTTTACG
64 GGATTTTA-AAATCTCACAATCCACTAATTTACAATCAAAACCTTCTACTTT-AGGGATTTTACG
* *
52851281 AATATCACAGTTTGCTAATTTACGATCA-TGACT
127 AATATCACAGTTTGCTAATTTACCATCACAGACT
52851314 TTCTACTTACGAGATTTTACGAATCTCACAGTCCTCTAATTTACAATCACGACCTTCTACTTACA
1 TTCTACTTACG-GATTTTACGAATCTCACAGT-CTCTAATTTACAATCACGACCTTCTACTTACA
*
52851379 GGATTTTACAAATCTCACAATTCACTAATTTA
64 GGATTTTA-AAATCTCACAATCCACTAATTTA
52851411 TGATCACGAC
Statistics
Matches: 215, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
161 14 0.07
162 196 0.91
163 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (160 bp):
TTCTACTTACGGATTTTACGAATCTCACAGTCTCTAATTTACAATCACGACCTTCTACTTACAGG
ATTTTAAAATCTCACAATCCACTAATTTACAATCAAAACCTTCTACTTTAGGGATTTTACGAATA
TCACAGTTTGCTAATTTACCATCACAGACT
Found at i:52851461 original size:51 final size:53
Alignment explanation
Indices: 52851056--52851498 Score: 270
Period size: 54 Copynumber: 8.3 Consensus size: 53
52851046 CTATTTTTGG
* * **
52851056 GATTTTA-AAACTCTCACAGTCCACTGATTTACAATCACGACCTTTTACTTTA-GG
1 GATTTTACAAA-TCTCACAGTCCACTAATTTACAATCACGACC-TCTAC-TTACAA
** *** ** * **
52851110 GATTTTATGAATCTCACAGTTTGCTAATTTACCTTCAC-AGCCTTTTACTTACGG
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGA-CC-TCTACTTACAA
* * * * **
52851164 GATTTTACGAATCTCACAGTTCGCTAATTTACGATCACGACCTTCTACTTACTG
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGACC-TCTACTTACAA
** * * ** * *
52851218 GATTTTATGAATCTCA-TGATCCGCTAATTTACAATCAAAACCTTCTACTTTCAG
1 GATTTTACAAATCTCACAG-TCCACTAATTTACAATCACGACC-TCTACTTACAA
* * *** * * * *
52851272 GATTTTACGAATATCACAGTTTGCTAATTTACGATCATGACTTTCTACTTACGA
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGAC-CTCTACTTACAA
* * *
52851326 GATTTTACGAATCTCACAGTCCTCTAATTTACAATCACGACCTTCTACTTACAG
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGACC-TCTACTTACAA
* * ** *
52851380 GATTTTACAAATCTCACAATTCACTAATTTATGATCACGA-C-CTACTTGCAA
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGACCTCTACTTACAA
* * * * * *
52851431 GATTTTACAAATCTCACGGTCCGCTGATTTACAATCACGGCCTTCAACATACAA
1 GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGACC-TCTACTTACAA
52851485 GA-TTTACATAATCT
1 GATTTTACA-AATCT
52851499 TATAGATTAC
Statistics
Matches: 316, Mismatches: 61, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
51 40 0.13
52 1 0.00
53 12 0.04
54 259 0.82
55 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (53 bp):
GATTTTACAAATCTCACAGTCCACTAATTTACAATCACGACCTCTACTTACAA
Found at i:52851644 original size:47 final size:46
Alignment explanation
Indices: 52851538--52851645 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 46
52851528 TATAATACAT
* * * *
52851538 TTCGCGACATTTCTGTACATACAGTTTGTAGTAATTTTACAATATAG
1 TTCGC-ACATTTCTGTAAATACAGTTCGTAGTAATTCTACAATAGAG
* *
52851585 TTCCCAGCATTTCTGTAAATACAGTTCGTGGTAATTCTACAATACGA-
1 TTCGCA-CATTTCTGTAAATACAGTTCGTAGTAATTCTACAATA-GAG
52851632 TTCGCACAATTTCT
1 TTCGCAC-ATTTCT
52851646 ACAATATAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.04
47 48 0.94
48 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (46 bp):
TTCGCACATTTCTGTAAATACAGTTCGTAGTAATTCTACAATAGAG
Found at i:52852080 original size:33 final size:33
Alignment explanation
Indices: 52852037--52852102 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
52852027 TTTTCCCTAC
52852037 ACAAAATTGCTAAAAGGTTAAGACAAAGGTCCT
1 ACAAAATTGCTAAAAGGTTAAGACAAAGGTCCT
*
52852070 ACAAAGTTGCTAAAAGGTTAAGACAAAGGTCCT
1 ACAAAATTGCTAAAAGGTTAAGACAAAGGTCCT
52852103 CCAAGGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (33 bp):
ACAAAATTGCTAAAAGGTTAAGACAAAGGTCCT
Found at i:52854328 original size:25 final size:24
Alignment explanation
Indices: 52854298--52854363 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
52854288 ATAGTATATG
*
52854298 TATATATTAGAAAATGTATACATAA
1 TATATATTAGAAAATATATACAT-A
** *
52854323 TATATAAAAGAAATATATATGCATA
1 TATATATTAGAAA-ATATATACATA
52854348 TATAATATTTAGAAAA
1 TAT-ATA-TTAGAAAA
52854364 GACAAAGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 15 0.47
26 12 0.38
27 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (24 bp):
TATATATTAGAAAATATATACATA
Found at i:52856282 original size:44 final size:44
Alignment explanation
Indices: 52856234--52856485 Score: 216
Period size: 44 Copynumber: 5.8 Consensus size: 44
52856224 CATCACCTCT
52856234 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTC
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTC
* * *
52856278 GATCTG-CTCCACTACTGCTTAGGGAGATAAGAT--TT-G-CAATTC
1 GATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCCTTCGTC--TTC
* * * ** *
52856320 -AGTCTGTTACCTTACTGCTTAGGGGTTTAAGGCCCTTCGTTTTC
1 GA-TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTC
* **
52856364 GATCTGTTTCCTTACTGCTTAGGGGGTTAAGAT-CTGTAAATCTTC
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCT-T-CGTCTTC
* * * **
52856409 -AGCCTGTTACCCTACTGCTTA-GGGTTTAAGGCCCTTCGTCTTC
1 GA-TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTC
*
52856452 GATCTGTTTCCCTACTACTTAGGGGGTTAAGATC
1 GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATC
52856486 TGTAAATCAG
Statistics
Matches: 159, Mismatches: 33, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 25 0.16
43 28 0.18
44 79 0.50
45 24 0.15
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (44 bp):
GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTC
Found at i:52856425 original size:45 final size:45
Alignment explanation
Indices: 52856361--52856493 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 45
52856351 GCCCTTCGTT
* *
52856361 TTCGATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTGTAAATC
1 TTCGACCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATC
* * ** **
52856406 TTC-AGCCTGTTACCCTACTGCTTA-GGGTTTAAGGCCCT-T-CGTC
1 TTCGA-CCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATC
* *
52856449 TTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATC
1 TTCGACCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATC
52856494 AGTTCTATGT
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
43 24 0.36
44 18 0.27
45 24 0.36
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (45 bp):
TTCGACCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATC
Found at i:52856455 original size:88 final size:89
Alignment explanation
Indices: 52856237--52856493 Score: 344
Period size: 86 Copynumber: 2.9 Consensus size: 89
52856227 CACCTCTGAT
* * ** *
52856237 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGG
* * * * *
52856301 GAGATAAGATTTG-CAA--TTCAGT
65 GGGTTAAGATCTGTAAATCTTCAGC
* * *
52856323 CTGTTACCTTACTGCTTAGGGGTTTAAGGCCCTTCGTTTTCGATCTGTTTCCTTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
52856388 GGTTAAGATCTGTAAATCTTCAGC
66 GGTTAAGATCTGTAAATCTTCAGC
*
52856412 CTGTTACCCTACTGCTTA-GGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
52856476 GGTTAAGATCTGTAAATC
66 GGTTAAGATCTGTAAATC
52856494 AGTTCTATGT
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
86 62 0.41
87 5 0.03
88 61 0.41
89 22 0.15
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (89 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
GGTTAAGATCTGTAAATCTTCAGC
Found at i:52868755 original size:25 final size:24
Alignment explanation
Indices: 52868725--52868790 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
52868715 ATAGTATATG
*
52868725 TATATATTAGAAAATGTATACATAA
1 TATATATTAGAAAATATATACAT-A
** *
52868750 TATATAAAAGAAATATATATGCATA
1 TATATATTAGAAA-ATATATACATA
52868775 TATAATATTTAGAAAA
1 TAT-ATA-TTAGAAAA
52868791 GACGAAGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 15 0.47
26 12 0.38
27 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (24 bp):
TATATATTAGAAAATATATACATA
Found at i:52870864 original size:24 final size:22
Alignment explanation
Indices: 52870824--52870869 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
52870814 TTATTTTTAT
*
52870824 TTAAAATAAATTAATTAATATTA
1 TTAAAATAAATGAATTAA-ATTA
*
52870847 TTAAAGATAAATGGATTAAATTA
1 TTAAA-ATAAATGAATTAAATTA
52870870 CTTGTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
TTAAAATAAATGAATTAAATTA
Found at i:52871812 original size:17 final size:17
Alignment explanation
Indices: 52871792--52871825 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52871782 AGGTTTAGGT
52871792 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
52871809 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
52871826 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:52873921 original size:13 final size:13
Alignment explanation
Indices: 52873896--52873929 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
52873886 TTATATATAT
52873896 ATTAAAA-ATTAA
1 ATTAAAATATTAA
52873908 ATTAAAATATTAA
1 ATTAAAATATTAA
52873921 ATTAAAATA
1 ATTAAAATA
52873930 AAAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTAAAATATTAA
Found at i:52879464 original size:38 final size:38
Alignment explanation
Indices: 52879413--52879486 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
52879403 ATCACGATAT
52879413 TACAAGAGATTACAGTGAGATCTGAGGCCTAGAGCTAC
1 TACAAGAGATTACAGTGAGATCTGAGGCCTAGAGCTAC
*
52879451 TACAAGAGATTACAGTGAGATCTGGGGCCTAGAGCT
1 TACAAGAGATTACAGTGAGATCTGAGGCCTAGAGCT
52879487 TATGCTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (38 bp):
TACAAGAGATTACAGTGAGATCTGAGGCCTAGAGCTAC
Found at i:52881818 original size:46 final size:46
Alignment explanation
Indices: 52881680--52881855 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
52881670 TCACTTGTGT
* * * ** *
52881680 GAGCTAGTGTAAGACATGTCTGGGACATGAATCGACCACATTAAGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGA
* * **
52881726 GAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGACGA
* * * *
52881774 GTGCTAGTATAAGACATGTTTGGAACATGCATCGGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACG-A
* *
52881821 -AGCCAGTGTAAGACATGTCTAGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
52881856 TATGAGATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 57 0.55
47 25 0.24
48 21 0.20
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGA
Found at i:52885471 original size:27 final size:27
Alignment explanation
Indices: 52885441--52885618 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52885431 ATATTGAGTC
* * * *
52885441 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52885468 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52885495 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52885523 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52885550 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52885577 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52885604 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52885619 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:52885580 original size:82 final size:81
Alignment explanation
Indices: 52885462--52885617 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52885452 TGCTATATAA
* *
52885462 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52885527 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52885544 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52885608 CACTTAGTGC
65 CACTTAGTGC
52885618 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:52891838 original size:79 final size:81
Alignment explanation
Indices: 52891729--52891911 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
52891719 TCCTCGTTCA
* *
52891729 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
52891791 GATTTAGTAAC-TCGCACC
64 GATATAGTAACTTAGCA-C
**
52891809 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
52891872 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
52891888 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52891912 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 5 0.06
79 56 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:52891911 original size:40 final size:40
Alignment explanation
Indices: 52891727--52891911 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
52891717 GCTCCTCGTT
* * *
52891727 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
52891767 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
*
52891807 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
52891846 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
52891887 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52891912 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 29 0.24
40 75 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:52900970 original size:79 final size:82
Alignment explanation
Indices: 52900859--52901043 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
52900849 GCTACTCGTT
* * *
52900859 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
52900922 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
52900939 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
52901002 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
52901019 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52901044 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:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:52901043 original size:40 final size:40
Alignment explanation
Indices: 52900840--52901043 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
52900830 CGGAATTTAA
** *
52900840 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52900880 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
52900920 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52900959 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52900999 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52901039 CCGGA
1 CCGGA
52901044 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52904068 original size:63 final size:63
Alignment explanation
Indices: 52903961--52904088 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 63
52903951 GGGGTCTTTA
52903961 AAGGGAAAATAGACCCTTTTAAAAGAGCTTGGCTAGCCAGGAGACAAAGAAGAGTAAATGGTC
1 AAGGGAAAATAGACCCTTTTAAAAGAGCTTGGCTAGCCAGGAGACAAAGAAGAGTAAATGGTC
* * * *
52904024 AAGGGCAACTAGACCCTTTTAAAAGAGCTTGGCTGGCCATGAGACAAAGAAGAGTAAATGGTC
1 AAGGGAAAATAGACCCTTTTAAAAGAGCTTGGCTAGCCAGGAGACAAAGAAGAGTAAATGGTC
52904087 AA
1 AA
52904089 AAAATGTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.18
Consensus pattern (63 bp):
AAGGGAAAATAGACCCTTTTAAAAGAGCTTGGCTAGCCAGGAGACAAAGAAGAGTAAATGGTC
Found at i:52904597 original size:59 final size:59
Alignment explanation
Indices: 52904522--52904639 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
52904512 GTGGGAATTT
52904522 GGAGTTTCTATAAGAGTAGAAAGGGTTCGGCTAGGCTTAAGATGCGAAGAAATTCGATA
1 GGAGTTTCTATAAGAGTAGAAAGGGTTCGGCTAGGCTTAAGATGCGAAGAAATTCGATA
*
52904581 GGAGTTTCTATAAGAGTAGAACGGGTTCGGCTAGGCTTAAGATGCGAAGAAATTCGATA
1 GGAGTTTCTATAAGAGTAGAAAGGGTTCGGCTAGGCTTAAGATGCGAAGAAATTCGATA
52904640 AAAATCAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (59 bp):
GGAGTTTCTATAAGAGTAGAAAGGGTTCGGCTAGGCTTAAGATGCGAAGAAATTCGATA
Found at i:52906495 original size:14 final size:15
Alignment explanation
Indices: 52906471--52906500 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52906461 GGATATCAAA
52906471 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
52906486 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
52906500 A
1 A
52906501 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:52908666 original size:24 final size:24
Alignment explanation
Indices: 52908638--52908691 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
52908628 GTAGCTATGG
*
52908638 TCGTGGTCGAGCAGGACATGGTAC
1 TCGTGGTCGAGCAGGACATGGCAC
*
52908662 TCGTGGTCGAGCAGGACATGGCAG
1 TCGTGGTCGAGCAGGACATGGCAC
52908686 TCGTGG
1 TCGTGG
52908692 AGAACCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.20, G:0.41, T:0.20
Consensus pattern (24 bp):
TCGTGGTCGAGCAGGACATGGCAC
Found at i:52910306 original size:57 final size:56
Alignment explanation
Indices: 52910233--52910345 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 56
52910223 TATACTCCTC
*
52910233 ATTCCTACTATCAATCTTAAAATAAGGTTTTAAACGGGTGTTGTTTACCTTAAAAG
1 ATTCCTACTATCAATCTTAAAATAAAGTTTTAAACGGGTGTTGTTTACCTTAAAAG
*
52910289 NATTCCTGCTATCAATCTTAAAATAAAGTTTTAAACGGGTGTTGTTTACCTTAAAAG
1 -ATTCCTACTATCAATCTTAAAATAAAGTTTTAAACGGGTGTTGTTTACCTTAAAAG
52910346 TACCGAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (56 bp):
ATTCCTACTATCAATCTTAAAATAAAGTTTTAAACGGGTGTTGTTTACCTTAAAAG
Found at i:52916644 original size:45 final size:45
Alignment explanation
Indices: 52916554--52916644 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
52916544 GAACTATGTG
* * **
52916554 ATCTGAACTTATTAAGTTGTGGTTTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATACATGAC
* * *
52916599 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCGTGATATGCATGAC
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATACATGAC
52916644 A
1 A
52916645 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATATACATGAC
Found at i:52919359 original size:21 final size:20
Alignment explanation
Indices: 52919333--52919371 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
52919323 ATGTTTTTTG
52919333 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
52919354 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
52919372 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:52919660 original size:36 final size:36
Alignment explanation
Indices: 52919620--52919692 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
52919610 AATTTTTGAC
52919620 TAAATTGAATAGAGAGATGATTAAATAAGTTAATTT
1 TAAATTGAATAGAGAGATGATTAAATAAGTTAATTT
*
52919656 TAAATTGAATAGATAGATGATTAAATAAGTTAATTT
1 TAAATTGAATAGAGAGATGATTAAATAAGTTAATTT
52919692 T
1 T
52919693 GATTATATAT
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:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (36 bp):
TAAATTGAATAGAGAGATGATTAAATAAGTTAATTT
Found at i:52921760 original size:19 final size:19
Alignment explanation
Indices: 52921738--52921777 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
52921728 CAGGTGGGAT
52921738 GGGGGGAATAAAAATTTTG
1 GGGGGGAATAAAAATTTTG
* *
52921757 GGGGGGAGTAAAAGTTTTG
1 GGGGGGAATAAAAATTTTG
52921776 GG
1 GG
52921778 AAAAAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (19 bp):
GGGGGGAATAAAAATTTTG
Found at i:52922236 original size:17 final size:19
Alignment explanation
Indices: 52922214--52922248 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52922204 AAATAATTCA
52922214 ATTTTT-TT-TAAAATAAT
1 ATTTTTGTTATAAAATAAT
52922231 ATTTTTGTTATAAAATAA
1 ATTTTTGTTATAAAATAA
52922249 AGAGATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTTTGTTATAAAATAAT
Found at i:52922294 original size:18 final size:18
Alignment explanation
Indices: 52922262--52922300 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
52922252 GATGGAGAGA
52922262 ATAAAGAATAAAGAAAAT
1 ATAAAGAATAAAGAAAAT
52922280 ATAAA-AATAATAGAAAAT
1 ATAAAGAATAA-AGAAAAT
52922298 ATA
1 ATA
52922301 CTTTATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
ATAAAGAATAAAGAAAAT
Found at i:52927099 original size:7 final size:7
Alignment explanation
Indices: 52927087--52927111 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52927077 AGAGATGAAG
52927087 AGAATAA
1 AGAATAA
52927094 AGAATAA
1 AGAATAA
52927101 AGAATAA
1 AGAATAA
52927108 AGAA
1 AGAA
52927112 AATATGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AGAATAA
Found at i:52933758 original size:15 final size:15
Alignment explanation
Indices: 52933728--52933756 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52933718 TCAACTAGTA
52933728 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
52933743 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
52933757 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:52940230 original size:57 final size:57
Alignment explanation
Indices: 52940128--52940253 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 57
52940118 GGTTTTCTTC
* *
52940128 AAAATGAAAATTAGAGAAATAGAAACATTTGGAAATAAATATGGTTTTCTCTAAAATG
1 AAAATGAAAA-TAGAGAAATAGAAACATTTGGAAATAAATATGGTTCTATCTAAAATG
* * *
52940186 AAAACGAAAATAGAGAAAT-GAAATCATTTGGAAATGAATGTGGTTCTATCTAAAATG
1 AAAATGAAAATAGAGAAATAGAAA-CATTTGGAAATAAATATGGTTCTATCTAAAATG
*
52940243 ACAATGAAAAT
1 AAAATGAAAAT
52940254 GACCTGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 4 0.07
57 47 0.78
58 9 0.15
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (57 bp):
AAAATGAAAATAGAGAAATAGAAACATTTGGAAATAAATATGGTTCTATCTAAAATG
Found at i:52940446 original size:28 final size:26
Alignment explanation
Indices: 52940415--52940466 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
52940405 TAGAATTTGG
52940415 TTGAGAAGA-TTATTTAATTAGAAATATA
1 TTGAGAA-ATTTATTT--TTAGAAATATA
52940443 TTGAGAAATTTATTTTTAGAAATA
1 TTGAGAAATTTATTTTTAGAAATA
52940467 GAAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 9 0.39
27 1 0.04
28 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (26 bp):
TTGAGAAATTTATTTTTAGAAATATA
Found at i:52941566 original size:15 final size:15
Alignment explanation
Indices: 52941542--52941576 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52941532 CGAATGATAT
*
52941542 TTTA-ATTTTTATAG
1 TTTATATTTTTATAA
52941556 TTTATATTTTTATAA
1 TTTATATTTTTATAA
52941571 TTTATA
1 TTTATA
52941577 AAGGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:52947886 original size:42 final size:42
Alignment explanation
Indices: 52947839--52947947 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
52947829 AATAGAAGTA
* * *
52947839 CATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACAGAAACCCATAAGGGTTGAACAGAAGCT
* * *
52947881 CATAAGAGCTGAAC-GAAAATCCATTAGGGTTTAACAGAAGCT
1 CATAAGAGCTGAACAG-AAACCCATAAGGGTTGAACAGAAGCT
* * *
52947923 CAAAAGAGCTGAACAAAAACTCATA
1 CATAAGAGCTGAACAGAAACCCATA
52947948 TGAGTTAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.98
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
CATAAGAGCTGAACAGAAACCCATAAGGGTTGAACAGAAGCT
Found at i:52948414 original size:9 final size:9
Alignment explanation
Indices: 52948402--52948430 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
52948392 ACAATTATCC
52948402 CAACTTTTA
1 CAACTTTTA
52948411 CAACTTTTA
1 CAACTTTTA
52948420 CAACTTTTA
1 CAACTTTTA
52948429 CA
1 CA
52948431 TTTTAGTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (9 bp):
CAACTTTTA
Found at i:52952314 original size:20 final size:20
Alignment explanation
Indices: 52952289--52952336 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
52952279 TAGCATACTT
52952289 AACAAAATTTCCAATTATTG
1 AACAAAATTTCCAATTATTG
52952309 AACAAAATTTCCAATTATTG
1 AACAAAATTTCCAATTATTG
52952329 AACAAAAT
1 AACAAAAT
52952337 ATATCCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (20 bp):
AACAAAATTTCCAATTATTG
Done.