Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 210 of 313
Found at i:64607765 original size:46 final size:45
Alignment explanation
Indices: 64605800--64607748 Score: 1186
Period size: 45 Copynumber: 41.2 Consensus size: 45
64605790 TTAAAAACCC
* * *
64605800 AAAACCATAACTTAATTTAATTAAAAACCCTAACCTAATTCAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAA-TCTATTA
* *
64605846 AAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTAATTTAATTA
1 AAAACCCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATCT-ATTA
* *
64605891 AAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAAT-TA-AA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CC-TAATCTATTA
*
64605937 AACCCTAACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAA-C--TTA
1 AA----AACCCTAACCTAATTTAATTAAAAACCCT-AA-CC-TAATCTATTA
*
64605986 AAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAA--C---CCTAACCTAATCT-ATTA
*
64606037 AAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAAAT-TAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCT-AATCT-ATTA
*
64606083 AAAACCCTAAACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTCAATTA
1 AAAACCCT-AA-CC-TAATTTAATTAAA----AACCCTAACCTAA-TCTATTA
* * *
64606133 AAAAGCCTAAACC---CTTAACTTAAAAACCCTAACCTAATTTAATTA
1 AAAACCCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATCT-ATTA
* * *
64606178 AAAACCCTAGCTTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606223 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64606273 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606320 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64606370 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606417 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64606467 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606514 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64606564 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606611 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64606661 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64606708 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TTA
*
64606757 ATTAAA----AACCT-ATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTA
1 A--AAACCCTAACCTAATTTAATTAAAAA--C---CCTAACCTAATCT-ATTA
* *
64606805 AAAACCCTAACCTAATTTAATTAAAAGCCCTAGCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAA-----ACCCTAACCTAATCT-ATTA
* *
64606856 AAAACCCTAACCTAATTCAATTAAAAATCCTAACCCTTAA-C--TTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAA-CC-TAATCTATTA
* * * *
64606900 AAAACCCTAACCTAATTTAATTAAAAACCTTAGCCTAATTTAATCA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
*
64606946 AAAACCCTACCCTAATTTAATTAAAAACCCTAAACCCTTAA-CT-TTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CC-TAATCTATTA
* * *
64606992 AAAACCCTAACCTAATTTACTTAAAAACCCTAGCCTAACCAAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAA--C---CCTAACCTAATCT-ATTA
* * *
64607043 AAAACCCTAACCTAATTTACTTAAAAACCCTAGCCTAACCAAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAA--C---CCTAACCTAATCT-ATTA
*
64607094 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
*
64607140 AAAACCCTAAACC---CTTAATTAAAAACCCTAACC----C---T-
1 AAAACCCT-AACCTAATTTAATTAAAAACCCTAACCTAATCTATTA
* * *
64607175 --AACCCTAACATAATTGAATTAAAAACCTTAAACCCTTAA-C--TTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CC-TAATCTATTA
*
64607218 AAAACCCTAACCTAATTTAATTAAAAACCCTAGTCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAA-CC----CTAACCTAATCT-ATTA
*
64607269 AAAACCCTAAACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTCAATTA
1 AAAACCCT-AA-CC-TAATTTAATTAAA----AACCCTAACCTAA-TCTATTA
* *
64607319 AAAATCCTAAACC---TTTAACTTAAAAACCCTAACCTAATTTAATTA
1 AAAACCCT-AACCTAATTTAA-TTAAAAACCCTAACCTAATCT-ATTA
* * * *
64607364 AAAACTCTAGCCTAATTTAATTAAAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64607410 AAAACACTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64607456 AAAACCCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64607501 AAAACCCAAAACCCTTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTA
1 AAAACCC-TAA-CC-TAATTTAATTAAA----AACCCTAACCTAATCT-ATTA
* * *
64607551 AAAACCCTAGCTTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* *
64607596 AAAATCCTAACCTAATTTAATTAAAAACCATAAACCCTAA-CATAATTTAA
1 AAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATC-T-A-TT-A
* * *
64607646 TTAAAAACCTAGCCTAATTTAATT-AAAACCCTAACCTAATTTAATTA
1 --AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
* * *
64607693 CAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCT-ATTA
64607739 AAAACCCTAA
1 AAAACCCTAA
64607749 ACCCTTAACT
Statistics
Matches: 1582, Mismatches: 134, Indels: 374
0.76 0.06 0.18
Matches are distributed among these distances:
32 3 0.00
33 6 0.00
35 13 0.01
36 3 0.00
37 2 0.00
41 1 0.00
42 4 0.00
43 2 0.00
44 66 0.04
45 355 0.22
46 333 0.21
47 72 0.05
48 103 0.07
49 109 0.07
50 144 0.09
51 230 0.15
52 122 0.08
53 6 0.00
54 5 0.00
55 2 0.00
56 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (45 bp):
AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTATTA
Found at i:64607914 original size:116 final size:116
Alignment explanation
Indices: 64607774--64607997 Score: 367
Period size: 116 Copynumber: 1.9 Consensus size: 116
64607764 AAGCCTAACC
* *
64607774 TTAACGTAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTTTACATAAT
1 TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
* *
64607839 TTGATAATTTTATTAACTATTAATACAATTTTTTGACTTAATAATTTTACA
66 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACA
* * * **
64607890 TTAACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTGTATGTAAT
1 TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
64607955 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATA
64607998 CAATTTATCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAACATAATGTTAGATTTCGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAAT
TTGATAATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACA
Found at i:64608014 original size:17 final size:18
Alignment explanation
Indices: 64607973--64608014 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
64607963 TTTACTAACC
* *
64607973 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
64607991 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
64608008 ATTAATA
1 ATTAATA
64608015 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:64611200 original size:125 final size:126
Alignment explanation
Indices: 64610973--64611325 Score: 523
Period size: 126 Copynumber: 2.8 Consensus size: 126
64610963 CCCAAACATG
*
64610973 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
64611038 TAGAAGCGATTTTATATTATTTGCTCAGAAACATCAAAAAAA-AAATATTTCTTAC-ATGAC
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAATAAATATTTCTT-CTATGAC
* * * * *
64611098 CTACTGTAGCAAAAACGCG-CTGACGAGGCCGCAATTTAACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
64611162 CTAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAATAATTATTTCTTCTGTGGC
65 CTAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAATAAATATTTCTTCTATGAC
*
64611224 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
64611289 TAGAAGTGATTTTATATTATTTTATCAGAAATGTCAA
66 TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAA
64611326 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
124 1 0.00
125 97 0.48
126 103 0.51
127 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTTCTCAGAAACGTCAAAAAAATAAATATTTCTTCTATGAC
Found at i:64612812 original size:6 final size:6
Alignment explanation
Indices: 64612801--64612826 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
64612791 GTATTTTCTA
64612801 TGGTTC TGGTTC TGGTTC TGGTTC TG
1 TGGTTC TGGTTC TGGTTC TGGTTC TG
64612827 CTAGGGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.35, T:0.50
Consensus pattern (6 bp):
TGGTTC
Found at i:64618928 original size:32 final size:32
Alignment explanation
Indices: 64618886--64618961 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
64618876 TGCATGTGTG
* * *
64618886 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
64618918 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
64618950 TAACTTTTCATA
1 TAACTCTTCATA
64618962 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:64623440 original size:32 final size:32
Alignment explanation
Indices: 64623398--64623473 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
64623388 TGCATGTCTG
* * *
64623398 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
64623430 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
64623462 TAACTTTTCATA
1 TAACTCTTCATA
64623474 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:64626744 original size:40 final size:40
Alignment explanation
Indices: 64626700--64626964 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
64626690 GCTCCTCGTT
*
64626700 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
64626740 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
64626780 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
64626820 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
64626859 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
64626899 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
64626940 CAAA-GCTTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64626965 CATCATTCAA
Statistics
Matches: 204, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 156 0.76
41 13 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:64626884 original size:119 final size:122
Alignment explanation
Indices: 64626700--64626964 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 122
64626690 GCTCCTCGTT
* * *
64626700 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCG
* *
64626764 GATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
66 GATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA
* **
64626820 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCC
* ** * *
64626882 GGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
65 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
*
64626940 CAAA-GCTTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64626965 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 8 0.06
119 84 0.67
120 34 0.27
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
Found at i:64629270 original size:18 final size:18
Alignment explanation
Indices: 64629229--64629264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64629219 CATTCCGAAG
* *
64629229 TATATATATATATACATA
1 TATATGTATATATACACA
64629247 TATATGTATATATACACA
1 TATATGTATATATACACA
64629265 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
TATATGTATATATACACA
Found at i:64629779 original size:27 final size:27
Alignment explanation
Indices: 64629741--64629891 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
64629731 TAAATTGTAC
*
64629741 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
64629768 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64629794 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64629822 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64629850 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64629877 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64629892 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64629855 original size:82 final size:81
Alignment explanation
Indices: 64629742--64629891 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
64629732 AAATTGTACA
*
64629742 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
64629806 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
64629823 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
64629888 TGCG
65 TGCG
64629892 GGCTCAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64629882 original size:55 final size:53
Alignment explanation
Indices: 64629741--64629891 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
64629731 TAAATTGTAC
* *
64629741 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* * ** ** *
64629794 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
64629849 TAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
64629892 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 37 0.46
55 41 0.51
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:64630520 original size:171 final size:171
Alignment explanation
Indices: 64630235--64630579 Score: 672
Period size: 171 Copynumber: 2.0 Consensus size: 171
64630225 ATGGTATGGT
64630235 TCGGTATGGATGGAGTAAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGG
1 TCGGTATGGATGGAGTAAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGG
64630300 ATAGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACCCGGTGTTTCCTTGTCACCCATT
66 ATAGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACCCGGTGTTTCCTTGTCACCCATT
64630365 ATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCG
131 ATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCG
64630406 TCGGTATGGATGGAGTAAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGG
1 TCGGTATGGATGGAGTAAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGG
* *
64630471 ATGGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACTCGGTGTTTCCTTGTCACCCATT
66 ATAGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACCCGGTGTTTCCTTGTCACCCATT
64630536 ATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCG
131 ATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCG
64630577 TCG
1 TCG
64630580 TCGAAGTCAT
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (171 bp):
TCGGTATGGATGGAGTAAATTGTCTCGTTCCATTTTGTTTCCTCTTGTGATAATGTTATTGATGG
ATAGTAGTGCATTGCTTATGACTTACTGAGTTATAAACTCACCCGGTGTTTCCTTGTCACCCATT
ATAGGTTGCTTGGACTCATCTATTTTTGCGGGGTCAGGCCG
Found at i:64630810 original size:105 final size:105
Alignment explanation
Indices: 64630687--64630896 Score: 411
Period size: 105 Copynumber: 2.0 Consensus size: 105
64630677 TTATGGCATG
64630687 TAAACTTTAAGCCATGCGAAAATGGCACGAATGTTCGATTGAGTTGGATCAAGGGTAGGCATGAA
1 TAAACTTTAAGCCATGCGAAAATGGCACGAATGTTCGATTGAGTTGGATCAAGGGTAGGCATGAA
64630752 ATGGACCTAGTTACTTTCGTAACAGATGCTGGCAGCAGCT
66 ATGGACCTAGTTACTTTCGTAACAGATGCTGGCAGCAGCT
*
64630792 TAAACTTTAAGCCATGCGAAAATGGCACGAATGTTCGATTGAGTTGGATCAAGGGTAGGCATGAG
1 TAAACTTTAAGCCATGCGAAAATGGCACGAATGTTCGATTGAGTTGGATCAAGGGTAGGCATGAA
64630857 ATGGACCTAGTTACTTTCGTAACAGATGCTGGCAGCAGCT
66 ATGGACCTAGTTACTTTCGTAACAGATGCTGGCAGCAGCT
64630897 GTGTCATGAG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (105 bp):
TAAACTTTAAGCCATGCGAAAATGGCACGAATGTTCGATTGAGTTGGATCAAGGGTAGGCATGAA
ATGGACCTAGTTACTTTCGTAACAGATGCTGGCAGCAGCT
Found at i:64639976 original size:20 final size:20
Alignment explanation
Indices: 64639949--64640001 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
64639939 AGTTGTGCAA
64639949 ATAGGGACACCGAAGTGTA-
1 ATAGGGACACCGAAGTGTAT
**
64639968 ATCAGGGACATTGAAGTGTAT
1 AT-AGGGACACCGAAGTGTAT
*
64639989 ATAGGGGCACCGA
1 ATAGGGACACCGA
64640002 GGTGCAATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (20 bp):
ATAGGGACACCGAAGTGTAT
Found at i:64646504 original size:11 final size:11
Alignment explanation
Indices: 64646490--64646523 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
64646480 AAAAAAAGAT
64646490 AAAAAAATTCA
1 AAAAAAATTCA
*
64646501 AAAAAAATTGA
1 AAAAAAATTCA
64646512 AAAAAAAGTTCA
1 AAAAAAA-TTCA
64646524 TGTGATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:64647730 original size:38 final size:38
Alignment explanation
Indices: 64647684--64647756 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
64647674 AAAATGAAAA
*
64647684 TGAAAAAGAAATTGAAAGAAAAGAAAACAAAAAGAGAT
1 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGAGAT
64647722 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGA
1 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGA
64647757 AAAAGACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (38 bp):
TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGAGAT
Found at i:64647732 original size:28 final size:28
Alignment explanation
Indices: 64647672--64647726 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
64647662 AGTGCGAGTG
*
64647672 AGAAAATGAAAATGAAAAAGAAATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
*
64647700 AGAAAA-GAAAA-CAAAAAGAGATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
64647726 A
1 A
64647727 AAGAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 5 0.20
28 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (28 bp):
AGAAAATGAAAATCAAAAAGAAATTGAA
Found at i:64647740 original size:33 final size:33
Alignment explanation
Indices: 64647680--64647776 Score: 90
Period size: 38 Copynumber: 2.8 Consensus size: 33
64647670 TGAGAAAATG
* *
64647680 AAAATGAAAAAGAAATT-GAAAGAAAAGAAAACAA
1 AAAAAGAAAAAGAAATTGGAAAGAAAA-CAAA-AA
*
64647714 AAAGAGATTGAAAAAGAAATT-GAAAGAAAAGAAAAA
1 AAA-A-A--GAAAAAGAAATTGGAAAGAAAACAAAAA
*
64647750 AAAAAGAAAAAGACATTGGAAAGAAAA
1 AAAAAGAAAAAGAAATTGGAAAGAAAA
64647777 TGAGTGAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
32 11 0.20
33 9 0.16
34 4 0.07
35 2 0.04
36 5 0.09
37 3 0.05
38 21 0.38
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (33 bp):
AAAAAGAAAAAGAAATTGGAAAGAAAACAAAAA
Found at i:64647786 original size:43 final size:43
Alignment explanation
Indices: 64647698--64647793 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
64647688 AAAGAAATTG
* * *
64647698 AAAGAAAAGAAAACAAAAAGAGATTGAAAAAGAAATTGAAAGA
1 AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
* * **
64647741 AAAGAAAAAAAAAAGAAAAAGACATTG-GAAAGAAAATGAGTGA
1 AAAG-AAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
*
64647784 AAAGGAAAAA
1 AAAGAAAAAA
64647794 GAGCTTGAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.11
43 20 0.45
44 19 0.43
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.08
Consensus pattern (43 bp):
AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
Found at i:64663781 original size:47 final size:47
Alignment explanation
Indices: 64663703--64664258 Score: 889
Period size: 47 Copynumber: 11.6 Consensus size: 47
64663693 CCCTTCGGGA
* * * * * * *
64663703 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
64663750 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64663797 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64663844 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64663891 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64663938 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64663985 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64664032 CTTATCACATATATACACTTTCACATTCATCACATCGGGC-ATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCTATTAGGC
*
64664079 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
64664130 CTTATCACATATATATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATA--CACTTTCACATTCATCACATCGGCTATTAGGC
64664183 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64664232 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
64664259 TATTCAAATA
Statistics
Matches: 489, Mismatches: 12, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
47 341 0.70
48 3 0.01
49 39 0.08
50 3 0.01
51 63 0.13
53 40 0.08
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:64671855 original size:40 final size:40
Alignment explanation
Indices: 64671765--64671984 Score: 208
Period size: 40 Copynumber: 5.7 Consensus size: 40
64671755 TCGAATGATG
* * * *
64671765 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
64671805 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTTAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64671845 TCCGGGCTAAG-CCC----G-ATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64671879 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64671919 TCCGGGTTAAGTCCCGAAGGCATTTGTTG-GAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-AA
*
64671960 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64671985 AACGAGTAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
34 25 0.17
35 4 0.03
39 3 0.02
40 105 0.70
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64671998 original size:40 final size:40
Alignment explanation
Indices: 64671867--64672017 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
64671857 CCGATTGGTG
* *
64671867 CGAGTTACTA-AATCCGGGTTAAGTCCCAAAGGCATTTGTG
1 CGAGTTACTATAA-CCGGGTTAAGTCCCGAAGGCATTTGTA
*
64671907 CGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTT
1 CGAGTTACTATAA-CCGGGTTAAGTCCCGAAGGCATTTGTA
* * * *
64671947 GGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAA
1 CGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGTA
* * *
64671987 CGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTTA-CTATAACCGGGTTAAGTCCCGAAGG
64672018 TACGTGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 14 0.15
40 80 0.83
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGTA
Found at i:64672002 original size:80 final size:79
Alignment explanation
Indices: 64671868--64672017 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
64671858 CGATTGGTGC
* ** *
64671868 GAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 GAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCC
64671933 CGAAGGCATTTGTTG
65 CGAAGGCATTTGTTG
* * * *
64671948 GAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATT
1 GAGTTACTA-AATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATC
64672011 CCGAAGG
64 CCGAAGG
64672018 TACGTGATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 16 0.27
80 42 0.70
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (79 bp):
GAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCC
GAAGGCATTTGTTG
Found at i:64677662 original size:49 final size:49
Alignment explanation
Indices: 64677602--64678098 Score: 767
Period size: 49 Copynumber: 10.3 Consensus size: 49
64677592 GATAATTGTG
*
64677602 ATGTG-AA-TGTATATATATTTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* **
64677649 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCTAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
64677696 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
64677745 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
64677794 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
64677843 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
64677892 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* **
64677941 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCTAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
64677988 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
64678037 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
64678084 ATGTGAAAGTGTATA
1 ATGTGAAAGTGTATA
64678099 AATGTAATAA
Statistics
Matches: 418, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 131 0.31
48 2 0.00
49 285 0.68
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:64683460 original size:56 final size:56
Alignment explanation
Indices: 64683374--64683493 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
64683364 ACAAGGGATG
64683374 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
64683430 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
64683486 ATGGGCAA
1 ATGGGCAA
64683494 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:64685113 original size:27 final size:27
Alignment explanation
Indices: 64685083--64685179 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
64685073 CCCCAATATT
*
64685083 TGTAAAATGATTGTAATGCCCCTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
64685110 TGTAAAATGATCGTAATGCCCCTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
* * * *
64685137 GGTAAAATGACCGTGATGCCCTTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
*
64685164 -GTAAAATGATTGTAAT
1 TGTAAAATGATCGTAAT
64685180 ACCTCTGTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
26 13 0.21
27 49 0.79
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTAAAATGATCGTAATGCCCCTGTAG
Found at i:64685322 original size:24 final size:24
Alignment explanation
Indices: 64685295--64685353 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
64685285 CGAGATGTAA
64685295 ATGACTGATTTGTCTGTG-ATTGGT
1 ATGACTGATTTGTCTGTGAATT-GT
64685319 ATGACTGATTTGTCTGTGAATTGT
1 ATGACTGATTTGTCTGTGAATTGT
64685343 ATGACTGATTT
1 ATGACTGATTT
64685354 TGAGCATGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.20, C:0.08, G:0.25, T:0.46
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGAATTGT
Found at i:64685455 original size:27 final size:26
Alignment explanation
Indices: 64685414--64685515 Score: 89
Period size: 27 Copynumber: 3.9 Consensus size: 26
64685404 TTATGGAGGA
* *
64685414 AGTACTG-TATTGGTGGCTTTGCCAC
1 AGTACTGTTACTGGTAGCTTTGCCAC
* * *
64685439 AGTCACTGTTTCTGGTGGCTTGGCCAC
1 AGT-ACTGTTACTGGTAGCTTTGCCAC
* * *
64685466 ATATACTGTTACTGGCAGCTTTGCTAC
1 A-GTACTGTTACTGGTAGCTTTGCCAC
* *
64685493 GGTACTGTTGCTGGTAGCTTTGC
1 AGTACTGTTACTGGTAGCTTTGC
64685516 TCCGATGCTA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
25 3 0.05
26 23 0.38
27 34 0.56
28 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.36
Consensus pattern (26 bp):
AGTACTGTTACTGGTAGCTTTGCCAC
Found at i:64685604 original size:32 final size:32
Alignment explanation
Indices: 64685523--64685649 Score: 161
Period size: 32 Copynumber: 4.0 Consensus size: 32
64685513 TGCTCCGATG
* *
64685523 CTACTGATGGCTTTGTACCGGTCATATTACTGT
1 CTACTGATGGCTTTGTGCCGATCATATTACT-T
*
64685556 -TACT-ATAGG-TTGTGTGCCGATCATATCACTT
1 CTACTGAT-GGCTT-TGTGCCGATCATATTACTT
*
64685587 CTACTGATGGCTTTGTGCCGATCATATTACTA
1 CTACTGATGGCTTTGTGCCGATCATATTACTT
*
64685619 CTACTGATGGCTTTGTGCCAATCATATTACT
1 CTACTGATGGCTTTGTGCCGATCATATTACT
64685650 GTACTTATGG
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.06
32 74 0.89
33 4 0.05
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (32 bp):
CTACTGATGGCTTTGTGCCGATCATATTACTT
Found at i:64696154 original size:10 final size:10
Alignment explanation
Indices: 64696139--64696174 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
64696129 TTCAAAAAAA
64696139 AAAAAGAAAG
1 AAAAAGAAAG
64696149 AAAAAGAAAG
1 AAAAAGAAAG
64696159 AAAAAGGAAAAG
1 AAAAA-G-AAAG
64696171 AAAA
1 AAAA
64696175 GCAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.62
11 1 0.04
12 8 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:64696158 original size:14 final size:14
Alignment explanation
Indices: 64696132--64696173 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
64696122 CAATTTTTTC
64696132 AAAAAAAAA-AAAG
1 AAAAAAAAAGAAAG
*
64696145 AAAGAAAAAGAAAG
1 AAAAAAAAAGAAAG
64696159 AAAAAGGAAAAGAAA
1 AAAAA--AAAAGAAA
64696174 AGCAAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
16 8 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:64697629 original size:44 final size:44
Alignment explanation
Indices: 64697570--64697754 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
64697560 AAGATTGTAG
* *
64697570 ATCTTTTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAA
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAA
* * ** **
64697614 ATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAG-TTACAA
1 ATCTTATCTCTCTAAGCAGTAGT-GG-AGCAAATCAAAGATGGCAA
* * * * * ** * * *
64697657 AGCCTTGTCTCTCTGAGCAGCAGTGGAG-AAGGTTGAAGATTGTAG
1 A-TCTTATCTCTCTAAGCAGTAGTGGAGCAA-ATCAAAGATGGCAA
* * * *
64697702 ATCTTATCTCCCTAACCAATAGTGGAGCAGATCAAAGATGGCAA
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAA
64697746 ATCTTATCT
1 ATCTTATCT
64697755 TTCCAAGATA
Statistics
Matches: 100, Mismatches: 33, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 76 0.76
45 8 0.08
46 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAA
Found at i:64697694 original size:132 final size:132
Alignment explanation
Indices: 64697393--64699143 Score: 2560
Period size: 132 Copynumber: 13.3 Consensus size: 132
64697383 GTGAAACACC
* *
64697393 AAGCCCTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64697458 TAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64697522 CC
131 CA
* * ** ** *
64697524 AAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * **
64697589 TAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGTTA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64697654 CA
131 CA
* * *
64697656 AAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAACCAA
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
64697721 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGCGGGAAGCAAATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64697786 CA
131 CA
* * * *
64697788 AAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTATGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64697853 TAGTGGAGTAGATCAAAGACGGTAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64697918 CC
131 CA
* * *
64697920 AAGCCTTGTCTCCCTGAACAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
64697985 TAGTGAAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGACAGTGGGAAACAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64698050 CA
131 CA
* * * *
64698052 AAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64698117 TAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64698181 CC
131 CA
* * ** ** *
64698183 AAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64698248 TAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64698313 CA
131 CA
* * *
64698315 AAGCCTTGTCTCTCTGAGTAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTATGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64698380 GAGTGGAGTAGATCAAAGACGGCAAATTTTAT-TTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64698444 CC
131 CA
* * * * * * *
64698446 AAGTCTTGTCTCCCTGAACAGCAGCAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAGGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
64698511 TAGTGAAGCAGATCAAAGATGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64698576 CA
131 CA
* * *
64698578 AAGCCTTGTCTCTCTGAGCAGTAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCGAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64698643 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64698708 CA
131 CA
* *
64698710 AAGCCTTGTCTCTCTGAGCAGCAGCGGGGAAGGTTGAAGATTGTACATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64698775 TAGTGGAACAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64698840 CC
131 CA
* * *
64698842 AAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG-AGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
64698906 TAGTGGAGCAGATTAAAGATGGCAAATCTTATCTTTCGAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64698971 CA
131 CA
* * * *
64698973 AAGCCTTGTCTCTCTAAGCAGCAACAGAGAAGGTTGAAGATTGTAGATCTTATTTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64699038 TAGTGGAGCAAATCAAAG-TCGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
66 TAGTGGAGCAGATCAAAGAT-GGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
*
64699102 ACC
130 ACA
* *
64699105 AAGCCTTATCTAC-CTGAGCAGCAGCGGAGTAGGTTGAAG
1 AAGCCTTGTCT-CTCTGAGCAGCAGCGGAGAAGGTTGAAG
64699144 TTGCAGTGAA
Statistics
Matches: 1433, Mismatches: 181, Indels: 11
0.88 0.11 0.01
Matches are distributed among these distances:
131 427 0.30
132 1005 0.70
133 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CA
Found at i:64698289 original size:263 final size:264
Alignment explanation
Indices: 64697389--64699143 Score: 2568
Period size: 263 Copynumber: 6.7 Consensus size: 264
64697379 ACCGGTGAAA
*
64697389 CACCAAGCCCTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
64697454 GTAGTAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * ** ** *
64697518 GCCACCAAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCT
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* * *
64697583 AAGCAGTAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
*
64697648 AAGT
261 AAGC
* * *
64697652 TACAAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
64697717 CCAATAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGCGGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * *
64697782 GCCACAAAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* * * *
64697847 ATGCAGTAGTGGAGTAGATCAAAGACGGTAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
64697912 AAGC
261 AAGC
* * *
64697916 CACCAAGCCTTGTCTCCCTGAACAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
64697981 GCAGTAGTGAAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGACAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * *
64698046 GCCACAAAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* * * *
64698111 AAGTAGTAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
64698175 AAGC
261 AAGC
* * ** ** *
64698179 CACCAAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
64698244 GCAGTAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* *
64698309 GCCACAAAGCCTTGTCTCTCTGAGTAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* * * *
64698374 ATGCAGGAGTGGAGTAGATCAAAGACGGCAAATTTTAT-TTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
64698438 AAGC
261 AAGC
* * * * * * *
64698442 CACCAAGTCTTGTCTCCCTGAACAGCAGCAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAG
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
64698507 GCAGTAGTGAAGCAGATCAAAGATGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * *
64698572 GCCACAAAGCCTTGTCTCTCTGAGCAGTAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCG
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* *
64698637 AAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
64698702 AAGC
261 AAGC
* * *
64698706 CACAAAGCCTTGTCTCTCTGAGCAGCAGCGGGGAAGGTTGAAGATTGTACATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
64698771 GCAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * *
64698836 GCCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG-AGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
* * * *
64698900 AAGCAGTAGTGGAGCAGATTAAAGATGGCAAATCTTATCTTTCGAAGATAGTGGGAAGTAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
64698965 AAGC
261 AAGC
* * * * *
64698969 CACAAAGCCTTGTCTCTCTAAGCAGCAACAGAGAAGGTTGAAGATTGTAGATCTTATTTCCCTAA
1 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
64699034 GCAGTAGTGGAGCAAATCAAAG-TCGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCAAAGAT-GGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
* * *
64699098 AGCCACCAAGCCTTATCTAC-CTGAGCAGCAGCGGAGTAGGTTGAAG
130 AGCCACAAAGCCTTGTCT-CTCTGAGCAGCAGCGGAGAAGGTTGAAG
64699144 TTGCAGTGAA
Statistics
Matches: 1346, Mismatches: 140, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
263 811 0.60
264 535 0.40
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (264 bp):
CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
AAGC
Found at i:64698366 original size:395 final size:396
Alignment explanation
Indices: 64697393--64699143 Score: 2569
Period size: 395 Copynumber: 4.4 Consensus size: 396
64697383 GTGAAACACC
* *
64697393 AAGCCCTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64697458 TAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* ** * *
64697522 CCAAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * * *
64697587 AGTAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGT
196 AGTAGTGAAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
* * *
64697652 TACAAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
261 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
64697717 CCAATAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGCGGGAAGCAAATTTAA
326 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
64697782 GCCACA
391 GCCACA
* * * *
64697788 AAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTATGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
64697853 TAGTGGAGTAGATCAAAGACGGTAAATCTTATCTTTCCAACATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
64697918 CCAAGCCTTGTCTCCCTGAACAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * *
64697983 AGTAGTGAAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGACAGTGGGAAACAGATTTAAGC
196 AGTAGTGAAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
* ** *
64698048 CACAAAGCCTAGTCTCTTTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
261 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * **
64698113 GTAGTAGTGGAGCAGATCGAAGACGACAAATCTTA-CTTTCCAAGATAGTGGGAAGCAGGTTTAA
326 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
*
64698177 GCCACC
391 GCCACA
* * ** ** *
64698183 AAGCCTTGCCTCCCTGAGCAATAGCGGAGTTGGTTGAAGATTGTAGATCTTTTCTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64698248 TAGTGGAGCAAATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * * * * *
64698313 CAAAGCCTTGTCTCTCTGAGTAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTATGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * *
64698378 AGGAGTGGAGTAGATCAAAGACGGCAAATTTTAT-TTTCCAAGATAGTGGGAAGCAGATTTAAGC
196 AGTAGTGAAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
* * * * * * *
64698442 CACCAAGTCTTGTCTCCCTGAACAGCAGCAGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAG
261 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
64698507 GCAGTAGTGAAGCAGATCAAAGATGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
326 GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
64698572 GCCACA
391 GCCACA
* * *
64698578 AAGCCTTGTCTCTCTGAGCAGTAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCGAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64698643 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * * * *
64698708 CAAAGCCTTGTCTCTCTGAGCAGCAGCGGGGAAGGTTGAAGATTGTACATCTTATCTCCCTAAGC
131 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
64698773 AGTAGTGGAA-CAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
196 AGTAGT-GAAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
* * *
64698837 CCACCAAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTG-AGATTGTAGATCTTATCTCCCTA
260 CCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * * *
64698901 AGCAGTAGTGGAGCAGATTAAAGATGGCAAATCTTATCTTTCGAAGATAGTGGGAAGTAGATTTA
325 AGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
64698966 AGCCACA
390 AGCCACA
* * * *
64698973 AAGCCTTGTCTCTCTAAGCAGCAACAGAGAAGGTTGAAGATTGTAGATCTTATTTCCCTAAGCAG
1 AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
64699038 TAGTGGAGCAAATCAAAG-TCGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
66 TAGTGGAGCAGATCAAAGAT-GGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
* *
64699102 ACCAAGCCTTATCTACCTGAGCAGCAGCGGAGTAGGTTGAAG
130 ACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAG
64699144 TTGCAGTGAA
Statistics
Matches: 1216, Mismatches: 135, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
394 112 0.09
395 796 0.65
396 308 0.25
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (396 bp):
AAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGAAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
GCCACA
Found at i:64699728 original size:21 final size:19
Alignment explanation
Indices: 64699673--64699716 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
64699663 AATTTTCGAG
64699673 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
64699692 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
64699711 GATATA
1 GATATA
64699717 TAAAATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:64699955 original size:19 final size:21
Alignment explanation
Indices: 64699931--64699969 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
64699921 TGTTTTCTTT
*
64699931 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
64699950 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
64699970 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:64700198 original size:3 final size:3
Alignment explanation
Indices: 64700190--64700232 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
64700180 ATTAATTTTG
* *
64700190 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
64700233 ACCTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:64700198 original size:15 final size:15
Alignment explanation
Indices: 64700174--64700211 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
64700164 GTTTTTAGTC
64700174 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
64700188 TGTTATTATTATTTT
1 TATTATTATTAATTT
64700203 TATTATTAT
1 TATTATTAT
64700212 ATTATATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:64703289 original size:9 final size:9
Alignment explanation
Indices: 64703266--64703299 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
64703256 CTTATCTCTT
64703266 ATTATATT-
1 ATTATATTA
64703274 A-TATATTA
1 ATTATATTA
64703282 ATTATATTA
1 ATTATATTA
64703291 ATTATATTA
1 ATTATATTA
64703300 TATTTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.25
8 2 0.08
9 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATATTA
Found at i:64705400 original size:22 final size:22
Alignment explanation
Indices: 64705375--64705448 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
64705365 GATTAATACA
64705375 AAGTAGCATTGTTCAAAATAAT
1 AAGTAGCATTGTTCAAAATAAT
** ** * *
64705397 AAGTAATTAACTTAATGAAAATAAA
1 AAGT-A-GCA-TTGTTCAAAATAAT
64705422 AAGTAGCATTGTTCAAAATAAT
1 AAGTAGCATTGTTCAAAATAAT
64705444 AAGTA
1 AAGTA
64705449 ATTAAATTAA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
22 19 0.51
23 2 0.05
24 2 0.05
25 14 0.38
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (22 bp):
AAGTAGCATTGTTCAAAATAAT
Found at i:64705417 original size:25 final size:24
Alignment explanation
Indices: 64705389--64705467 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 24
64705379 AGCATTGTTC
64705389 AAAATAATAAGTAATTAACTTAATG
1 AAAATAATAAGTAATTAA-TTAATG
* ** ** *
64705414 AAAATAAAAAGT-A-GCATTGTTC
1 AAAATAATAAGTAATTAATTAATG
64705436 AAAATAATAAGTAATTAAATTAATG
1 AAAATAATAAGTAATT-AATTAATG
64705461 AAAATAA
1 AAAATAA
64705468 ATAAATTATT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 14 0.36
23 2 0.05
24 1 0.03
25 22 0.56
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (24 bp):
AAAATAATAAGTAATTAATTAATG
Found at i:64705428 original size:47 final size:47
Alignment explanation
Indices: 64705369--64705468 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
64705359 TCATCTGATT
* *
64705369 AATACAAAGTAGCATTGTTCAAAATAATAAGTAATTAACTTAATGAA
1 AATAAAAAGTAGCATTGTTCAAAATAATAAGTAATTAAATTAATGAA
64705416 AATAAAAAGTAGCATTGTTCAAAATAATAAGTAATTAAATTAATGAA
1 AATAAAAAGTAGCATTGTTCAAAATAATAAGTAATTAAATTAATGAA
64705463 AATAAA
1 AATAAA
64705469 TAAATTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (47 bp):
AATAAAAAGTAGCATTGTTCAAAATAATAAGTAATTAAATTAATGAA
Found at i:64709682 original size:186 final size:186
Alignment explanation
Indices: 64709368--64709737 Score: 598
Period size: 186 Copynumber: 2.0 Consensus size: 186
64709358 AGTTTTGTCG
* *
64709368 AAAATGCGATTTCACCACTCAAATCTAGTTCCTAAATCTTAATTTGGATTCCAAACATCCTAAAT
1 AAAATGCAATTTCACCACTCAAATCTAGTTCCTAAACCTTAATTTGGATTCCAAACATCCTAAAT
* *
64709433 ATCATCTAATTACTGATCTAAATCATCGATTTTACATAATTACACTAATATATGTTTTTAGAAAA
66 ATCATCTAATTACTGATCTAAACCATCAATTTTACATAATTACACTAATATATGTTTTTAGAAAA
*
64709498 ATCAAGCTTAAGTGATCATTAAA-GAAGGGAAAACATTCAATTTGCTTAAATTCAGT
131 ATCAAGCTGAAGTGATCATTAAATG-AGGGAAAACATTCAATTTGCTTAAATTCAGT
* *
64709554 AAAATGCAATTTCACCAGTCAAATCTAGTTCCTAAACCTTAATTTTGATTCCAAACATCCTAAAT
1 AAAATGCAATTTCACCACTCAAATCTAGTTCCTAAACCTTAATTTGGATTCCAAACATCCTAAAT
* * * *
64709619 ATCATCTAATTACTGATCTAAACCATCAATTTTACATAATTACATTGATTTATTTTTTTAGAAAA
66 ATCATCTAATTACTGATCTAAACCATCAATTTTACATAATTACACTAATATATGTTTTTAGAAAA
* * *
64709684 ATCAAGCTGAAGTGATCTTTAAATGAGGGAAAGCATTCAATTTGCTTAGATTCA
131 ATCAAGCTGAAGTGATCATTAAATGAGGGAAAACATTCAATTTGCTTAAATTCA
64709738 TTAAGGATTT
Statistics
Matches: 169, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
186 168 0.99
187 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (186 bp):
AAAATGCAATTTCACCACTCAAATCTAGTTCCTAAACCTTAATTTGGATTCCAAACATCCTAAAT
ATCATCTAATTACTGATCTAAACCATCAATTTTACATAATTACACTAATATATGTTTTTAGAAAA
ATCAAGCTGAAGTGATCATTAAATGAGGGAAAACATTCAATTTGCTTAAATTCAGT
Found at i:64709937 original size:30 final size:30
Alignment explanation
Indices: 64709862--64709920 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
64709852 AAAATCAACT
*
64709862 TAAAATCAATTAATATATTGAGCTCTTGAG
1 TAAAATCAATTAATATATTGAGATCTTGAG
64709892 TAAAATCAATTAATATATTGAGATCTTGA
1 TAAAATCAATTAATATATTGAGATCTTGA
64709921 TTCAATCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (30 bp):
TAAAATCAATTAATATATTGAGATCTTGAG
Found at i:64713563 original size:17 final size:17
Alignment explanation
Indices: 64713541--64713590 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
64713531 TCCCAGATTT
64713541 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
64713558 TGATACCCATAACTTTC
1 TGATACCCATATCTTTC
*
64713575 TGATACTCATATCTTT
1 TGATACCCATATCTTT
64713591 GACTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:64717633 original size:27 final size:27
Alignment explanation
Indices: 64717603--64717699 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
64717593 CATCAATATT
64717603 TGTAAAATGATCGTAATGCCCCTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
*
64717630 TGTAAAATGATCATAATGCCCCTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
* * * *
64717657 GGTAAAATAACCGTGATGCCCCTGTAG
1 TGTAAAATGATCGTAATGCCCCTGTAG
* *
64717684 -GTAAAATTATTGTAAT
1 TGTAAAATGATCGTAAT
64717700 ACCTCTGTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 12 0.20
27 48 0.80
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (27 bp):
TGTAAAATGATCGTAATGCCCCTGTAG
Found at i:64717796 original size:24 final size:24
Alignment explanation
Indices: 64717765--64717859 Score: 127
Period size: 24 Copynumber: 4.0 Consensus size: 24
64717755 CCCTCGAGGT
* *
64717765 TAAATGATTGATTTATCTGTGATG
1 TAAATGACTGATTTGTCTGTGATG
* * * *
64717789 TAAGTGATTGATTTGTCCGAGATG
1 TAAATGACTGATTTGTCTGTGATG
*
64717813 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
64717837 TAAATGACTGATTTGTCTGTGAT
1 TAAATGACTGATTTGTCTGTGAT
64717860 TGGTATGACT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.43
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATG
Found at i:64717860 original size:24 final size:24
Alignment explanation
Indices: 64717764--64717878 Score: 122
Period size: 24 Copynumber: 4.8 Consensus size: 24
64717754 GCCCTCGAGG
* *
64717764 TTAAATGATTGATTTATCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * * * *
64717788 GTAAGTGATTGATTTGTCCGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
64717812 GTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
64717836 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
*** *
64717860 TGGTATGACTTATTTGTCT
1 TTAAATGACTGATTTGTCT
64717879 ATGAATTGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:64717889 original size:24 final size:24
Alignment explanation
Indices: 64717816--64717898 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
64717806 CGAGATGTAA
* **
64717816 ATGACTGATTTGTCTGTGATTTAA
1 ATGACTGATTTGTCTGTGAATTGT
64717840 ATGACTGATTTGTCTGTG-ATTGGT
1 ATGACTGATTTGTCTGTGAATT-GT
* *
64717864 ATGACTTATTTGTCTATGAATTGT
1 ATGACTGATTTGTCTGTGAATTGT
*
64717888 ATGACAGATTT
1 ATGACTGATTT
64717899 TGAGCATGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.04
24 45 0.90
25 3 0.06
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGAATTGT
Found at i:64717999 original size:27 final size:27
Alignment explanation
Indices: 64717961--64718025 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
64717951 ATGGAGGAAG
64717961 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
*
64717986 TCACTGTTACTGGTGGCTTGGCTACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
64718014 TACTGTTACTGG
1 TACTGTTACTGG
64718026 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:64718195 original size:32 final size:32
Alignment explanation
Indices: 64718068--64718206 Score: 156
Period size: 32 Copynumber: 4.4 Consensus size: 32
64718058 TGTTGCGATG
* * * **
64718068 CTACTGATGGCTTTGTGCCGATTATGTTACCG
1 CTACTGATGGCTTTGTGCCAATCATATTACTA
* * * * *
64718100 TTACT-ATAGGCTGTGTGCCGATCATATCACTT
1 CTACTGAT-GGCTTTGTGCCAATCATATTACTA
64718132 CTACTGATGGCTTTGTGCCAATCATATTACTA
1 CTACTGATGGCTTTGTGCCAATCATATTACTA
64718164 CTACTGATGGCTTTGTGCCAATCATATTACTA
1 CTACTGATGGCTTTGTGCCAATCATATTACTA
*
64718196 -TACTTATGGCT
1 CTACTGATGGCT
64718207 AGTAGTTATT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
31 12 0.13
32 78 0.85
33 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (32 bp):
CTACTGATGGCTTTGTGCCAATCATATTACTA
Found at i:64719536 original size:14 final size:16
Alignment explanation
Indices: 64719507--64719538 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64719497 TTTTAATAAT
64719507 TAAAATATATTCCTAA
1 TAAAATATATTCCTAA
64719523 TAAAATAT-TT-CTAA
1 TAAAATATATTCCTAA
64719537 TA
1 TA
64719539 TTTATTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAATATATTCCTAA
Found at i:64719905 original size:17 final size:16
Alignment explanation
Indices: 64719883--64719937 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
64719873 ACTTAATTAA
64719883 AATAATAAAATTATTTT
1 AATAATAAAA-TATTTT
*
64719900 AATAATTAAAATATATT
1 AATAA-TAAAATATTTT
**
64719917 CCTAATAAAATATTTAT
1 AATAATAAAATATTT-T
64719934 AATA
1 AATA
64719938 TTTATTGCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 9 0.30
17 16 0.53
18 5 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATAAAATATTTT
Found at i:64719976 original size:399 final size:399
Alignment explanation
Indices: 64719257--64720062 Score: 1438
Period size: 399 Copynumber: 2.0 Consensus size: 399
64719247 TTTTTTTGTT
64719257 TATATATAAAAAACATATTTATATATTTTTATTATTACCCCTACCATCATATATAATTATTTTTT
1 TATATA-AAAAAACATATTTATATATTTTTATTATTACCCCTACCATCATATATAATTATTTTTT
64719322 AATGCCAATGTGAAGCAAGTGATTTCAGGCATTGTTGAATATTATTAAAAAAAGATAGCATATTA
65 AATGCCAATGTGAAGCAAGTGATTTCAGGCATTGTTGAATATTATTAAAAAAAGATAGCATATTA
* *
64719387 AAGCATTAATAATATATTCATTGAGGAATATAGTTTTACTTCATCTGATTAATACAAAGTAGCAT
130 AAGCATTAATAACATATTCATTGAGGAATATAGTTTTACTTCATCTAATTAATACAAAGTAGCAT
64719452 TGTTCAAAATAATAAGTAATTAAATTAATGAAAATAAATAAATTATTTTAATAATTAAAATATAT
195 TGTTCAAAATAATAAGTAATTAAATTAATGAAAATAAATAAATTATTTTAATAATTAAAATATAT
*
64719517 TCCTAATAAAATATTTCTAATATTTATTAAAGTATTTATGAAAAATATAAAAAATGACATACTGT
260 TCCTAATAAAATATTTATAATATTTATTAAAGTATTTATGAAAAATATAAAAAATGACATACTGT
*
64719582 AAATTAAACCTTACATTATTAAATATTTGTTTTTTTTCTTAAATGTAAATAATTGACGATAATAA
325 AAATTAAACCTTACATTATTAAATATTTG-TTTTTTTCTTAAAAGTAAATAATTGACGATAATAA
*
64719647 TATGTAGATAA
389 TACGTAGATAA
*
64719658 TATATAAAAAAACATATTTATATATTTTTATTATTACCCCTACCTTCATATAT-ATTATTTTTTA
1 TATATAAAAAAACATATTTATATATTTTTATTATTACCCCTACCATCATATATAATTATTTTTTA
* *
64719722 ATGCCGATGTGAAGCAAGTGATTTTAGGCATTGTTGAATATTATTAAAAAAAGATAGCATATTAA
66 ATGCCAATGTGAAGCAAGTGATTTCAGGCATTGTTGAATATTATTAAAAAAAGATAGCATATTAA
64719787 AGCATTAATAACATATTCATTGAGGAATATAGTTTTACTTCATCTAATTAATACAAAGTAGCATT
131 AGCATTAATAACATATTCATTGAGGAATATAGTTTTACTTCATCTAATTAATACAAAGTAGCATT
* *
64719852 GTTCAAAATAATAAGTAATTAACTTAATTAAAAT-AATAAAATTATTTTAATAATTAAAATATAT
196 GTTCAAAATAATAAGTAATTAAATTAATGAAAATAAAT-AAATTATTTTAATAATTAAAATATAT
** *
64719916 TCCTAATAAAATATTTATAATATTTATTGCAGTATTTATGAAAAATA-AAAAAATTGACATATTG
260 TCCTAATAAAATATTTATAATATTTATTAAAGTATTTATGAAAAATATAAAAAA-TGACATACTG
64719980 TAAATTAAACCTTACATTATTAAATATTTGTTTTTTTCTTAAAAGTAAATAATTGACGATAATAA
324 TAAATTAAACCTTACATTATTAAATATTTGTTTTTTTCTTAAAAGTAAATAATTGACGATAATAA
64720045 TACGTAGATAA
389 TACGTAGATAA
64720056 TATATAA
1 TATATAA
64720063 TTAATATAAA
Statistics
Matches: 390, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
398 60 0.15
399 278 0.71
400 46 0.12
401 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (399 bp):
TATATAAAAAAACATATTTATATATTTTTATTATTACCCCTACCATCATATATAATTATTTTTTA
ATGCCAATGTGAAGCAAGTGATTTCAGGCATTGTTGAATATTATTAAAAAAAGATAGCATATTAA
AGCATTAATAACATATTCATTGAGGAATATAGTTTTACTTCATCTAATTAATACAAAGTAGCATT
GTTCAAAATAATAAGTAATTAAATTAATGAAAATAAATAAATTATTTTAATAATTAAAATATATT
CCTAATAAAATATTTATAATATTTATTAAAGTATTTATGAAAAATATAAAAAATGACATACTGTA
AATTAAACCTTACATTATTAAATATTTGTTTTTTTCTTAAAAGTAAATAATTGACGATAATAATA
CGTAGATAA
Found at i:64722312 original size:3 final size:3
Alignment explanation
Indices: 64722294--64722348 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
64722284 TTAAGTTTTT
* * *
64722294 TTA TTA ATA TTG TTA TTA TCA TTA TTA -TA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
64722339 TTA TTA TTA T
1 TTA TTA TTA T
64722349 ACCTACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:64735359 original size:44 final size:44
Alignment explanation
Indices: 64735291--64735396 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
64735281 TGGCAAGTTT
* * *
64735291 TATCTCCCTGAAGTCGCAGCGGAGCAGATGAAAGCAATTA-ATCC
1 TATCTCCCTGAAGTTGCAACGGAGCAGATGAAAACAA-TAGATCC
* * * * *
64735335 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAACGGAGCAGATGAAAACAATAGATCC
*
64735379 TATCTCTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
64735397 GAGAGCAGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 50 0.96
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAACGGAGCAGATGAAAACAATAGATCC
Found at i:64736377 original size:7 final size:7
Alignment explanation
Indices: 64736367--64736401 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
64736357 TAAGGTTTAA
64736367 GGGTTAG
1 GGGTTAG
*
64736374 GGGTTAA
1 GGGTTAG
*
64736381 AGGTTAG
1 GGGTTAG
64736388 GGGTTAG
1 GGGTTAG
64736395 GGGTTAG
1 GGGTTAG
64736402 AGATTTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:64736399 original size:14 final size:14
Alignment explanation
Indices: 64736363--64736401 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
64736353 GGTTTAAGGT
64736363 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
64736377 TTAAAGGTTAGGGG
1 TTAAGGGTTAGGGG
*
64736391 TTAGGGGTTAG
1 TTAAGGGTTAG
64736402 AGATTTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:64736400 original size:21 final size:22
Alignment explanation
Indices: 64736339--64736400 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
64736329 TATGATTTAT
* *
64736339 GGTTTAAAGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGGTTAAA
64736360 GGTTTAAGGGTTAGGGGTTAAA
1 GGTTTAAGGGTTAGGGGTTAAA
*
64736382 GG-TTAGGGGTTAGGGGTTA
1 GGTTTAAGGGTTAGGGGTTA
64736401 GAGATTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 27 0.73
22 10 0.27
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTAAA
Found at i:64736429 original size:7 final size:7
Alignment explanation
Indices: 64736419--64736466 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
64736409 TGTTTTATAA
64736419 TTTAGGG
1 TTTAGGG
64736426 TTTAGAGG
1 TTTAG-GG
* *
64736434 ATAAGGG
1 TTTAGGG
*
64736441 TTAAGGG
1 TTTAGGG
64736448 TTTAGGG
1 TTTAGGG
*
64736455 TTTAGGT
1 TTTAGGG
64736462 TTTAG
1 TTTAG
64736467 ATTAATTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:64736464 original size:50 final size:50
Alignment explanation
Indices: 64736370--64736465 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
64736360 GGTTTAAGGG
* * *
64736370 TTAGGGGTTAAAGGTTAGGGGTTAGGGGTTAGAGATTTATGTTTTATAAT
1 TTAGGGGTTAAAGGATAAGGGTTAGGGGTTAGAGATTTAGGTTTTATAAT
* * * *
64736420 TTAGGGTTTAGAGGATAAGGGTTAAGGGTTTAG-GGTTTAGGTTTTA
1 TTAGGGGTTAAAGGATAAGGGTT-AGGGGTTAGAGATTTAGGTTTTA
64736466 GATTAATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 30 0.79
51 8 0.21
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (50 bp):
TTAGGGGTTAAAGGATAAGGGTTAGGGGTTAGAGATTTAGGTTTTATAAT
Found at i:64740285 original size:39 final size:40
Alignment explanation
Indices: 64740224--64740331 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 40
64740214 TTTGGATTCC
*
64740224 AAACGCCGCTAAAGATTGAGCATTAGCGGCGCT-TTTTGAA
1 AAACGCCGCTAAAGATTGAGCATTAGCGGCG-TATTATGAA
*
64740264 AAA-GCCGTTAAAGATCT-AGCATTAGCGGCGTATTATGAA
1 AAACGCCGCTAAAGAT-TGAGCATTAGCGGCGTATTATGAA
* * *
64740303 AAACGCCGCCAAA-AATAAGCATTAGCGGC
1 AAACGCCGCTAAAGATTGAGCATTAGCGGC
64740332 ATTTTCCAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.03
39 46 0.78
40 11 0.19
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (40 bp):
AAACGCCGCTAAAGATTGAGCATTAGCGGCGTATTATGAA
Found at i:64740450 original size:41 final size:41
Alignment explanation
Indices: 64740393--64740470 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
64740383 AGCTTTCGGG
* *
64740393 GATTTAGCGGCGTTTTTA-ATAAAGCGCCACTAATGCTCAAC
1 GATTTAGCGGCATTTTTAGA-AAAGCACCACTAATGCTCAAC
*
64740434 GATTTAGCGGCATTTTTAGAAAAGCACCGCTAATGCT
1 GATTTAGCGGCATTTTTAGAAAAGCACCACTAATGCT
64740471 TAGGGCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
GATTTAGCGGCATTTTTAGAAAAGCACCACTAATGCTCAAC
Found at i:64740483 original size:41 final size:41
Alignment explanation
Indices: 64740436--64740675 Score: 272
Period size: 41 Copynumber: 5.9 Consensus size: 41
64740426 TGCTCAACGA
* * *
64740436 TTTAGCGGCATTTTT-AGAAAAGCACCGCTAATGCTTAGGGC
1 TTTAGCGGCATTTTTGAG-GAAGCGCCGCTAATGCTTCGGGC
* ** *
64740477 TATAGCGGCGCTTTTGAGGAGGCGCCGCTAATGC-TCGGGGC
1 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTTC-GGGC
* *
64740518 TTTAGCGGCGTTTTTGAGGAGGCGCCGCTAATGC-TCGGGC
1 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTTCGGGC
* * *
64740558 TTTAGCGGCATTTTTGAGGAAGCGCTGATAATGCTTGGGGC
1 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTTCGGGC
* **
64740599 TTTAGCAGTGTTTTTGAGGAAGCGCCGCTAATGC-TCGTGGC
1 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTTCG-GGC
*
64740640 TTTAGCGGCATTTTTTGAGAAAGCGCCGCTAATGCT
1 TTTAGCGGCA-TTTTTGAGGAAGCGCCGCTAATGCT
64740676 CTATTTTTAG
Statistics
Matches: 169, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 37 0.22
41 107 0.63
42 25 0.15
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTTCGGGC
Found at i:64740598 original size:81 final size:81
Alignment explanation
Indices: 64740455--64740676 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 81
64740445 ATTTTTAGAA
* * * ** *
64740455 AAGCACCGCTAATGCTTAGGGCTATAGCGGCGCTTTTGAGGAGGCGCCGCTAATGCTCGGGGCTT
1 AAGCGCCGCTAATGC-TCGGGCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCGGGGCTT
*
64740520 TAGCGGCGTTTTTGAGG
65 TAGCAGCGTTTTTGAGG
* * * *
64740537 AGGCGCCGCTAATGCTCGGGCTTTAGCGGCATTTTTGAGGAAGCGCTGATAATGCTTGGGGCTTT
1 AAGCGCCGCTAATGCTCGGGCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCGGGGCTTT
*
64740602 AGCAGTGTTTTTGAGG
66 AGCAGCGTTTTTGAGG
*
64740618 AAGCGCCGCTAATGCTCGTGGCTTTAGCGGCATTTTTTGAGAAAGCGCCGCTAATGCTC
1 AAGCGCCGCTAATGCTCG-GGCTTTAGCGGCA-TTTTTGAGGAAGCGCCGCTAATGCTC
64740677 TATTTTTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
81 73 0.60
82 26 0.21
83 22 0.18
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (81 bp):
AAGCGCCGCTAATGCTCGGGCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCGGGGCTTT
AGCAGCGTTTTTGAGG
Found at i:64740616 original size:122 final size:123
Alignment explanation
Indices: 64740388--64740676 Score: 357
Period size: 122 Copynumber: 2.3 Consensus size: 123
64740378 TTCTGAGCTT
* * * *
64740388 TCGGGGATTTAGCGGCGTTTTTAATAAAGCGCCACTAATGCTCAACGATTTAGCGGCATTTTTAG
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAACGATTTAGCGGCATTTTTAG
* * *
64740453 AAAAGCACCGCTAATGCTTAGGGCTATAGCGGCGCTTTTGAGGAGGCGCCGCTAATGC
66 AAAAGCACCGATAATGCTTAGGGCTATAGCAGCGCTTTTGAGGAAGCGCCGCTAATGC
* * ** *
64740511 TCGGGGCTTTAGCGGCGTTTTTGAGGAGGCGCCGCTAATGCTC-GGGCTTTAGCGGCATTTTT-G
1 TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAACGATTTAGCGGCATTTTTAG
* * * * * * *
64740574 AGGAAGCGCTGATAATGCTTGGGGCTTTAGCAGTGTTTTTGAGGAAGCGCCGCTAATGC
66 A-AAAGCACCGATAATGCTTAGGGCTATAGCAGCGCTTTTGAGGAAGCGCCGCTAATGC
* *
64740633 TCGTGGCTTTAGCGGCATTTTTTGAGAAAGCGCCGCTAATGCTC
1 TCGGGGCTTTAGCGGC-GTTTTTGAGAAAGCGCCGCTAATGCTC
64740677 TATTTTTAGC
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
121 2 0.01
122 78 0.55
123 61 0.43
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (123 bp):
TCGGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAACGATTTAGCGGCATTTTTAG
AAAAGCACCGATAATGCTTAGGGCTATAGCAGCGCTTTTGAGGAAGCGCCGCTAATGC
Found at i:64740714 original size:40 final size:41
Alignment explanation
Indices: 64740640--64740716 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
64740630 TGCTCGTGGC
* * * *
64740640 TTTAGCGGCATTTTTTGAGAAAGCGCCGCTAATGCTCTATT
1 TTTAGCGACATTTTCTGAAAAAGCGCCACTAATGCTCTATT
64740681 TTTAGCGACATTTTCT-AAAAAGCGCCACTAATGCTC
1 TTTAGCGACATTTTCTGAAAAAGCGCCACTAATGCTC
64740717 AAGGATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 18 0.56
41 14 0.44
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (41 bp):
TTTAGCGACATTTTCTGAAAAAGCGCCACTAATGCTCTATT
Found at i:64741778 original size:7 final size:7
Alignment explanation
Indices: 64741768--64741802 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
64741758 TAAGGTTTAA
64741768 GGGTTAG
1 GGGTTAG
*
64741775 GGGTTAA
1 GGGTTAG
*
64741782 AGGTTAG
1 GGGTTAG
64741789 GGGTTAG
1 GGGTTAG
64741796 GGGTTAG
1 GGGTTAG
64741803 AGATTTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:64741800 original size:14 final size:14
Alignment explanation
Indices: 64741764--64741802 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
64741754 GGTTTAAGGT
64741764 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
64741778 TTAAAGGTTAGGGG
1 TTAAGGGTTAGGGG
*
64741792 TTAGGGGTTAG
1 TTAAGGGTTAG
64741803 AGATTTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:64741801 original size:21 final size:22
Alignment explanation
Indices: 64741740--64741801 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
64741730 TATGATTTAT
* *
64741740 GGTTTAAAGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGGTTAAA
64741761 GGTTTAAGGGTTAGGGGTTAAA
1 GGTTTAAGGGTTAGGGGTTAAA
*
64741783 GG-TTAGGGGTTAGGGGTTA
1 GGTTTAAGGGTTAGGGGTTA
64741802 GAGATTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 27 0.73
22 10 0.27
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTTAAA
Found at i:64741830 original size:7 final size:7
Alignment explanation
Indices: 64741820--64741867 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
64741810 TGTTTTATAA
64741820 TTTAGGG
1 TTTAGGG
64741827 TTTAGAGG
1 TTTAG-GG
* *
64741835 ATAAGGG
1 TTTAGGG
*
64741842 TTAAGGG
1 TTTAGGG
64741849 TTTAGGG
1 TTTAGGG
*
64741856 TTTAGGT
1 TTTAGGG
64741863 TTTAG
1 TTTAG
64741868 ATTAATTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:64741865 original size:50 final size:50
Alignment explanation
Indices: 64741771--64741866 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
64741761 GGTTTAAGGG
* * *
64741771 TTAGGGGTTAAAGGTTAGGGGTTAGGGGTTAGAGATTTATGTTTTATAAT
1 TTAGGGGTTAAAGGATAAGGGTTAGGGGTTAGAGATTTAGGTTTTATAAT
* * * *
64741821 TTAGGGTTTAGAGGATAAGGGTTAAGGGTTTAG-GGTTTAGGTTTTA
1 TTAGGGGTTAAAGGATAAGGGTT-AGGGGTTAGAGATTTAGGTTTTA
64741867 GATTAATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 30 0.79
51 8 0.21
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (50 bp):
TTAGGGGTTAAAGGATAAGGGTTAGGGGTTAGAGATTTAGGTTTTATAAT
Found at i:64744676 original size:11 final size:11
Alignment explanation
Indices: 64744660--64744750 Score: 51
Period size: 11 Copynumber: 7.6 Consensus size: 11
64744650 CTTCTCTAAT
64744660 ATTTCCTCTCA
1 ATTTCCTCTCA
64744671 ATTTCCT-TCCAA
1 ATTTCCTCT-C-A
64744683 ATTT-CTCTCA
1 ATTTCCTCTCA
*
64744693 ATTTCCTTCTAAA
1 ATTTCC-TCT-CA
*
64744706 ATTCCCTCAAACTCA
1 ATTTCCT----CTCA
* *
64744721 TATTTCATTTCA
1 -ATTTCCTCTCA
64744733 ATTTCCTCTCA
1 ATTTCCTCTCA
64744744 ATTTCCT
1 ATTTCCT
64744751 TCTAAAATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
10 6 0.10
11 28 0.46
12 13 0.21
13 6 0.10
15 1 0.02
16 7 0.11
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTCCTCTCA
Found at i:64744691 original size:22 final size:22
Alignment explanation
Indices: 64744660--64744715 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
64744650 CTTCTCTAAT
64744660 ATTTCCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
*
64744683 ATTTCTCTCAATTTCCTTCTAA
1 ATTTCTCTCAATTTCCTTCCAA
* *
64744705 AATTCCCTCAA
1 ATTTCTCTCAA
64744716 ACTCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:64744767 original size:51 final size:50
Alignment explanation
Indices: 64744682--64744800 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 50
64744672 TTTCCTTCCA
* *
64744682 AATTTCTCTCAATTTCCTTCTAAAATTCCCTCAAA-CTCATATTTCATTTC
1 AATTTCTCTCAATTTCCTTCTAAAATTACCTCAAATC-CATATTTAATTTC
**
64744732 AATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATTTC
1 AATTT-CTCTCAATTTCCTTCTAAAATTACCTCAAATCCATATTTAATTTC
* *
64744783 TATTTTCTCTAAATTTCC
1 -AATTTCTCTCAATTTCC
64744801 GTTTTTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 5 0.08
51 50 0.83
52 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (50 bp):
AATTTCTCTCAATTTCCTTCTAAAATTACCTCAAATCCATATTTAATTTC
Found at i:64745927 original size:7 final size:7
Alignment explanation
Indices: 64745915--64745939 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64745905 AGCCGATTGA
64745915 TATTTAG
1 TATTTAG
64745922 TATTTAG
1 TATTTAG
64745929 TATTTAG
1 TATTTAG
64745936 TATT
1 TATT
64745940 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:64746617 original size:18 final size:18
Alignment explanation
Indices: 64746591--64746625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64746581 AGGTGCGTTT
*
64746591 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
64746609 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
64746626 TCCTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:64747056 original size:25 final size:25
Alignment explanation
Indices: 64747027--64747138 Score: 103
Period size: 25 Copynumber: 4.7 Consensus size: 25
64747017 TATTTAAATA
64747027 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* **
64747052 TTATTTGATGTAATAAAATAAAAAA
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
64747077 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
64747095 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
64747121 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
64747139 ACTCTAACCT
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.05
20 6 0.09
21 3 0.05
23 3 0.05
24 7 0.11
25 43 0.65
26 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:64747164 original size:13 final size:13
Alignment explanation
Indices: 64747146--64747176 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
64747136 AAAACTCTAA
*
64747146 CCTAATTAAATAC
1 CCTAATTAAAAAC
64747159 CCTAATTAAAAAC
1 CCTAATTAAAAAC
64747172 CCTAA
1 CCTAA
64747177 CCATAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (13 bp):
CCTAATTAAAAAC
Found at i:64747194 original size:42 final size:42
Alignment explanation
Indices: 64747148--64747275 Score: 159
Period size: 48 Copynumber: 2.9 Consensus size: 42
64747138 AACTCTAACC
64747148 TAATT-AAATACCCTAATTAAAAACCCTAACCATAACCTAAAT
1 TAATTCAAA-ACCCTAATTAAAAACCCTAACCATAACCTAAAT
64747190 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCATAACCTAAAT
1 TAATTCAAAACCCTAATT--AAA----AACCCTAACCATAACCTAAAT
* * *
64747238 TAATTCAAAATCTTAATTAAAAACCCTAACCCTAACCT
1 TAATTCAAAACCCTAATTAAAAACCCTAACCATAACCT
64747276 TAACCTAAAC
Statistics
Matches: 76, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
42 30 0.39
43 3 0.04
44 3 0.04
46 3 0.04
48 37 0.49
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (42 bp):
TAATTCAAAACCCTAATTAAAAACCCTAACCATAACCTAAAT
Found at i:64747240 original size:48 final size:48
Alignment explanation
Indices: 64747169--64747318 Score: 246
Period size: 48 Copynumber: 3.1 Consensus size: 48
64747159 CCTAATTAAA
64747169 AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
1 AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
* *
64747217 AACCCTAACCATAACCTAAATTAATTCAAAATCTTAATTAAAAACCCT
1 AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
* *
64747265 AACCCTAACCTTAACCTAAACCCTAATTCAAAACCCTAATTAAAAACCCT
1 AACCCTAACCATAACCTAAA--TTAATTCAAAACCCTAATTAAAAACCCT
64747315 AACC
1 AACC
64747319 TTACCCTAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 65 0.69
50 29 0.31
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (48 bp):
AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
Found at i:64747274 original size:12 final size:12
Alignment explanation
Indices: 64747258--64747345 Score: 58
Period size: 12 Copynumber: 7.2 Consensus size: 12
64747248 TCTTAATTAA
64747258 AAACCCTAACCCT
1 AAACCCTAA-CCT
*
64747271 -AACCTTAACCT
1 AAACCCTAACCT
* *
64747282 AAACCCTAATTCA
1 AAACCCTAA-CCT
*
64747295 AAACCCTAA-TT
1 AAACCCTAACCT
64747306 AAAAACCCTAACCT
1 --AAACCCTAACCT
*
64747320 -TACCCTAACCCT
1 AAACCCTAA-CCT
64747332 -AACCCTAACCT
1 AAACCCTAACCT
64747343 AAA
1 AAA
64747346 TTAATTCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
11 13 0.22
12 26 0.44
13 19 0.32
14 1 0.02
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (12 bp):
AAACCCTAACCT
Found at i:64747300 original size:13 final size:13
Alignment explanation
Indices: 64747282--64747316 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
64747272 ACCTTAACCT
*
64747282 AAACCCTAATTCA
1 AAACCCTAATTAA
64747295 AAACCCTAATTAA
1 AAACCCTAATTAA
64747308 AAACCCTAA
1 AAACCCTAA
64747317 CCTTACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACCCTAATTAA
Found at i:64747325 original size:61 final size:58
Alignment explanation
Indices: 64747259--64747478 Score: 277
Period size: 61 Copynumber: 3.7 Consensus size: 58
64747249 CTTAATTAAA
* *
64747259 AACCCTAACCCTAACCTTAACCTAAACCCTAATTCAAAACCCTAATTAAAAACCCTAACCTT
1 AACCCTAACCCTAACCCTAACCTAAA--TTAATTCAAAACCCTAATTAAAAACCCTAA--TT
* *
64747321 -ACCCTAACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAATACCCTAATT
1 AACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAATT
64747378 AAAAACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAATT
1 ---AACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAATT
* * * *
64747439 AA---AAACCCTAACCCTAACCTAATTTAATTTAAAACACTAA
1 AACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAA
64747479 AAACCCTAAT
Statistics
Matches: 144, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
55 34 0.24
57 2 0.01
58 2 0.01
59 27 0.19
61 79 0.55
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (58 bp):
AACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAATT
Found at i:64747326 original size:11 final size:11
Alignment explanation
Indices: 64747309--64747344 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
64747299 CCTAATTAAA
64747309 AACCCTAACCT
1 AACCCTAACCT
*
64747320 TACCCTAACCCT
1 AACCCTAA-CCT
64747332 AACCCTAACCT
1 AACCCTAACCT
64747343 AA
1 AA
64747345 ATTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.19
Consensus pattern (11 bp):
AACCCTAACCT
Found at i:64747330 original size:6 final size:6
Alignment explanation
Indices: 64747309--64747341 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
64747299 CCTAATTAAA
*
64747309 AACCCT AA-CCT TACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACC
64747342 TAAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.18
Consensus pattern (6 bp):
AACCCT
Found at i:64747343 original size:17 final size:17
Alignment explanation
Indices: 64747309--64747344 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64747299 CCTAATTAAA
* *
64747309 AACCCTAACCTTACCCT
1 AACCCTAACCCTAACCT
64747326 AACCCTAACCCTAACCT
1 AACCCTAACCCTAACCT
64747343 AA
1 AA
64747345 ATTAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.19
Consensus pattern (17 bp):
AACCCTAACCCTAACCT
Found at i:64747374 original size:13 final size:13
Alignment explanation
Indices: 64747347--64747449 Score: 66
Period size: 13 Copynumber: 7.2 Consensus size: 13
64747337 TAACCTAAAT
64747347 TAATTCAAAAA-CC
1 TAATT-AAAAACCC
*
64747360 TAATTAAATACCC
1 TAATTAAAAACCC
64747373 TAATTAAAAACCC
1 TAATTAAAAACCC
* *
64747386 TAACCCTAACCCTAA-CC
1 TAA--TTAA---AAACCC
64747403 TAAATTAATTCAAAACCC
1 T-AATTAA---AAA-CCC
64747421 TAATTAAAAACCC
1 TAATTAAAAACCC
64747434 TAATTAAAAACCC
1 TAATTAAAAACCC
64747447 TAA
1 TAA
64747450 CCCTAACCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
12 4 0.05
13 41 0.56
14 3 0.04
15 3 0.04
16 6 0.08
17 9 0.12
18 7 0.10
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:64747520 original size:12 final size:12
Alignment explanation
Indices: 64747503--64747528 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64747493 ATTTAATTAA
64747503 AAACCCTAACCT
1 AAACCCTAACCT
64747515 AAACCCTAACCT
1 AAACCCTAACCT
64747527 AA
1 AA
64747529 TTTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (12 bp):
AAACCCTAACCT
Found at i:64747526 original size:68 final size:68
Alignment explanation
Indices: 64747448--64747584 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
64747438 TAAAAACCCT
*
64747448 AACCCTAACCTAATTTAATTTAAAACACTAAAAACCCTAATCCTAATTTAATTAAAAACCC-TAA
1 AACCCTAACCTAATTTAATTAAAAACACTAAAAACCCTAATCCTAATTTAATT-AAAACCCTTAA
64747512 CCTA
65 CCTA
*
64747516 AACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAACCCTTAAC
1 AACCCTAACCTAATTTAATTAAAAACACTAAAAACCCTAATCCTAATTTAATTAAAACCCTTAAC
64747581 CTA
66 CTA
64747584 A
1 A
64747585 TTGGATGTAG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 7 0.11
68 59 0.89
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (68 bp):
AACCCTAACCTAATTTAATTAAAAACACTAAAAACCCTAATCCTAATTTAATTAAAACCCTTAAC
CTA
Found at i:64747568 original size:38 final size:38
Alignment explanation
Indices: 64747438--64747561 Score: 149
Period size: 35 Copynumber: 3.5 Consensus size: 38
64747428 AAACCCTAAT
* *
64747438 TAAAAACCCTAACCCTAACCTAATTTAATTTAAAACAC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
64747476 TAAAAACCCTAA---T--CCTAATTTAATTAAAAACCC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
64747509 T---AA-CCTAAACCCTAACCTAATTTAATTAAAAACCC
1 TAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCC
*
64747544 TAAAAACCCTAATCCTAA
1 TAAAAACCCTAACCCTAA
64747562 TTTAATTAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
29 3 0.04
30 4 0.05
33 20 0.27
35 22 0.30
38 21 0.29
39 3 0.04
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.26
Consensus pattern (38 bp):
TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
Found at i:64747574 original size:32 final size:32
Alignment explanation
Indices: 64747434--64747576 Score: 195
Period size: 33 Copynumber: 4.4 Consensus size: 32
64747424 TTAAAAACCC
64747434 TAATTAAAAACCCT---AACCCTAACCTAATT
1 TAATTAAAAACCCTAAAAACCCTAACCTAATT
* *
64747463 TAATTTAAAACACTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCTAAAAACCCTAA-CCTAATT
64747496 TAATTAAAAACCCTAACCTAAACCCTAACCTAATT
1 TAATTAAAAACCCTAA---AAACCCTAACCTAATT
64747531 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCTAAAAACCCTAA-CCTAATT
64747564 TAATT-AAAACCCT
1 TAATTAAAAACCCT
64747577 TAACCTAATT
Statistics
Matches: 102, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
29 12 0.12
32 25 0.25
33 33 0.32
35 23 0.23
36 9 0.09
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (32 bp):
TAATTAAAAACCCTAAAAACCCTAACCTAATT
Found at i:64748524 original size:126 final size:126
Alignment explanation
Indices: 64748299--64748652 Score: 591
Period size: 126 Copynumber: 2.8 Consensus size: 126
64748289 CCCAAACATG
*
64748299 CTACTGCAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
64748364 TACAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTCCTTTCGGGAC
66 TACAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTCCTTTCGGGAC
*
64748425 CTACTGTAGCAAAAGCGCGTCCACGAGAGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
* * *
64748490 TACAAGCGATTTTATACTATTTGCTAAAAAACGTCAAAAAAATAATTATTTCTTTCGTGAC
66 TACAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTCCTTTCGGGAC
* * * *
64748551 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
64748616 TAGAAGTGATTTTATACTATTTGATCAGAAACGTCAA
66 TACAAGCGATTTTATACTATTTGCTCAAAAACGTCAA
64748653 CTCGAAATTA
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 213 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAATAGCATCCTGC
TACAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATAATTATTCCTTTCGGGAC
Found at i:64749098 original size:10 final size:10
Alignment explanation
Indices: 64749083--64749134 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 10
64749073 AATTCGGGGC
*
64749083 TTTTTTTGTT
1 TTTTTTTCTT
64749093 TTTTTTTCTTT
1 TTTTTTTC-TT
64749104 TTTCCTTTTCTT
1 TTT--TTTTCTT
64749116 CTTTTTTTCTCT
1 -TTTTTTTCT-T
64749128 TTTTTTT
1 TTTTTTT
64749135 GTAGTTGGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 7 0.19
11 18 0.50
12 3 0.08
13 8 0.22
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:64749104 original size:8 final size:8
Alignment explanation
Indices: 64749093--64749132 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
64749083 TTTTTTTGTT
64749093 TTTTTTTC
1 TTTTTTTC
*
64749101 TTTTTTCC
1 TTTTTTTC
*
64749109 TTTTCTTC
1 TTTTTTTC
64749117 TTTTTTTC
1 TTTTTTTC
64749125 TCTTTTTT
1 T-TTTTTT
64749133 TTGTAGTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:64749112 original size:13 final size:11
Alignment explanation
Indices: 64749091--64749134 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 11
64749081 GCTTTTTTTG
64749091 TTTTTTTTTCT
1 TTTTTTTTTCT
64749102 TTTTTCCTTTTCT
1 TTTTT--TTTTCT
64749115 TCTTTTTTTCTCT
1 T-TTTTTTT-TCT
64749128 TTTTTTT
1 TTTTTTT
64749135 GTAGTTGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.17
12 9 0.31
13 11 0.38
14 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:64749120 original size:26 final size:26
Alignment explanation
Indices: 64749082--64749132 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
64749072 CAATTCGGGG
* * *
64749082 CTTTTTTTGTTTTTTTTTCTTTTTTC
1 CTTTTCTTCTTTTTTTCTCTTTTTTC
64749108 CTTTTCTTCTTTTTTTCTCTTTTTT
1 CTTTTCTTCTTTTTTTCTCTTTTTT
64749133 TTGTAGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (26 bp):
CTTTTCTTCTTTTTTTCTCTTTTTTC
Found at i:64749594 original size:19 final size:19
Alignment explanation
Indices: 64749563--64749601 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
64749553 CGATGGCCGG
64749563 TCTCTCCTCTCCTCTTTTC
1 TCTCTCCTCTCCTCTTTTC
64749582 TCTCTTCCT-TCCTCTTTTC
1 TCTC-TCCTCTCCTCTTTTC
64749601 T
1 T
64749602 TTTTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (19 bp):
TCTCTCCTCTCCTCTTTTC
Found at i:64749637 original size:37 final size:36
Alignment explanation
Indices: 64749574--64749644 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 36
64749564 CTCTCCTCTC
64749574 CTCTTTTCTCTCTTCCTTCCTCTTTTCTTTTTTTTT
1 CTCTTTTCTCTCTTCCTTCCTCTTTTCTTTTTTTTT
*
64749610 CTCTTTTCTTTCTCTCCTTTCCT-TTTTCTTTTTTT
1 CTCTTTTCTCTCT-TCC-TTCCTCTTTTCTTTTTTT
64749645 CTCCTCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 12 0.38
37 15 0.47
38 5 0.16
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (36 bp):
CTCTTTTCTCTCTTCCTTCCTCTTTTCTTTTTTTTT
Found at i:64749659 original size:37 final size:37
Alignment explanation
Indices: 64749570--64749659 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 37
64749560 CGGTCTCTCC
*
64749570 TCTCCTCTTTTCTCTCTTCCTTCCTCTTTTCTTTTTT
1 TCTCCTCTTTTTTCTCTTCCTTCCTCTTTTCTTTTTT
*
64749607 T-TTCTCTTTTCTT-TCTCTCCTTTCCT-TTTTCTTTTTT
1 TCTCCTCTTTT-TTCTCT-TCC-TTCCTCTTTTCTTTTTT
64749644 TCTCCTCTCTTTTTCT
1 TCTCCTCT-TTTTTCT
64749660 TCTATTTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
36 11 0.25
37 17 0.39
38 12 0.27
39 4 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (37 bp):
TCTCCTCTTTTTTCTCTTCCTTCCTCTTTTCTTTTTT
Found at i:64750296 original size:30 final size:30
Alignment explanation
Indices: 64750238--64750337 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
64750228 TAGGGGCCTG
* * *
64750238 AATGTAATTTACAAAATA-TTAGGGGTCAA
1 AATGTAATTTAGAAAAAATTTAAGGGTCAA
*
64750267 GATGTAATTTAGAAAAAATTTAAGGGTCAA
1 AATGTAATTTAGAAAAAATTTAAGGGTCAA
* *
64750297 AATGTAATTTTTG-AAAAGTTTAAGGG-CTAA
1 AATGTAA-TTTAGAAAAAATTTAAGGGTC-AA
64750327 AATGTAATTTA
1 AATGTAATTTA
64750338 TATTTTTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
29 19 0.32
30 37 0.62
31 4 0.07
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
AATGTAATTTAGAAAAAATTTAAGGGTCAA
Found at i:64750729 original size:75 final size:74
Alignment explanation
Indices: 64750649--64751349 Score: 796
Period size: 75 Copynumber: 9.3 Consensus size: 74
64750639 ATTATTCTTA
* * * * *
64750649 TTTGAAAAATAGAAATTGAAAATACCTCAGTGCGTGACCTGAGGTTCAACTCACCTCTCGGATTA
1 TTTGAAAAACAGAAATT-AAAATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
64750714 TGAGTTGATT
65 TGAGTTGATT
* * *
64750724 TTTGAAAAACATAAATTGAAAATACCTCGGTGTGTGACCCGAGGCTCAACTCACGTCTCGCATTA
1 TTTGAAAAACAGAAATT-AAAATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
*
64750789 TGAGTCGATT
65 TGAGTTGATT
* * * ** * *
64750799 TTTAAAAAAATAGAAATTTAAAATAACTCGGCACATGACCCGAGGCTCAACTCACCTCTCACATT
1 TTT-GAAAAACAGAAA-TTAAAATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATT
64750864 ATGAGTTGATT
64 ATGAGTTGATT
* *** *
64750875 TTTCAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
*
64750940 TGATTTGATTTT
65 TGAGTTGA--TT
* * *
64750952 TTTGAAAAACAGAAATTGAAAATACCTCGGTTTGCG-G-CCCAAGGCTCAACTCACTTATCGCAT
1 TTTGAAAAACAGAAATT-AAAATACCTCGG--TGCGTGACCCGAGGCTCAACTCACCTCTCGCAT
*
64751015 TATAAGTTGATT
63 TATGAGTTGATT
* *** *
64751027 TTTGAAAAATAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGTATTA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
64751092 TGAGTTGATT
65 TGAGTTGATT
* ** *
64751102 TTTGAAAGACAGAAATTAAAGATACCTCGGTTTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
64751167 TGAGTTGATT
65 TGAGTTGATT
* * ** * *
64751177 TTTGAAAAACATAAATTAATGATACCTCGGTATGTGACCTGAGGCTCAA-TGCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTAA-AATACCTCGGTGCGTGACCCGAGGCTCAACT-CACCTCTCGCATT
64751241 ATGAGTTGATT
64 ATGAGTTGATT
* ** ** * *
64751252 TTTGAAAAACAGAAATTAAAGATACATCGGTATGTGACTGGAGGCTCAACTCACCTCTCACAATA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
64751317 TGAGTTGATTT
65 TGAGTTGA-TT
64751328 TTTGAAAAACAGAAATTGAAAA
1 TTTGAAAAACAGAAATT-AAAA
64751350 ATATGATTCT
Statistics
Matches: 545, Mismatches: 64, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
73 1 0.00
74 10 0.02
75 385 0.71
76 82 0.15
77 62 0.11
78 4 0.01
79 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (74 bp):
TTTGAAAAACAGAAATTAAAATACCTCGGTGCGTGACCCGAGGCTCAACTCACCTCTCGCATTAT
GAGTTGATT
Found at i:64751193 original size:150 final size:149
Alignment explanation
Indices: 64750649--64751344 Score: 883
Period size: 150 Copynumber: 4.6 Consensus size: 149
64750639 ATTATTCTTA
* * ** * * *
64750649 TTTGAAAAATAGAAATTGAAAATACCTCAGTGCGTGACCTGAGGTTCAACTCACCTCTCGGATTA
1 TTTGAAAAACAGAAATT-AAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTA
* **
64750714 TGAGTTGATTTTTGAAAAACATAAATTGAAA-ATACCTCGGTGTGTGACCCGAGGCTCAACTCAC
65 TGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGCATGTGACCCGAGGCTCAACTCAC
* * *
64750778 GTCTCGCATTATGAGTCGATT
129 CTCTCGCAATATGAGTTGATT
* * * * ** *
64750799 TTTAAAAAAATAGAAATTTAAAATAACTCGGCACATGACCCGAGGCTCAACTCACCTCTCACATT
1 TTT-GAAAAACAGAAA-TTAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATT
*
64750864 ATGAGTTGATTTTTCAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCAC
64 ATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCAC
*
64750929 CTCTCGCAATATGATTTGATTTT
129 CTCTCGCAATATGAGTTGA--TT
* * * * * *
64750952 TTTGAAAAACAGAAATTGAAAATACCTCGGTTTGCGGCCCAAGGCTCAACTCACTTATCGCATTA
1 TTTGAAAAACAGAAATT-AAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTA
* *
64751017 TAAGTTGATTTTTGAAAAATAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACC
65 TGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACC
* *
64751082 TCTCGTATTATGAGTTGATT
130 TCTCGCAATATGAGTTGATT
* * *
64751102 TTTGAAAGACAGAAATTAAAGATACCTCGGTTTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTA
* * * *
64751167 TGAGTTGATTTTTGAAAAACATAAATTAATGATACCTCGGTATGTGACCTGAGGCTCAA-TGCAC
65 TGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACT-CAC
64751231 CTCTCGCAATATGAGTTGATT
129 CTCTCGCAATATGAGTTGATT
* ** * *
64751252 TTTGAAAAACAGAAATTAAAGATACATCGGTATGTGACTGGAGGCTCAACTCACCTCTCACAATA
1 TTTGAAAAACAGAAATTAAA-ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTA
64751317 TGAGTTGATTTTTTGAAAAACAGAAATT
65 TGAGTTGA-TTTTTGAAAAACAGAAATT
64751345 GAAAAATATG
Statistics
Matches: 478, Mismatches: 59, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
149 4 0.01
150 204 0.43
151 140 0.29
152 125 0.26
153 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (149 bp):
TTTGAAAAACAGAAATTAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTAT
GAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATT
Found at i:64760676 original size:9 final size:9
Alignment explanation
Indices: 64760662--64760687 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64760652 TTGAACAAGA
64760662 AATTTTGAG
1 AATTTTGAG
64760671 AATTTTGAG
1 AATTTTGAG
64760680 AATTTTGA
1 AATTTTGA
64760688 CAATGCGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
AATTTTGAG
Found at i:64761169 original size:17 final size:17
Alignment explanation
Indices: 64761148--64761359 Score: 174
Period size: 17 Copynumber: 12.4 Consensus size: 17
64761138 TACCATAATT
64761148 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
64761166 TTTTTGAAACATGAGAAA
1 TTTTTGAAACACGA-AAA
*
64761184 TTTTTTTGAAACACAAAAA
1 --TTTTTGAAACACGAAAA
*
64761203 TTTTTGAAACACGAGAAT
1 TTTTTGAAACACGA-AAA
*
64761221 TTTTTGAAA-AC-ACAA
1 TTTTTGAAACACGAAAA
64761236 ------AAACACGAAAA
1 TTTTTGAAACACGAAAA
64761247 -TTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
64761263 TTTTTGAAAAACACGAAAA
1 TTTTTG--AAACACGAAAA
* *
64761282 TTTTTTAAACACGAGAATT
1 TTTTTGAAACACGA-AA-A
*
64761301 TTTTTGAAACACAAAAA
1 TTTTTGAAACACGAAAA
*
64761318 TTTTTGAAACACGAAATT
1 TTTTTGAAACACGAAA-A
*
64761336 TTTTTGAAA-ACAAGAAA
1 TTTTTGAAACACGA-AAA
64761353 TTTTTGA
1 TTTTTGA
64761360 TAAATTACTT
Statistics
Matches: 159, Mismatches: 17, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
9 3 0.02
10 2 0.01
11 3 0.02
15 1 0.01
16 12 0.08
17 60 0.38
18 35 0.22
19 31 0.19
20 12 0.08
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:64761169 original size:19 final size:18
Alignment explanation
Indices: 64761147--64761357 Score: 168
Period size: 18 Copynumber: 12.3 Consensus size: 18
64761137 ATACCATAAT
64761147 TTTTTTGAAAACACGAAAA
1 TTTTTTG-AAACACGAAAA
*
64761166 -TTTTTGAAACATGAGAAA
1 TTTTTTGAAACACGA-AAA
64761184 TTTTTTTGAAACAC-AAAA
1 -TTTTTTGAAACACGAAAA
* *
64761202 ATTTTTGAAACACGAGAA
1 TTTTTTGAAACACGAAAA
*
64761220 TTTTTTGAAA-AC-ACAA
1 TTTTTTGAAACACGAAAA
64761236 -------AAACACGAAAA
1 TTTTTTGAAACACGAAAA
64761247 --TTTTGAAACACGAAAA
1 TTTTTTGAAACACGAAAA
64761263 -TTTTTGAAAAACACGAAAA
1 TTTTTTG--AAACACGAAAA
*
64761282 TTTTTT-AAACACGAGAAT
1 TTTTTTGAAACACGA-AAA
64761300 TTTTTTGAAACAC-AAAA
1 TTTTTTGAAACACGAAAA
* *
64761317 ATTTTTGAAACACGAAAT
1 TTTTTTGAAACACGAAAA
*
64761335 TTTTTTGAAA-ACAAGAAA
1 TTTTTTGAAACACGA-AAA
64761353 TTTTT
1 TTTTT
64761358 GATAAATTAC
Statistics
Matches: 159, Mismatches: 14, Indels: 39
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.02
10 2 0.01
11 3 0.02
16 14 0.09
17 51 0.32
18 52 0.33
19 18 0.11
20 16 0.10
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
TTTTTTGAAACACGAAAA
Found at i:64761233 original size:36 final size:37
Alignment explanation
Indices: 64761097--64761359 Score: 242
Period size: 36 Copynumber: 7.1 Consensus size: 37
64761087 CGTGATTCGA
* *
64761097 TTGAAACACGAG--TTTTGTTTTAAAACA-AGAGAA-TT
1 TTGAAACACGAGAATTTT-TTTGAAAACACA-AAAATTT
* * * *
64761132 TTGAAATACCATAATTTTTTTGAAAACACGAAAATTT
1 TTGAAACACGAGAATTTTTTTGAAAACACAAAAATTT
*
64761169 TTGAAACATGAGAAATTTTTTTG-AAACACAAAAATTT
1 TTGAAACACGAG-AATTTTTTTGAAAACACAAAAATTT
*
64761206 TTGAAACACGAGAA-TTTTTTGAAAACACAAAAACACGAAAATT
1 TTGAAACACGAGAATTTTTTTGAAAACAC----A-A--AAATTT
* *
64761249 TTGAAACACGA-AA-ATTTTTGAAAAACACGAAAATTT
1 TTGAAACACGAGAATTTTTTTG-AAAACACAAAAATTT
*
64761285 TTTAAACACGAGAATTTTTTTG-AAACACAAAAATTT
1 TTGAAACACGAGAATTTTTTTGAAAACACAAAAATTT
*
64761321 TTGAAACACGA-AATTTTTTTGAAAACA-AGAAATTT
1 TTGAAACACGAGAATTTTTTTGAAAACACAAAAATTT
64761356 TTGA
1 TTGA
64761360 TAAATTACTT
Statistics
Matches: 190, Mismatches: 21, Indels: 34
0.78 0.09 0.14
Matches are distributed among these distances:
35 37 0.19
36 63 0.33
37 40 0.21
38 17 0.09
40 1 0.01
41 1 0.01
42 8 0.04
43 23 0.12
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (37 bp):
TTGAAACACGAGAATTTTTTTGAAAACACAAAAATTT
Found at i:64761265 original size:43 final size:44
Alignment explanation
Indices: 64761192--64761281 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
64761182 AATTTTTTTG
*
64761192 AAACACAAAAATTTTTGAAACACGAGAATTTTTTG-AAAACACAA
1 AAACACAAAAATTTTTGAAACACGA-AAATTTTTGAAAAACACAA
* *
64761236 AAACACGAAAA-TTTTGAAACACGAAAATTTTTGAAAAACACGA
1 AAACACAAAAATTTTTGAAACACGAAAATTTTTGAAAAACACAA
64761279 AAA
1 AAA
64761282 TTTTTTAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 8 0.19
43 24 0.57
44 10 0.24
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.22
Consensus pattern (44 bp):
AAACACAAAAATTTTTGAAACACGAAAATTTTTGAAAAACACAA
Found at i:64761282 original size:79 final size:81
Alignment explanation
Indices: 64761154--64761317 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 81
64761144 AATTTTTTTG
* ***
64761154 AAAACACGAAAATTTTTGAAACATGAGAAATTTTTTTGAAACACAAAAATTTTTGAAACACGAGA
1 AAAACACGAAAATTTTTGAAACACGAGAAATTTTTGAAAAACACAAAAATTTTTGAAACACGAGA
64761219 A-TTTTTTGAAAACACA
66 ATTTTTTTG-AAACACA
* *
64761235 AAAACACGAAAA-TTTTGAAACACGA-AAATTTTTGAAAAACACGAAAATTTTTTAAACACGAGA
1 AAAACACGAAAATTTTTGAAACACGAGAAATTTTTGAAAAACACAAAAATTTTTGAAACACGAGA
64761298 ATTTTTTTGAAACACA
66 ATTTTTTTGAAACACA
64761314 AAAA
1 AAAA
64761318 TTTTTGAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 45 0.59
80 19 0.25
81 12 0.16
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (81 bp):
AAAACACGAAAATTTTTGAAACACGAGAAATTTTTGAAAAACACAAAAATTTTTGAAACACGAGA
ATTTTTTTGAAACACA
Found at i:64761794 original size:15 final size:17
Alignment explanation
Indices: 64761776--64761817 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
64761766 TTTTTGTTTC
64761776 TTTTTCTTTTTC-T-CT
1 TTTTTCTTTTTCTTCCT
*
64761791 TTTTTCCTTTTCTTCCT
1 TTTTTCTTTTTCTTCCT
64761808 TTTTT-TTTTT
1 TTTTTCTTTTT
64761818 TGCAGTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 5 0.22
17 7 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTTCTTCCT
Found at i:64762177 original size:7 final size:7
Alignment explanation
Indices: 64762167--64762235 Score: 66
Period size: 7 Copynumber: 9.3 Consensus size: 7
64762157 TTTTTTAAAT
64762167 TTTTTTC
1 TTTTTTC
64762174 TTTTTTC
1 TTTTTTC
64762181 TTTTTTTC
1 -TTTTTTC
*
64762189 TATTTTC
1 TTTTTTC
*
64762196 TATTTTC
1 TTTTTTC
*
64762203 TATTTTC
1 TTTTTTC
*
64762210 TATTTTTA
1 T-TTTTTC
64762218 TTTCTTTC
1 TTT-TTTC
64762226 TTTCTTTC
1 TTT-TTTC
64762234 TT
1 TT
64762236 CTTCTTCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
7 30 0.55
8 25 0.45
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:64762184 original size:14 final size:14
Alignment explanation
Indices: 64762167--64762235 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 14
64762157 TTTTTTAAAT
64762167 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
*
64762181 TTTTTTTCTATTTTC
1 -TTTTTTCTTTTTTC
* *
64762196 TATTTTCTATTTTC
1 TTTTTTCTTTTTTC
*
64762210 TATTTTTATTTCTTTC
1 T-TTTTTCTTT-TTTC
64762226 TTTCTTTCTT
1 TTT-TTTCTT
64762236 CTTCTTCTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
14 14 0.31
15 21 0.47
16 10 0.22
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:64762378 original size:19 final size:20
Alignment explanation
Indices: 64762356--64762401 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
64762346 TTTTTTTCTC
64762356 TCTTTTCCTTT-TCCT-TTTT
1 TCTTTT-CTTTCTCCTATTTT
64762375 TC-TTTCTTTCTCCTATTTT
1 TCTTTTCTTTCTCCTATTTT
*
64762394 TCTCTTCT
1 TCTTTTCT
64762402 ATTTCGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 8 0.35
20 4 0.17
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TCTTTTCTTTCTCCTATTTT
Found at i:64762380 original size:18 final size:19
Alignment explanation
Indices: 64762363--64762401 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
64762353 CTCTCTTTTC
64762363 CTTT-TCCT-TTTTTCTTT
1 CTTTCTCCTATTTTTCTTT
64762380 CTTTCTCCTATTTTTCTCTT
1 CTTTCTCCTATTTTTCT-TT
64762400 CT
1 CT
64762402 ATTTCGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 7 0.37
20 4 0.21
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
CTTTCTCCTATTTTTCTTT
Found at i:64767314 original size:23 final size:23
Alignment explanation
Indices: 64767288--64767409 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
64767278 ATAAGTGCCA
64767288 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
64767311 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
64767334 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
64767357 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
64767380 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
64767403 CACTGAT
1 CACTGAT
64767410 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:64767355 original size:46 final size:46
Alignment explanation
Indices: 64767288--64767409 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
64767278 ATAAGTGCCA
*
64767288 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
64767334 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
64767380 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
64767410 CAATAACACT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:64791591 original size:23 final size:23
Alignment explanation
Indices: 64791565--64791615 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
64791555 AAGAAGTTCC
* *
64791565 ACTCAAATCATTATAGTTATCAT
1 ACTCAAACCATTAGAGTTATCAT
64791588 ACTCAAACCATTAGAGTTATCAT
1 ACTCAAACCATTAGAGTTATCAT
64791611 -CTCAA
1 ACTCAA
64791616 GAGTATATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
ACTCAAACCATTAGAGTTATCAT
Done.