Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 67 of 333
Found at i:20213963 original size:15 final size:15
Alignment explanation
Indices: 20213943--20213974 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20213933 CTTAGTTTTT
20213943 TCGGGTTGTAGTGAG
1 TCGGGTTGTAGTGAG
20213958 TCGGGTTGTAGTGAG
1 TCGGGTTGTAGTGAG
20213973 TC
1 TC
20213975 TCTTCTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.44, T:0.34
Consensus pattern (15 bp):
TCGGGTTGTAGTGAG
Found at i:20215657 original size:40 final size:39
Alignment explanation
Indices: 20215552--20215697 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 39
20215542 GCTACTCGTT
*
20215552 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
20215592 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
20215632 CCAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20215673 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
20215698 CATCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 5 0.06
40 72 0.81
41 12 0.13
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20231138 original size:21 final size:21
Alignment explanation
Indices: 20231108--20231175 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
20231098 CTATTTTCTA
* *
20231108 GGGCATCATAAATGAAGAACAG
1 GGGCACCATAAGTG-AGAACAG
* *
20231130 GGGCA-CATACGTGCA-ATCAG
1 GGGCACCATAAGTG-AGAACAG
20231150 GGGCACCA-AAGTGAGAACAG
1 GGGCACCATAAGTGAGAACAG
20231170 GGGCAC
1 GGGCAC
20231176 AGATGTGCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 23 0.61
21 9 0.24
22 5 0.13
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.10
Consensus pattern (21 bp):
GGGCACCATAAGTGAGAACAG
Found at i:20231188 original size:20 final size:20
Alignment explanation
Indices: 20231125--20231214 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
20231115 ATAAATGAAG
* *
20231125 AACAGGGGCACATACGTGCA
1 AACAGGGGCACAGAAGTGCA
*
20231145 ATCAGGGGCACCA-AAGTG-A
1 AACAGGGGCA-CAGAAGTGCA
*
20231164 GAACAGGGGCACAGATGTGCA
1 -AACAGGGGCACAGAAGTGCA
* * *
20231185 AACAGGGACACCGAAGTGTA
1 AACAGGGGCACAGAAGTGCA
*
20231205 TACAGGGGCA
1 AACAGGGGCA
20231215 TTGAAGTGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACAGAAGTGCA
Found at i:20231213 original size:60 final size:60
Alignment explanation
Indices: 20231147--20231371 Score: 227
Period size: 60 Copynumber: 3.8 Consensus size: 60
20231137 TACGTGCAAT
* *
20231147 CAGGGGCACCAAAGTGAGAACAGGGGCACAGAT-GTGCAAACAGGGACACCGAAGTGTATA
1 CAGGGGCACCAAAGTGTGAACAGGGGCACAG-TCGTGCAAATAGGGACACCGAAGTGTATA
*** ** * * * *
20231207 CAGGGGCATTGAAGTGTGAACAGCAGCATAGTCGTGCAAATAGGGACACTGGAGCGTATA
1 CAGGGGCACCAAAGTGTGAACAGGGGCACAGTCGTGCAAATAGGGACACCGAAGTGTATA
* * * * * * * * * *
20231267 TAGGGGAACCGAAGTGCGAACAGGGGCATAGTCATGCAAATAGAGACACCAAAATCTATA
1 CAGGGGCACCAAAGTGTGAACAGGGGCACAGTCGTGCAAATAGGGACACCGAAGTGTATA
* *
20231327 AAGGGGCACCAAAGTGTGAACAGGGGCACAGTCCTGCAAATAGGG
1 CAGGGGCACCAAAGTGTGAACAGGGGCACAGTCGTGCAAATAGGG
20231372 GCACTTCTTC
Statistics
Matches: 131, Mismatches: 33, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
59 1 0.01
60 130 0.99
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.14
Consensus pattern (60 bp):
CAGGGGCACCAAAGTGTGAACAGGGGCACAGTCGTGCAAATAGGGACACCGAAGTGTATA
Found at i:20231214 original size:40 final size:40
Alignment explanation
Indices: 20231123--20231202 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
20231113 TCATAAATGA
* * *
20231123 AGAACAGGGGCACATACGTGCAATCAGGGGCACCAAAGTG
1 AGAACAGGGGCACAGACGTGCAAACAGGGACACCAAAGTG
* *
20231163 AGAACAGGGGCACAGATGTGCAAACAGGGACACCGAAGTG
1 AGAACAGGGGCACAGACGTGCAAACAGGGACACCAAAGTG
20231203 TATACAGGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.34, T:0.09
Consensus pattern (40 bp):
AGAACAGGGGCACAGACGTGCAAACAGGGACACCAAAGTG
Found at i:20238664 original size:43 final size:43
Alignment explanation
Indices: 20238598--20238770 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
20238588 AGCTTGTATA
* * * *
20238598 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACACGAAATCAAATATCG
* *
20238641 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAAATA-CA
1 ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATCG
* ** * *
20238683 ATGCCAATGTCCCAGACATAGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAAACAGGGTCTTACACG-AAATC-AAATATCG
* *
20238727 ATGCCAAAGTCCCAAAC-GTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACACGAAATCAAATATCG
20238770 A
1 A
20238771 AATCCTATGT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.26
43 49 0.47
44 28 0.27
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAAATATCG
Found at i:20238756 original size:86 final size:85
Alignment explanation
Indices: 20238597--20238762 Score: 237
Period size: 86 Copynumber: 1.9 Consensus size: 85
20238587 AAGCTTGTAT
* * **
20238597 AATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGG
1 AATGCCAACGTCCCAGACATAGTCTTACATGTAATCAAATATCGATGCCAAAGTCCCAAACAGGG
20238662 TCTTACACGAAATCAAATAC
66 TCTTACACGAAATCAAATAC
* *
20238682 AATGCCAATGTCCCAGACATAGTCTTACATGTAAATCTCAA-ATCGATGCCAAAGTCCCAAAC-G
1 AATGCCAACGTCCCAGACATAGTCTTACATGT-AATC-AAATATCGATGCCAAAGTCCCAAACAG
20238745 TGGTCTTACACGAAATCA
64 -GGTCTTACACGAAATCA
20238763 CATATCGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
85 30 0.42
86 40 0.56
87 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (85 bp):
AATGCCAACGTCCCAGACATAGTCTTACATGTAATCAAATATCGATGCCAAAGTCCCAAACAGGG
TCTTACACGAAATCAAATAC
Found at i:20246260 original size:43 final size:41
Alignment explanation
Indices: 20246194--20246304 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
20246184 AGCTCGTACA
* ***
20246194 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTA-AAAAAATCAAATA-CG
* *
20246237 ATGCCACTGTGCCAGACAGGGTCTTAAAAAAATCAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTAAAAAAATCAAATACG
* *
20246278 ATGCCAATGTCCCAAACATGGTCTTAA
1 ATGCCAATGTCCCAGACAGGGTCTTAA
20246305 CGTAAATCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 25 0.44
42 10 0.18
43 21 0.37
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACAGGGTCTTAAAAAAATCAAATACG
Found at i:20246326 original size:43 final size:43
Alignment explanation
Indices: 20246194--20246364 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
20246184 AGCTCGTACA
* * * * *
20246194 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATC-AAATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCTCAA-ATCG
* * * **
20246237 ATGCC-ACTGTGCCAGACAGGGTCTTA-A--AAAAATCAAATACG
1 ATGCCAAC-GTCCCAAACATGGTCTTACACGAAATCTCAAAT-CG
*
20246278 ATGCCAATGTCCCAAACATGGTCTTA-ACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACG-AAATCTCAAATCG
* * *
20246321 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACGAAATCTCAAATCG
20246364 A
1 A
20246365 AATCCTATGT
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.04
41 25 0.24
42 4 0.04
43 58 0.56
44 12 0.12
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGAAATCTCAAATCG
Found at i:20249845 original size:25 final size:25
Alignment explanation
Indices: 20249806--20249875 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
20249796 TCCTGTACAT
*
20249806 GTATGCTCATACGAGTTGT-GAACTG
1 GTATGCTCATACGAGCTGTAG-ACTG
*
20249831 GTATGCTCACT-CGAGCTGTAGATTG
1 GTATGCTCA-TACGAGCTGTAGACTG
20249856 GTATGCTC-TCACGAGCTGTA
1 GTATGCTCAT-ACGAGCTGTA
20249876 AATCAGTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAGACTG
Found at i:20249884 original size:25 final size:24
Alignment explanation
Indices: 20249831--20249922 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
20249821 TTGTGAACTG
* *
20249831 GTATGCTCACTCGAGCTGTAGATTG
1 GTATGCTCACACGAGCTGTAGA-TC
* *
20249856 GTATGCTCTCACGAGCTGTAAATC
1 GTATGCTCACACGAGCTGTAGATC
* *
20249880 AGTATGCTCACACCAACTGTAGATC
1 -GTATGCTCACACGAGCTGTAGATC
20249905 GATATGCTCTA-ACGAGCT
1 G-TATGCTC-ACACGAGCT
20249923 ATGGGTTAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.04
25 51 0.94
26 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
GTATGCTCACACGAGCTGTAGATC
Found at i:20253712 original size:35 final size:34
Alignment explanation
Indices: 20253673--20253766 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 34
20253663 GAAGAAAGAT
*
20253673 AAAAAGAAAAGCAAAAGAAAAAAGTGAAAGGGAGG
1 AAAAAGAAAAGCAAAAGAAAAAAG-GAAAGGGAAG
* *
20253708 AAAAACAAAAG-AAAAGAAAAGATAGGAAAGGGAAT
1 AAAAAGAAAAGCAAAAGAAAA-A-AGGAAAGGGAAG
20253743 AAAAAGAAAA-CAAATATGAAAAAA
1 AAAAAGAAAAGCAAA-A-GAAAAAA
20253767 AATAAAGTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 9 0.18
35 32 0.64
36 4 0.08
37 5 0.10
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.05
Consensus pattern (34 bp):
AAAAAGAAAAGCAAAAGAAAAAAGGAAAGGGAAG
Found at i:20259045 original size:66 final size:64
Alignment explanation
Indices: 20258929--20259068 Score: 169
Period size: 66 Copynumber: 2.2 Consensus size: 64
20258919 GAATATGTAT
* *
20258929 AACTTATTCTTTATGCAATAAAATAAACATACTTAAAATAACATAAAAAATGCCT-AAATAACTC
1 AACTTATTCTTTATGCAAGAAAATAAACATACTTAAAATAACAT-AAAAATG-CTAAAATAACAC
20258993 C
64 C
* * *
20258994 AACTGTATTTTTTATGCAAGAAAATGTAACATACTTAAAAATAACAT-AAAATGTTAAAATAACA
1 AACT-TATTCTTTATGCAAGAAAAT-AAACATACTT-AAAATAACATAAAAATGCTAAAATAACA
20259058 CC
63 CC
20259060 AACTT-TTCT
1 AACTTATTCT
20259069 AATGATTCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
64 3 0.05
65 6 0.09
66 37 0.57
67 9 0.14
68 10 0.15
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (64 bp):
AACTTATTCTTTATGCAAGAAAATAAACATACTTAAAATAACATAAAAATGCTAAAATAACACC
Found at i:20260954 original size:15 final size:15
Alignment explanation
Indices: 20260934--20260962 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20260924 CTTAATTACA
20260934 TTAGTTTAATTTAAC
1 TTAGTTTAATTTAAC
20260949 TTAGTTTAATTTAA
1 TTAGTTTAATTTAA
20260963 TTTCGACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
TTAGTTTAATTTAAC
Found at i:20270597 original size:43 final size:43
Alignment explanation
Indices: 20270549--20270715 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
20270539 GTTATTGAGA
*
20270549 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** *
20270592 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* ** * * *
20270635 TATGATTTCATGTAAGACCTTGTCTGGGATAGTGGCATCG-AT
1 TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
20270677 ATGTGA-TAACATGTAAAGACCATATCTGGGA-TTTGGCAT
1 -TGTGATTAA-ATGT-AAGACCATGTCTGGGACATTGGCAT
20270716 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.03
43 86 0.83
44 14 0.14
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:20273203 original size:15 final size:15
Alignment explanation
Indices: 20273174--20273215 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
20273164 TTAACCCAAT
*
20273174 CAAATACAA-AAAAA
1 CAAATAAAACAAAAA
*
20273188 CAAATAAAGCAAAAA
1 CAAATAAAACAAAAA
*
20273203 CGAATAAAACAAA
1 CAAATAAAACAAA
20273216 GAAACTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.74, C:0.14, G:0.05, T:0.07
Consensus pattern (15 bp):
CAAATAAAACAAAAA
Found at i:20288288 original size:18 final size:18
Alignment explanation
Indices: 20288265--20288309 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
20288255 AAAAATCAAG
20288265 TTTAAACTAGAGATTAAA
1 TTTAAACTAGAGATTAAA
20288283 TTTAAACTAGAGATTAAA
1 TTTAAACTAGAGATTAAA
20288301 TTTAAACTA
1 TTTAAACTA
20288310 ATTATAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (18 bp):
TTTAAACTAGAGATTAAA
Found at i:20288821 original size:17 final size:17
Alignment explanation
Indices: 20288799--20288831 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20288789 CAACATATAC
20288799 TTTTATCTA-TATTTTTA
1 TTTTAT-TATTATTTTTA
20288816 TTTTATTATTATTTTT
1 TTTTATTATTATTTTT
20288832 TCAAACGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATTATTTTTA
Found at i:20289418 original size:19 final size:19
Alignment explanation
Indices: 20289394--20289431 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20289384 ATGAATTAAG
20289394 AAACTATTCTTAGCAAACC
1 AAACTATTCTTAGCAAACC
20289413 AAACTATTCTTAGCAAACC
1 AAACTATTCTTAGCAAACC
20289432 CACTTAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
AAACTATTCTTAGCAAACC
Found at i:20294499 original size:39 final size:39
Alignment explanation
Indices: 20294445--20294524 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
20294435 AAAACAACTT
*
20294445 AAAATAGGGCAATGTTGAAAATAGGTATGCTGTCTCGAC
1 AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
*
20294484 AAAATAGCGCAATGTTGAAAATAGGTGTGCTGTCTCGAC
1 AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
20294523 AA
1 AA
20294525 GAAAGATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (39 bp):
AAAATAGCGCAATGTTGAAAATAGGTATGCTGTCTCGAC
Found at i:20296300 original size:17 final size:16
Alignment explanation
Indices: 20296261--20296307 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
20296251 AATAAACATC
20296261 ATAAAGTAATTTATATAA
1 ATAAA-TAATTT-TATAA
20296279 ATAAATTAATTTTATAA
1 ATAAA-TAATTTTATAA
*
20296296 TTAAATAATTTT
1 ATAAATAATTTT
20296308 CTCAACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 7 0.26
17 9 0.33
18 11 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAAATAATTTTATAA
Found at i:20296453 original size:4 final size:4
Alignment explanation
Indices: 20296444--20296468 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20296434 TTTGAACTCC
20296444 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
20296469 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:20302412 original size:15 final size:15
Alignment explanation
Indices: 20302392--20302443 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
20302382 ACTGTAAAAC
20302392 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
20302407 ATTTATAATTGTAGCATAT
1 ATTTATTA-T-TA--ATAT
*
20302426 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
20302441 ATT
1 ATT
20302444 AATATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 1 0.03
17 4 0.13
18 1 0.03
19 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:20305307 original size:36 final size:36
Alignment explanation
Indices: 20305267--20305344 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
20305257 ATGGAAATAT
20305267 AATCTTTAAGGATATG-A-AATCTTAGATATGATACGC
1 AATCTTT-A-GATATGAACAATCTTAGATATGATACGC
*
20305303 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGA-ACAATCTTAGATATGATACGC
20305339 AATCTT
1 AATCTT
20305345 AGACATCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 6 0.16
34 1 0.03
35 3 0.08
36 26 0.70
37 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTTAGATATGAACAATCTTAGATATGATACGC
Found at i:20305324 original size:17 final size:18
Alignment explanation
Indices: 20305284--20305347 Score: 103
Period size: 19 Copynumber: 3.5 Consensus size: 18
20305274 AAGGATATGA
20305284 AATCTTAGATATGATACGC
1 AATCTTAGATATGATA-GC
20305303 AATCTTAGATATGATA-C
1 AATCTTAGATATGATAGC
20305320 AATCTTAGATATGATATGC
1 AATCTTAGATATGATA-GC
20305339 AATCTTAGA
1 AATCTTAGA
20305348 CATCATCTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.40
19 26 0.60
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
AATCTTAGATATGATAGC
Found at i:20310259 original size:31 final size:31
Alignment explanation
Indices: 20310218--20310281 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
20310208 CCTTTTCATA
*
20310218 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCAAATTTCATAATACTGGGCCGAAGCCT
*
20310249 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAATACTGGGCCGAAGCCT
20310280 TT
1 TT
20310282 ATTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAATACTGGGCCGAAGCCT
Found at i:20314044 original size:27 final size:28
Alignment explanation
Indices: 20313960--20314057 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
20313950 TAAATTGTAC
* *
20313960 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
20313988 AGCACTAAGTGTGCGAGCTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
20314016 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
20314043 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20314058 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:20314068 original size:27 final size:27
Alignment explanation
Indices: 20313960--20314070 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
20313950 TAAATTGTAC
* *
20313960 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
20313988 AGCACTAAGTGTGCGAGCTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
20314016 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
20314043 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
20314070 A
1 A
20314071 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:20322322 original size:28 final size:28
Alignment explanation
Indices: 20322257--20322407 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
20322247 GAGATTGGCG
* * * *
20322257 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
20322286 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
20322314 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20322342 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20322370 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20322397 CTGAGTGTGCG
1 CTAAGTGTGCG
20322408 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20324853 original size:27 final size:27
Alignment explanation
Indices: 20324791--20324868 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
20324781 GGGCATATTC
20324791 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
20324818 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
20324845 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
20324869 TTAGTCACTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:20325166 original size:27 final size:27
Alignment explanation
Indices: 20324886--20325342 Score: 233
Period size: 27 Copynumber: 16.8 Consensus size: 27
20324876 CTTCACCCAA
* * * * *
20324886 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
20324913 CAAGGGTATTTCAGTAAATTTTGTAAAC
1 CAAGGGTATTTTAGT-AATTTTACAAAT
* *
20324941 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
20324970 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
* * *
20324997 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** ** * *
20325024 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
20325051 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
20325077 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTACAAAT
* *
20325104 CTAAGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTACAAAT
* **
20325132 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *** * **
20325159 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*** * **
20325186 CAAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ***** **
20325213 CGAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
** * * *
20325240 CGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTAGTAATTTTACAAAT
20325267 CGAA-GGTATTTTAGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTACAAAT
* * *
20325294 CGAGGGTATTTCAGTATTTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
**
20325320 CTAAGGGTATTTCGGTAATTTTA
1 C-AAGGGTATTTTAGTAATTTTA
20325343 GTAAACTAAA
Statistics
Matches: 352, Mismatches: 67, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.01
27 299 0.85
28 33 0.09
29 16 0.05
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:20325166 original size:81 final size:81
Alignment explanation
Indices: 20324970--20325164 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
20324960 TTTAGAAAGT
* * *
20324970 CAAGGGTATTTCTGTAACTTTGTAAAT-TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTT-TGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
20325034 TCGGTAATTTCACAAAC
65 TCGGTAATTTCACAAAC
**
20325051 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
1 CAAGGGTATTTT-GTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
* *
20325115 TTGGTAATTTTACAAAC
65 TCGGTAATTTCACAAAC
* *
20325132 CAATGGTATTTTAGTAATTTTGTAAATCGAGGG
1 CAAGGGTATTTT-GTAATTTTGTAAATCTAGGG
20325165 TAAAATAGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 93 0.94
82 5 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGTAATTTTGTAAATCTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
CGGTAATTTCACAAAC
Found at i:20325356 original size:27 final size:27
Alignment explanation
Indices: 20325253--20325357 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
20325243 GGGTACTTTG
* * *
20325253 GTAATTTTACAAGTCGAAG-GTATTTTA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
20325280 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
20325307 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
20325334 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
20325358 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:20327585 original size:9 final size:9
Alignment explanation
Indices: 20327570--20327643 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
20327560 TCTACTTCAA
20327570 AAAAAAAAGG
1 AAAAAAAA-G
20327580 AAAAAAAAG
1 AAAAAAAAG
20327589 AAAAAGAAA-
1 AAAAA-AAAG
*
20327598 AGAGAAAAA-
1 A-AAAAAAAG
*
20327607 ATAAAAAAG
1 AAAAAAAAG
*
20327616 AAAAAAGAG
1 AAAAAAAAG
20327625 AAAAATAAA-
1 AAAAA-AAAG
20327634 AAAGAAAAAG
1 AAA-AAAAAG
20327644 GGAGAGGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.10
9 29 0.56
10 18 0.35
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:20327592 original size:7 final size:7
Alignment explanation
Indices: 20327582--20327642 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
20327572 AAAAAAGGAA
20327582 AAAAAAG
1 AAAAAAG
20327589 -AAAAAG
1 AAAAAAG
*
20327595 AAAAGAG
1 AAAAAAG
*
20327602 AAAAAAT
1 AAAAAAG
20327609 AAAAAAG
1 AAAAAAG
20327616 AAAAAAG
1 AAAAAAG
*
20327623 AGAAAAAT
1 A-AAAAAG
20327631 AAAAAAG
1 AAAAAAG
20327638 AAAAA
1 AAAAA
20327643 GGGAGAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 6 0.13
7 34 0.74
8 6 0.13
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:20327592 original size:15 final size:14
Alignment explanation
Indices: 20327568--20327642 Score: 78
Period size: 14 Copynumber: 5.2 Consensus size: 14
20327558 CTTCTACTTC
*
20327568 AAAAAAAAAAGGAA
1 AAAAAAAAAAAGAA
20327582 AAAAAAGAAAAAGAA
1 AAAAAA-AAAAAGAA
* * *
20327597 AAGAGAAAAAATAA
1 AAAAAAAAAAAGAA
*
20327611 AAAAGAAAAAAGAGA
1 AAAAAAAAAAAGA-A
*
20327626 AAAATAAAAAAGAA
1 AAAAAAAAAAAGAA
20327640 AAA
1 AAA
20327643 GGGAGAGGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 28 0.54
15 24 0.46
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:20327598 original size:22 final size:21
Alignment explanation
Indices: 20327568--20327644 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 21
20327558 CTTCTACTTC
*
20327568 AAAAA-AAAAAGGAAAAAAAA
1 AAAAAGAAAAAGGAAAAAATA
20327588 GAAAAAG-AAAAGAGAAAAAATA
1 -AAAAAGAAAAAG-GAAAAAATA
*
20327610 AAAAAGAAAAAAGAGAAAAATA
1 AAAAAGAAAAAGGA-AAAAATA
20327632 AAAAAGAAAAAGG
1 AAAAAGAAAAAGG
20327645 GAGAGGCCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.37
22 31 0.63
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAAAGGAAAAAATA
Found at i:20327619 original size:36 final size:35
Alignment explanation
Indices: 20327568--20327642 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
20327558 CTTCTACTTC
* *
20327568 AAAAAAAAAAGGAAAAAAAAGAAAAAGAAAAGAGA
1 AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGA
* *
20327603 AAAAATAAAAAAGAAAAAAGAGAAAAATAAAAAAGA
1 AAAAA-AAAAAAGAAAAAAAAGAAAAAGAAAAAAGA
20327639 AAAA
1 AAAA
20327643 GGGAGAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
35 5 0.14
36 30 0.86
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (35 bp):
AAAAAAAAAAAGAAAAAAAAGAAAAAGAAAAAAGA
Found at i:20328642 original size:88 final size:88
Alignment explanation
Indices: 20328536--20328707 Score: 281
Period size: 88 Copynumber: 2.0 Consensus size: 88
20328526 AATCGAAGAT
20328536 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
1 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
20328601 TAACATTCCTGTGCTTACAGTAA
66 TAACATTCCTGTGCTTACAGTAA
* * * *
20328624 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
** *
20328689 TGGCATTCTTGTGCTTACA
66 TAACATTCCTGTGCTTACA
20328708 AGGAACAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (88 bp):
AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC
TAACATTCCTGTGCTTACAGTAA
Found at i:20328656 original size:44 final size:44
Alignment explanation
Indices: 20328536--20328657 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
20328526 AATCGAAGAT
* * * *
20328536 AGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGA
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTACAGGAA
* ** ** * *
20328580 A-CAAATCGAAGATAGCAG-ATCTAACATTCCTGTGCTTACAGTAA
1 AGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTACAGGAA
20328624 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTG
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTG
20328658 TTTATAGGGA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
42 1 0.02
43 13 0.23
44 28 0.49
45 14 0.25
46 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTACAGGAA
Found at i:20328693 original size:44 final size:43
Alignment explanation
Indices: 20328557--20328723 Score: 122
Period size: 44 Copynumber: 3.8 Consensus size: 43
20328547 GATTTCAGCA
*
20328557 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGAT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT
** * * * ** **
20328600 CTAACATTCCTGTGCTTACAGTAAAGC-AGATCGAAGATTTCAGCA-
1 -TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-AT
*
20328645 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA-T
* * * * * *
20328689 TGGCATTCTTGTGCTTACAAGGAACAAATCGAAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
20328724 CATAGCTGAT
Statistics
Matches: 90, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 1 0.01
43 11 0.12
44 65 0.72
45 12 0.13
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGAT
Found at i:20329038 original size:206 final size:206
Alignment explanation
Indices: 20328685--20329426 Score: 1191
Period size: 206 Copynumber: 3.6 Consensus size: 206
20328675 GAAGATAGCA
* *
20328685 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
20328749 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
** *
20328814 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAAC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAC
*
20328879 AGATCCAAGGT
196 AGATCCAAGAT
*
20328890 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
20328955 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTTG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
20329020 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAATCTTCAGATGTTTATACT-AAAG
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAA-
*
20329084 TAGATCCAAGAT
195 CAGATCCAAGAT
*
20329096 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
20329161 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * * *
20329226 CGTCTCCATATTCGACGGAGGGAAAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAC
20329291 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * * *
20329302 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGTTTTCTCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
20329367 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
66 TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
20329427 ATAACAGATT
Statistics
Matches: 499, Mismatches: 35, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
205 63 0.13
206 434 0.87
207 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAACAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAAC
AGATCCAAGAT
Found at i:20332375 original size:16 final size:16
Alignment explanation
Indices: 20332356--20332439 Score: 78
Period size: 16 Copynumber: 5.1 Consensus size: 16
20332346 ACGTTAACAA
20332356 TAAATTTTTAAAAATT
1 TAAATTTTTAAAAATT
* *
20332372 TAAAATATTAAAATATT
1 TAAATTTTTAAAA-ATT
* * *
20332389 TATACTTTTTAATTATTT
1 TA-AATTTTTAA-AAATT
**
20332407 TAAATTTTTAAATTTT
1 TAAATTTTTAAAAATT
20332423 TAAATTTTTAAAAATT
1 TAAATTTTTAAAAATT
20332439 T
1 T
20332440 TAAAATTAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
16 29 0.55
17 13 0.25
18 10 0.19
19 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAATTTTTAAAAATT
Found at i:20332422 original size:7 final size:8
Alignment explanation
Indices: 20332356--20332434 Score: 68
Period size: 8 Copynumber: 9.5 Consensus size: 8
20332346 ACGTTAACAA
20332356 TAAATTTT
1 TAAATTTT
*
20332364 TAAAAATTT
1 T-AAATTTT
* *
20332373 AAAATATT
1 TAAATTTT
* *
20332381 AAAATATT
1 TAAATTTT
*
20332389 TATACTTTT
1 TA-AATTTT
*
20332398 TAATTATTT
1 TAAAT-TTT
20332407 TAAATTTT
1 TAAATTTT
20332415 TAAATTTT
1 TAAATTTT
20332423 TAAATTTT
1 TAAATTTT
20332431 TAAA
1 TAAA
20332435 AATTTTAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
8 40 0.68
9 19 0.32
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (8 bp):
TAAATTTT
Found at i:20332444 original size:8 final size:8
Alignment explanation
Indices: 20332356--20332446 Score: 65
Period size: 8 Copynumber: 10.9 Consensus size: 8
20332346 ACGTTAACAA
*
20332356 TAAATTTT
1 TAAAATTT
*
20332364 TAAAAATT
1 TAAAATTT
*
20332372 TAAAATAT
1 TAAAATTT
20332380 TAAAATATT
1 TAAAAT-TT
**
20332389 TATACTTTT
1 TA-AAATTT
*
20332398 TAATTATTT
1 TAA-AATTT
*
20332407 TAAATTTT
1 TAAAATTT
*
20332415 TAAATTTT
1 TAAAATTT
*
20332423 TAAATTTT
1 TAAAATTT
20332431 TAAAAATTT
1 T-AAAATTT
20332440 TAAAATT
1 TAAAATT
20332447 AATTAATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
8 45 0.67
9 20 0.30
10 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (8 bp):
TAAAATTT
Found at i:20332511 original size:20 final size:20
Alignment explanation
Indices: 20332482--20332528 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
20332472 GTGTATGCCA
*
20332482 CATCAGTAAGTTAACTTTTC
1 CATCAATAAGTTAACTTTTC
20332502 CATCAATAAGTTAACTTTTC
1 CATCAATAAGTTAACTTTTC
20332522 CATCAAT
1 CATCAAT
20332529 TTTGGGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (20 bp):
CATCAATAAGTTAACTTTTC
Found at i:20335856 original size:20 final size:20
Alignment explanation
Indices: 20335822--20335876 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
20335812 ATCCTGAACC
* *
20335822 TTAAGGTTCAAGGTTC-AAGG
1 TTAAGGTTTAGGGTTCGAA-G
*
20335842 TTAAGGTTTAGGGTTCGAAT
1 TTAAGGTTTAGGGTTCGAAG
*
20335862 TTAAGGTTTGGGGTT
1 TTAAGGTTTAGGGTT
20335877 TAAGATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.24, C:0.05, G:0.33, T:0.38
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTCGAAG
Found at i:20338551 original size:70 final size:70
Alignment explanation
Indices: 20338453--20338585 Score: 153
Period size: 70 Copynumber: 1.9 Consensus size: 70
20338443 AATATTGGAT
* * * * * * *
20338453 GCAATAGTAAGACATATTATATTCTTAAA-AAGAGATGTAAATTTAAA-CATTAGAAATAATATT
1 GCAATAATAAGACACATTACATTATTAAAGAA-AAATGTAAATTCAAACCA-TAAAAATAATATT
20338516 GTTGAAA
64 GTTGAAA
* *
20338523 GCAATAATAAGATACATTACATTATTAAAGAAAAATGTAAGTTCAAACCATAAAAATAATATT
1 GCAATAATAAGACACATTACATTATTAAAGAAAAATGTAAATTCAAACCATAAAAATAATATT
20338586 ATTAGAAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
70 48 0.92
71 4 0.08
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (70 bp):
GCAATAATAAGACACATTACATTATTAAAGAAAAATGTAAATTCAAACCATAAAAATAATATTGT
TGAAA
Found at i:20339521 original size:26 final size:26
Alignment explanation
Indices: 20339452--20339521 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
20339442 TTTGTCGTTG
* *
20339452 AATAATTGACATAAAAATCAACAATTC
1 AATAATTTACAT-ACAATCAACAATTC
* * * *
20339479 AAAAATTTATATGCAATCATCAATTC
1 AATAATTTACATACAATCAACAATTC
20339505 AATAATTTACATACAAT
1 AATAATTTACATACAAT
20339522 AAATTAGTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (26 bp):
AATAATTTACATACAATCAACAATTC
Found at i:20341737 original size:26 final size:25
Alignment explanation
Indices: 20341667--20341737 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
20341657 ATCAATTTTT
*
20341667 TATTTTAATTTAATAATAATATAAAAA
1 TATTATAATTT-ATAA-AATATAAAAA
*
20341694 TATTATAATTTATGAAAATTTAAAAA
1 TATTATAATTTAT-AAAATATAAAAA
20341720 TA-TATAAATTTACTAAAA
1 TATTAT-AATTTA-TAAAA
20341738 AGCATGTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.08
26 23 0.59
27 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (25 bp):
TATTATAATTTATAAAATATAAAAA
Found at i:20344681 original size:38 final size:38
Alignment explanation
Indices: 20344636--20344720 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
20344626 CATCCAACCT
20344636 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
1 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
* *
20344674 TACACTCCATGTGGTGATATAATCAACCCACCCATCTC
1 TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
20344712 TACACTCCA
1 TACACTCCA
20344721 AAAAGTACCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.36, G:0.11, T:0.24
Consensus pattern (38 bp):
TACACTCCATGTGGGGATATAATCAACCCACCCATCCC
Found at i:20346020 original size:38 final size:38
Alignment explanation
Indices: 20345969--20346045 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
20345959 ATATGGACTC
20345969 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
1 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
20346007 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
1 GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
20346045 G
1 G
20346046 AGAAATTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (38 bp):
GTATGAGCATGGGTACTATTCGGCCTAACATGGGTGTT
Found at i:20361236 original size:47 final size:47
Alignment explanation
Indices: 20361158--20361348 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
20361148 CCCTTCGGGA
* * * * * *
20361158 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
20361205 CCTGTCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20361252 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20361299 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20361346 CTT
1 CTT
20361349 CTTTCACATT
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20361358 original size:33 final size:33
Alignment explanation
Indices: 20361316--20361381 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
20361306 CATATATACA
20361316 CTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20361349 CTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
20361382 ATCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:20361365 original size:80 final size:80
Alignment explanation
Indices: 20361269--20361428 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
20361259 CATATATACA
20361269 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20361334 CGGCCATTAGGCCTT
66 CGACCATTAGGCCTT
*
20361349 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20361414 CGACCATTAGGCCTT
66 CGACCATTAGGCCTT
20361429 ATCACATATA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (80 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGACCATTAGGCCTT
Found at i:20361402 original size:47 final size:47
Alignment explanation
Indices: 20361349--20362034 Score: 1176
Period size: 47 Copynumber: 14.4 Consensus size: 47
20361339 ATTAGGCCTT
*
20361349 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20361396 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20361443 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20361490 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20361537 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20361586 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20361635 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20361682 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20361729 CTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20361778 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20361827 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20361874 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
* *
20361923 CTTTCACATTCATCACATCGGCCATTAGTCCTTATCACATATATATA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* * *
20361970 ATTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20362017 -TGTTCACATCCATCACAT
1 CT-TTCACATTCATCACAT
20362035 AGAATCCTAA
Statistics
Matches: 617, Mismatches: 15, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 379 0.61
49 237 0.38
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
Found at i:20361608 original size:96 final size:94
Alignment explanation
Indices: 20361349--20362034 Score: 1176
Period size: 96 Copynumber: 7.2 Consensus size: 94
20361339 ATTAGGCCTT
*
20361349 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20361414 CGACCATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
*
20361443 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20361508 CGGCCATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
20361537 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
20361602 ATCGGCCATTAGGCCTTATCACATATATATACA
64 ATCGGCCATTAGGCCTTATCAC--ATATATACA
20361635 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20361700 CGGCCATTAGGCCTTATCACATATATACA
66 CGGCCATTAGGCCTTATCACATATATACA
*
20361729 CTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
20361794 ATCGGCCATTAGGCCTTATCACATATATATACA
64 ATCGGCCATTAGGCCTTATCAC--ATATATACA
20361827 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20361892 CGGCCATTAGGCCTTATCACATATATATACA
66 CGGCCATTAGGCCTTATCAC--ATATATACA
* * *
20361923 CTTTCACATTCATCACATCGGCCATTAGTCCTTATCACATATATATAATTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
20361988 CGGCCATTAGGCCTTATCTCATATATGCA
66 CGGCCATTAGGCCTTATCACATATATACA
*
20362017 -TGTTCACATCCATCACAT
1 CT-TTCACATTCATCACAT
20362035 AGAATCCTAA
Statistics
Matches: 573, Mismatches: 10, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
93 1 0.00
94 199 0.35
96 280 0.49
98 93 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACA
Found at i:20366004 original size:40 final size:40
Alignment explanation
Indices: 20365972--20366243 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
20365962 CCAGCATGAT
* * * *
20365972 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * * *
20366012 CGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
20366052 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
20366092 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
20366132 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
20366172 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
20366212 TGCTCTTCGAGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
20366244 CTCAATTCTC
Statistics
Matches: 213, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:20367696 original size:47 final size:47
Alignment explanation
Indices: 20367618--20367949 Score: 556
Period size: 47 Copynumber: 7.1 Consensus size: 47
20367608 CCCTTCGGGA
* * * * * *
20367618 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20367665 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20367712 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20367759 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20367806 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20367853 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20367900 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20367947 CTT
1 CTT
20367950 CTTTCACATT
Statistics
Matches: 269, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20367959 original size:33 final size:33
Alignment explanation
Indices: 20367917--20367982 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
20367907 CATATATACA
20367917 CTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20367950 CTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
20367983 ATCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:20368003 original size:47 final size:47
Alignment explanation
Indices: 20367950--20368219 Score: 504
Period size: 47 Copynumber: 5.7 Consensus size: 47
20367940 ATTAGGCCTT
*
20367950 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20367997 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368044 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368091 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20368140 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368187 CTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
20368220 CTTTCACATT
Statistics
Matches: 220, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
47 173 0.79
49 47 0.21
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
Found at i:20368003 original size:80 final size:80
Alignment explanation
Indices: 20367870--20368029 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
20367860 CATATATACA
20367870 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20367935 CGGCCATTAGGCCTT
66 CGGCCATTAGGCCTT
20367950 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20368015 CGGCTATTAGGCCTT
66 CGGCCATTAGGCCTT
20368030 ATCACATATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (80 bp):
CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTT
Found at i:20368111 original size:94 final size:95
Alignment explanation
Indices: 20367950--20368617 Score: 704
Period size: 96 Copynumber: 6.7 Consensus size: 95
20367940 ATTAGGCCTT
*
20367950 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20368015 CGGCTATTAGGCCTTATCAC-ATATATACA
66 CGGCCATTAGGCCTTATCACAATATATACA
20368044 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20368109 CGGCCATTAGGCCTTATCACATATATATACA
66 CGGCCATTAGGCCTTATCACA-ATATATACA
20368140 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* * * *
20368205 CGGCCATTAGGCCTTCTTTCACATTCATCACATCGG
66 CGGCCATTAGGCC-T-TATCACAAT-AT-ATA-C-A
* **** *** * *
20368241 CTATT-AGGCCTT-ATCACATATATACACTTTCACATTCATCACATCGGCTATTA-AGCCTTATC
1 CT-TTCA--CATTCATCACAT-CGGCCA-TTAGGCCTT-ATCACAT---ATA-TACA--CTT-TC
**
20368303 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
53 AC--AT-T-CA---TCACA-TCGGC-CAT-------TAGGCCTTATCACAATATATACA
20368361 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
20368426 ATCGGCCATTAGGCCTTATCAC-ATATATACA
64 ATCGGCCATTAGGCCTTATCACAATATATACA
20368457 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
* *
20368522 CTCGGCCATTAGGCCTTATCAC-ATATATATA
64 ATCGGCCATTAGGCCTTATCACAATATATACA
* * *
20368553 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
20368617 T
65 T
20368618 AGAATCCTAA
Statistics
Matches: 491, Mismatches: 40, Indels: 86
0.80 0.06 0.14
Matches are distributed among these distances:
93 1 0.00
94 105 0.21
96 240 0.49
97 2 0.00
98 8 0.02
99 2 0.00
100 1 0.00
101 3 0.01
102 9 0.02
103 8 0.02
104 8 0.02
105 12 0.02
108 5 0.01
109 3 0.01
110 5 0.01
111 4 0.01
112 4 0.01
113 5 0.01
114 3 0.01
115 5 0.01
116 5 0.01
117 5 0.01
118 12 0.02
119 12 0.02
120 6 0.01
121 1 0.00
122 2 0.00
123 2 0.00
124 1 0.00
125 5 0.01
126 1 0.00
127 6 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACAATATATACA
Found at i:20368228 original size:80 final size:80
Alignment explanation
Indices: 20368140--20368299 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
20368130 TATATATACA
20368140 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20368205 CGGCCATTAGGCCTT
66 CGGCCATTAAGCCTT
*
20368220 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20368285 CGGCTATTAAGCCTT
66 CGGCCATTAAGCCTT
20368300 ATCACATATA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (80 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAAGCCTT
Found at i:20368229 original size:33 final size:33
Alignment explanation
Indices: 20368187--20368252 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
20368177 CATATATACA
20368187 CTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
*
20368220 CTTTCACATTCATCACATCGGCTATTAGGCCTT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTT
20368253 ATCACATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (33 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:20368273 original size:47 final size:47
Alignment explanation
Indices: 20368220--20368617 Score: 672
Period size: 47 Copynumber: 8.4 Consensus size: 47
20368210 ATTAGGCCTT
*
20368220 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
20368267 CTTTCACATTCATCACATCGGCTATTAAGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368314 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368361 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
20368410 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
20368457 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
* *
20368506 CTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATATA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* *
20368553 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
20368600 -TGTTCACATCCATCACAT
1 CT-TTCACATTCATCACAT
20368618 AGAATCCTAA
Statistics
Matches: 336, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 242 0.72
49 93 0.28
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
Found at i:20368286 original size:270 final size:270
Alignment explanation
Indices: 20367682--20368617 Score: 1590
Period size: 270 Copynumber: 3.4 Consensus size: 270
20367672 CATATATACA
20367682 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
20367747 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
* *
20367812 ACATATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCAC--ATATATACACTTTC
131 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
*
20367875 ACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
196 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
20367940 ATTAGGCCTT
261 ATTAGGCCTT
20367950 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20368015 CGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
20368080 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
131 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
20368145 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
196 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
20368210 ATTAGGCCTT
261 ATTAGGCCTT
20368220 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
20368285 CGGCTATTAAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
20368350 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
131 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
20368415 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
196 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
20368480 ATTAGGCCTTATCACATATATAT
261 ATTAGG------C-C-----T-T
* * *
20368503 ACACTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCA
1 ---CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* * *
20368568 CATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
63 CATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
20368618 AGAATCCTAA
Statistics
Matches: 636, Mismatches: 13, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
268 176 0.28
270 353 0.56
276 1 0.00
277 1 0.00
282 1 0.00
283 1 0.00
285 1 0.00
286 102 0.16
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (270 bp):
CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTT
Found at i:20368657 original size:143 final size:138
Alignment explanation
Indices: 20368220--20368638 Score: 515
Period size: 143 Copynumber: 2.9 Consensus size: 138
20368210 ATTAGGCCTT
* *
20368220 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACAT
* * * *
20368285 CGGCTATTAAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-AG--A--A-GCCTAATC
*
20368350 --ACAT-ATATACA
125 AAATATAATATACA
20368361 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCAC
* *
20368426 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
64 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-AG--A--A-GCCTAA
*
20368491 TCACATAT-ATATACA
123 TCAAATATAATATACA
*
20368506 CTTTCACATTCATCACCTCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACAT
* * * *
20368571 CGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACATAGAATCCTAAATCAAAA
66 CGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATAGAAGCCT-AATC-AAA
20368635 TATA
128 TATA
20368639 GATTTTCATG
Statistics
Matches: 257, Mismatches: 13, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
137 3 0.01
138 4 0.02
139 5 0.02
140 1 0.00
141 44 0.17
142 2 0.01
143 143 0.56
145 55 0.21
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (138 bp):
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGAAGCCTAATCAAATAT
AATATACA
Found at i:20392124 original size:23 final size:24
Alignment explanation
Indices: 20392092--20392136 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
20392082 TTGAACTACT
20392092 TTTTATTTTTTTTAGATT-TTAAAA
1 TTTTATTTTTTTTA-ATTATTAAAA
20392116 TTTTA-TTTTTTTAATTATTAA
1 TTTTATTTTTTTTAATTATTAA
20392137 TTTTGGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTATTTTTTTTAATTATTAAAA
Found at i:20396591 original size:29 final size:29
Alignment explanation
Indices: 20396558--20396641 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
20396548 GAAAACCCAT
20396558 TGGAAAAATTGTAAAATATGGAAAAATAG
1 TGGAAAAATTGTAAAATATGGAAAAATAG
** *
20396587 TGGAAAAATTGTAAAACCTGGAAAACTAG
1 TGGAAAAATTGTAAAATATGGAAAAATAG
* * *
20396616 TTGCAAAATTGTAAAATTTGGAAAAA
1 TGGAAAAATTGTAAAATATGGAAAAA
20396642 CTATGGCAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.25
Consensus pattern (29 bp):
TGGAAAAATTGTAAAATATGGAAAAATAG
Found at i:20409808 original size:32 final size:33
Alignment explanation
Indices: 20409772--20409840 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
20409762 AAGAAAGATA
*
20409772 AATTCTAA-TAGAATTTGAAAAGGAGTAGTTTG
1 AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
* * *
20409804 AATTCTAATTAGGATTTTAAAAGGATTAATTTG
1 AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
20409837 AATT
1 AATT
20409841 TCAAATTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (33 bp):
AATTCTAATTAGAATTTGAAAAGGAGTAATTTG
Found at i:20411820 original size:37 final size:40
Alignment explanation
Indices: 20411727--20411865 Score: 119
Period size: 40 Copynumber: 3.5 Consensus size: 40
20411717 GCACACTAGT
*
20411727 TTGGCACCCAGTG-CTTCATCGGATAATTCGAAGTAATAAG
1 TTGGCACCCAGTGTC-TCATCGGATAAATCGAAGTAATAAG
* *
20411767 TTGACACCCAGTGTCTCATCGGCTAAAT-GAAAGT-A-AA-
1 TTGGCACCCAGTGTCTCATCGGATAAATCG-AAGTAATAAG
* * * *
20411804 TTGGCACCCAGTGTCTCATTGAATTAATCCAAAGTAAT-AG
1 TTGGCACCCAGTGTCTCATCGGATAAAT-CGAAGTAATAAG
* *
20411844 ATTGACACCCTGTGTCTCATCG
1 -TTGGCACCCAGTGTCTCATCG
20411866 ACTTGAGGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
37 23 0.29
38 6 0.08
39 4 0.05
40 27 0.34
41 19 0.24
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (40 bp):
TTGGCACCCAGTGTCTCATCGGATAAATCGAAGTAATAAG
Found at i:20412440 original size:28 final size:28
Alignment explanation
Indices: 20412397--20412450 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
20412387 TTACTTAAAT
* *
20412397 CCCTAAATTTCAAAATTTCACCATTTAGG
1 CCCTAAATCTCAAAATTT-ACAATTTAGG
20412426 CCCTAAA-CTCAAAATTTACAATTTA
1 CCCTAAATCTCAAAATTTACAATTTA
20412451 TTCTACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 9 0.39
29 7 0.30
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (28 bp):
CCCTAAATCTCAAAATTTACAATTTAGG
Found at i:20415621 original size:21 final size:21
Alignment explanation
Indices: 20415597--20415646 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
20415587 CTGCTGTATC
20415597 TATTTGACTATTTGAATGAAA
1 TATTTGACTATTTGAATGAAA
* * * *
20415618 TATTTGACTGTTTGATTGTAT
1 TATTTGACTATTTGAATGAAA
20415639 TATTTGAC
1 TATTTGAC
20415647 AGAAAGACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (21 bp):
TATTTGACTATTTGAATGAAA
Found at i:20418354 original size:22 final size:21
Alignment explanation
Indices: 20418324--20418370 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
20418314 TACAAATTAA
20418324 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
20418346 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
20418367 ATCT
1 ATCT
20418371 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:20418364 original size:16 final size:16
Alignment explanation
Indices: 20418343--20418393 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
20418333 ATTACAAGAT
20418343 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
20418359 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
20418378 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
20418394 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:20418376 original size:19 final size:21
Alignment explanation
Indices: 20418341--20418383 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
20418331 AGATTACAAG
20418341 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
20418362 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
20418381 ATC
1 ATC
20418384 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:20419139 original size:206 final size:206
Alignment explanation
Indices: 20418785--20419716 Score: 1418
Period size: 206 Copynumber: 4.5 Consensus size: 206
20418775 ATCTATTTTT
* *
20418785 TGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * * * * *
20418850 ACTATGTCTTCGATTT-TCTCCTTGTAAGCACAAAGATACCTAACCATCTTGGATCTGCTTCAGT
66 GCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAGT
* * * * * *
20418914 CTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCAAACTT
130 ATAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTT
*
20418979 TGATTTGTTCTC
195 CGATTTGTTCTC
* * *
20418991 TGACAATATAGAAATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * * *
20419056 GCTATGTCTTCGATTTGTTCCTTATAAGCACAAGAATTCCAAATCATCTTGGATCTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAGTA
* * ** *
20419121 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCTTTTGAATATGGAGACGCCAAACTTC
131 TAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
*
20419186 GATCTGTTCTC
196 GATTTGTTCTC
* *
20419197 TAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCTTAAGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* *
20419262 ACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAGTCACCTTGGATCTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAGTA
* * *
20419327 TAAACATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTT
131 TAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
20419392 GATTTGTTCTC
196 GATTTGTTCTC
*
20419403 CGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
*
20419468 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTACTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAGTA
* * * * *
20419533 TAAACATATGAAGGCAAGGTCTGTTATGTGTCTGCTCTTCGTCGAATATGGAGACGCCAATCTTC
131 TAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
*
20419598 AATTTGTTCTC
196 GATTTGTTCTC
* * * *
20419609 TGACAATACAGAGATACCAAATCATCTTAGATTTGCTTTAGCGTAAAC-CGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
20419673 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
20419717 ATGCTATCTT
Statistics
Matches: 668, Mismatches: 57, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
205 60 0.09
206 607 0.91
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (206 bp):
TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAGTA
TAAACATATGAAGGCTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
GATTTGTTCTC
Found at i:20419756 original size:44 final size:43
Alignment explanation
Indices: 20419687--20420196 Score: 379
Period size: 44 Copynumber: 11.7 Consensus size: 43
20419677 TGTCTTCGAT
* * * * *
20419687 TTGTTCCTTGTAAGCACAAGGATGCCAAATATGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ** *
20419731 TTATTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGATC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTC-AAC
** * * * * * * * *
20419775 TACTTCACTGTAAGCACAGGAATGTCAGATCTCCTATCTTCGAT
1 TTGTTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
20419819 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
** **
20419863 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTTGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * * * * * *
20419905 TCTGCTTCGCTGTAAGCACAGGAATGTCAGACCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
20419951 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ***
20419995 TTGTTCCCTATAAACAAAGGGATGCC-ATGCTAAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
**
20420038 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
** *
20420081 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
** * * * ** *
20420123 TCTGCTTTGCTGTAAGCACA-GGAGTGTCAGATCTGCTATCTTTTAT
1 T-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTATCTTCAAC
20420169 TTGTTCCCTATAAACACAGGGATGCCAA
1 TTGTTCCCTATAAACACAGGGATGCCAA
20420197 ATCTTGTTTC
Statistics
Matches: 372, Mismatches: 74, Indels: 41
0.76 0.15 0.08
Matches are distributed among these distances:
42 8 0.02
43 118 0.32
44 203 0.55
45 36 0.10
46 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCAAC
Found at i:20419791 original size:88 final size:87
Alignment explanation
Indices: 20419679--20420195 Score: 419
Period size: 88 Copynumber: 5.9 Consensus size: 87
20419669 ATCAGCTATG
* * * * *
20419679 TCTTCGAT-TTGTTCCTTGTAAGCACAAGGATGCCAAATATGCTATCTTCAACTTATTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATA
20419743 AACACAGGGATGCCATGCTGAAA
65 AACACAGGGATGCCATGCTGAAA
** * * * * * * *
20419766 TCTTCGATCTACTTCACTGTAAGCAC-AGGAATGTCAGATCTCCTATCTTCGATTTGTTCCCTAT
1 TCTTCGATCTTGTTCCCTATAAACACAAGG-ATGCCA-ATCTGCTATCTTCAACTTGTTCCCTAT
**
20419830 AAACACAGGGATGCCAAAT-CTGCTA
64 AAACACAGGGATGCC--ATGCTGAAA
* * ** ** * *
20419855 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTTGA-TCTGCTTCGCTG
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAAT-CTGCTATCTTCAACT-TG-TTCCCTA
* * * **
20419917 TAAGCACAGGAATGTCA-GACCTGCTA
63 TAAACACAGGGATGCCATG--CTGAAA
*
20419943 TCTTCGAT-TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATA
* *
20420007 AACAAAGGGATGCCATGCTAAAA
65 AACACAGGGATGCCATGCTGAAA
* * **
20420030 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAAT-CTGCTATCTTCAACTTGTTCCCTATA
20420093 AACACAGGGATGCCATGCTGAAA
65 AACACAGGGATGCCATGCTGAAA
** * * * ** *
20420116 TCTTCGATC-TGCTTTGCTGTAAGCAC-AGGAGTGTCAGATCTGCTATCTTTTATTTGTTCCCTA
1 TCTTCGATCTTG-TTCCCTATAAACACAAGGA-TGCCA-ATCTGCTATCTTCAACTTGTTCCCTA
20420179 TAAACACAGGGATGCCA
63 TAAACACAGGGATGCCA
20420196 AATCTTGTTT
Statistics
Matches: 346, Mismatches: 60, Indels: 47
0.76 0.13 0.10
Matches are distributed among these distances:
85 2 0.01
86 60 0.17
87 72 0.21
88 181 0.52
89 26 0.08
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (87 bp):
TCTTCGATCTTGTTCCCTATAAACACAAGGATGCCAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAA
Found at i:20419918 original size:132 final size:132
Alignment explanation
Indices: 20419679--20420034 Score: 595
Period size: 132 Copynumber: 2.7 Consensus size: 132
20419669 ATCAGCTATG
* * * * * *
20419679 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATATGCTATCTTCAACTTATTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
20419744 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTCC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
20419809 TA
131 TA
20419811 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * *
20419876 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGACCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
20419941 TA
131 TA
20419943 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* *
20420008 ACAAAGGGATGCCATGCTAAAATCTTC
66 ACACAGGGATGCCATGCTGAAATCTTC
20420035 AACTTGTTCC
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 210 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGACCTCC
TA
Found at i:20421064 original size:7 final size:7
Alignment explanation
Indices: 20421048--20421114 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
20421038 GGCCTCTCCA
*
20421048 TTTTTAT
1 TTTTTCT
20421055 TTTTTCTT
1 TTTTTC-T
20421063 TTTTATCT
1 TTTT-TCT
*
20421071 TTTATCT
1 TTTTTCT
*
20421078 TTTTATTT
1 TTTT-TCT
20421086 TTTTCTCTTT
1 TTTT-TC--T
20421096 TTTTTCT
1 TTTTTCT
20421103 TTTTTCT
1 TTTTTCT
20421110 TTTTT
1 TTTTT
20421115 TTTGAAATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
7 24 0.49
8 16 0.33
9 4 0.08
10 5 0.10
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:20421071 original size:9 final size:9
Alignment explanation
Indices: 20421054--20421107 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
20421044 TCCATTTTTA
20421054 TTTTT-TCT
1 TTTTTATCT
20421062 TTTTTATC-
1 TTTTTATCT
20421070 -TTTTATC-
1 TTTTTATCT
20421077 TTTTTAT-T
1 TTTTTATCT
*
20421085 TTTTTCTCT
1 TTTTTATCT
*
20421094 TTTTTTTCT
1 TTTTTATCT
20421103 TTTTT
1 TTTTT
20421108 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 7 0.17
8 17 0.43
9 16 0.40
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTATCT
Found at i:20421099 original size:11 final size:10
Alignment explanation
Indices: 20421054--20421117 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
20421044 TCCATTTTTA
20421054 TTTTTTC-TT
1 TTTTTTCTTT
*
20421063 TTTTATCTTT
1 TTTTTTCTTT
*
20421073 TATCTTTT-TAT
1 T-T-TTTTCTTT
20421084 TTTTTTCTCTT
1 TTTTTTCT-TT
20421095 TTTTTTCTTT
1 TTTTTTCTTT
20421105 TTTCTTT-TTT
1 TTT-TTTCTTT
20421115 TTT
1 TTT
20421118 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
9 10 0.22
10 16 0.36
11 16 0.36
12 3 0.07
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:20421104 original size:32 final size:30
Alignment explanation
Indices: 20421048--20421117 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 30
20421038 GGCCTCTCCA
*
20421048 TTTTTATTTTTTCTTTTTTATCTTTTATCT
1 TTTTTTTTTTTTCTTTTTTATCTTTTATCT
* *
20421078 TTTTATTTTTTTCTCTTTTTTTTCTTTTTTCT
1 TTTT-TTTTTTT-TCTTTTTTATCTTTTATCT
20421110 TTTTTTTT
1 TTTTTTTT
20421118 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 4 0.11
31 10 0.29
32 21 0.60
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTTTTTTTTTTCTTTTTTATCTTTTATCT
Found at i:20421115 original size:16 final size:16
Alignment explanation
Indices: 20421048--20421116 Score: 86
Period size: 16 Copynumber: 4.3 Consensus size: 16
20421038 GGCCTCTCCA
*
20421048 TTTTTATTTTTTCTTT
1 TTTTTCTTTTTTCTTT
* *
20421064 TTTATCTTTTATCTTT
1 TTTTTCTTTTTTCTTT
*
20421080 TTATTT-TTTTCTCTTT
1 TT-TTTCTTTTTTCTTT
20421096 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
20421112 TTTTT
1 TTTTT
20421117 TGAAATAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 3 0.07
16 40 0.89
17 2 0.04
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:20426689 original size:22 final size:21
Alignment explanation
Indices: 20426654--20426697 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
20426644 AAAGGATATC
20426654 TACAAATCAAATCTCCAAGAT
1 TACAAATCAAATCTCCAAGAT
* *
20426675 TACAAGATCATATCTTCAAGAT
1 TACAA-ATCAAATCTCCAAGAT
20426697 T
1 T
20426698 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (21 bp):
TACAAATCAAATCTCCAAGAT
Found at i:20426716 original size:19 final size:19
Alignment explanation
Indices: 20426681--20426778 Score: 128
Period size: 19 Copynumber: 5.2 Consensus size: 19
20426671 AGATTACAAG
20426681 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
20426702 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
20426721 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
* *
20426738 ATTATATCCAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
20426757 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
20426776 ATC
1 ATC
20426779 CTTAAAGATT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
17 15 0.22
19 45 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:20426788 original size:36 final size:36
Alignment explanation
Indices: 20426667--20426771 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 36
20426657 AAATCAAATC
* *
20426667 TCCAAGATTACAAGATCATATCTTCAAGATTGCATATCATA
1 TCCAAGATTGC-ATATCATATC-T-AAGATTG--TATCATA
** *
20426708 TTTAAGATTGCATATCATATCTAAGATTGTATTATA
1 TCCAAGATTGCATATCATATCTAAGATTGTATCATA
20426744 TCCAAGATTGCATATCATATCTAAGATT
1 TCCAAGATTGCATATCATATCTAAGATT
20426772 ACATATCCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
36 32 0.56
38 7 0.12
39 1 0.02
40 9 0.16
41 8 0.14
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (36 bp):
TCCAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:20427169 original size:34 final size:35
Alignment explanation
Indices: 20427103--20427171 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
20427093 ATAGTTTAGA
*
20427103 AATTTCAATTCATTCACATATTATAAACAATCAAG
1 AATTTCAATTCATTCACATACTATAAACAATCAAG
*
20427138 AATTTCAATTCATTCATA-ACCT-TAAACAATCAAG
1 AATTTCAATTCATTCACATA-CTATAAACAATCAAG
20427172 TAAGTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (35 bp):
AATTTCAATTCATTCACATACTATAAACAATCAAG
Found at i:20430674 original size:29 final size:28
Alignment explanation
Indices: 20430633--20430699 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
20430623 TTTTTTAAAG
*
20430633 AATAGTGGTAAAACTGTAAAATTTGGAA
1 AATAGTGGCAAAACTGTAAAATTTGGAA
*
20430661 GATCAGTGGCAAAACTGTAAAATTTGGAA
1 AAT-AGTGGCAAAACTGTAAAATTTGGAA
20430690 AATAGTGGCA
1 AATAGTGGCA
20430700 GGACTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 26 0.74
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.25
Consensus pattern (28 bp):
AATAGTGGCAAAACTGTAAAATTTGGAA
Found at i:20430709 original size:28 final size:29
Alignment explanation
Indices: 20430636--20430712 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
20430626 TTTAAAGAAT
* * *
20430636 AGTGGTAAAACTGTAAAATTTGGAAGATC
1 AGTGGCAAAACTATAAAATTTGGAAAATC
*
20430665 AGTGGCAAAACTGTAAAATTTGGAAAAT-
1 AGTGGCAAAACTATAAAATTTGGAAAATC
**
20430693 AGTGGCAGGACTATAAAATT
1 AGTGGCAAAACTATAAAATT
20430713 GTTAAAACGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 17 0.40
29 26 0.60
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (29 bp):
AGTGGCAAAACTATAAAATTTGGAAAATC
Found at i:20430966 original size:33 final size:32
Alignment explanation
Indices: 20430912--20430980 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
20430902 AAGAAAGATA
20430912 AATTCTATTAGAATTTGAAAAGGAGTAATTTG
1 AATTCTATTAGAATTTGAAAAGGAGTAATTTG
* * * *
20430944 AATTCTAATTAGGATTTTAAAAGGATTAATTTT
1 AATTCT-ATTAGAATTTGAAAAGGAGTAATTTG
20430977 AATT
1 AATT
20430981 TCAAGTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (32 bp):
AATTCTATTAGAATTTGAAAAGGAGTAATTTG
Found at i:20433157 original size:27 final size:28
Alignment explanation
Indices: 20433127--20433180 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
20433117 GCTTGATGTG
20433127 GTAAAACCACCAAATAA-AAATAATGCA
1 GTAAAACCACCAAATAATAAATAATGCA
** *
20433154 GTAAAACTGCCGAATAATAAATAATGC
1 GTAAAACCACCAAATAATAAATAATGC
20433181 GATATAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.19
Consensus pattern (28 bp):
GTAAAACCACCAAATAATAAATAATGCA
Found at i:20440028 original size:49 final size:47
Alignment explanation
Indices: 20439931--20440194 Score: 182
Period size: 49 Copynumber: 5.5 Consensus size: 47
20439921 GATGCCGACA
* * * * * * **
20439931 CCATGTTCCAAACATGGTCTTACACTGGCTCTTACATCTAAGTTGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTCATACATCGAGGCCGATG
*
20439979 CCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGAC-T-CATACATCGAGGCCGATG
* * ** * *
20440028 CCATGTCCCAGATAGGTCTTACACT-A-ACACGCCTC-AAGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTCATACATCGAGGCCGATG
* *
20440072 CCATGTCCCAGACAGGTCTTACTCT-AGCTTGCATATC-TTGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-C-T-CATA-CATCGAGGCCGATG
* * * *
20440121 TCGTGTCCTC-GACAGGTCTTACACTGGCTCTTATCTATCG-GTGCCGATG
1 CCATGTCC-CAGACAGGTCTTACACTGACTCATA-C-ATCGAG-GCCGATG
*
20440170 CCATGTCCCAGACAGGTTTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
20440195 AACACACACA
Statistics
Matches: 172, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
44 31 0.18
45 5 0.03
47 18 0.10
48 20 0.12
49 97 0.56
50 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCATACATCGAGGCCGATG
Found at i:20440115 original size:93 final size:93
Alignment explanation
Indices: 20439975--20440145 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 93
20439965 CATCTAAGTT
*
20439975 GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCTGATGCCATGTCC-CAG
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCTC-G
*
20440039 ATAGGTCTTACACTAACACGCCTCAAGCC
65 ACAGGTCTTACACTAACACGCCTCAAGCC
* * * * *
20440068 GATGCCATGTCCCAGACAGGTCTTACTCT-AGCTTGCATATC-TTGAGGCCGATGTCGTGTCCTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CATCGAGGCCGATGCCATGTCCTC
20440131 GACAGGTCTTACACT
64 GACAGGTCTTACACT
20440146 GGCTCTTATC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 1 0.01
93 65 0.96
94 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCTCGA
CAGGTCTTACACTAACACGCCTCAAGCC
Found at i:20459264 original size:20 final size:21
Alignment explanation
Indices: 20459209--20459267 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
20459199 ATTCGACATT
20459209 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATATATAA
* * *
20459230 TGT-TTTGATATGATAT-TTA
1 TGTATATGATAAGATATATAA
20459249 TGTATATGATAAGATATAT
1 TGTATATGATAAGATATAT
20459268 TTGTAATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTATATGATAAGATATATAA
Found at i:20459272 original size:20 final size:20
Alignment explanation
Indices: 20459206--20459272 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
20459196 ATGATTCGAC
20459206 ATTTGTATATGTATAAG-TAT
1 ATTTGTATATG-ATAAGATAT
* * *
20459226 ATAATGT-TTTGATATGATAT
1 AT-TTGTATATGATAAGATAT
20459246 -TTATGTATATGATAAGATAT
1 ATT-TGTATATGATAAGATAT
20459266 ATTTGTA
1 ATTTGTA
20459273 ATGTATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 8 0.22
20 23 0.64
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATTTGTATATGATAAGATAT
Found at i:20461771 original size:21 final size:21
Alignment explanation
Indices: 20461745--20461827 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 21
20461735 TAGGTGGATA
*
20461745 AACTCTTACAAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
20461766 AACTCTTACGAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
*
20461787 AACTCTTACGAGCTTTTGTTC
1 AACTCTTACGAGCTTCTGTTC
** **
20461808 CGCTCTTTTGAGCTTCTGTT
1 AACTCTTACGAGCTTCTGTT
20461828 GATGTGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTC
Found at i:20463703 original size:12 final size:12
Alignment explanation
Indices: 20463686--20463718 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
20463676 CTAAGACACA
20463686 TGCCCGTGTCTT
1 TGCCCGTGTCTT
20463698 TGCCCGTGTCTT
1 TGCCCGTGTCTT
20463710 TGCCCGTGT
1 TGCCCGTGT
20463719 TTGAGCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.27, T:0.39
Consensus pattern (12 bp):
TGCCCGTGTCTT
Found at i:20468051 original size:46 final size:48
Alignment explanation
Indices: 20467790--20468114 Score: 203
Period size: 46 Copynumber: 6.9 Consensus size: 48
20467780 AAGGTGTAAT
* *
20467790 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATCCATCAA-
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCAT-C-TCAAG
* * * * * * * ** *
20467837 GTCGATGCCATGTCCTAGACATGGACTTATACTAACTATCAAAATCGAG
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTC-ATCTCAAG
* * * * *
20467886 GCAGACGCTATGTCCCAGACA-TGATCTTACACTAGCTCTCACATATC-CG
1 GCCGATGCCATGTCCCAGACATTG-TCTTACACTAGCTCT--CATCTCAAG
* * * *
20467935 TCCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC--G
1 -GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATCTCAAG
* *
20467980 TACCTGATG-CATG-CCCAGACA-TGTCTTACACTAGCT-TACATCTCGAG
1 -GCC-GATGCCATGTCCCAGACATTGTCTTACACTAGCTCT-CATCTCAAG
* *
20468027 GCCGAT-CCATGTCCCAGA-TTTGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATCTCAAG
* * *
20468073 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCAT
20468115 AATGTGGCTG
Statistics
Matches: 215, Mismatches: 42, Indels: 41
0.72 0.14 0.14
Matches are distributed among these distances:
43 10 0.05
44 9 0.04
45 21 0.10
46 44 0.20
47 43 0.20
48 24 0.11
49 31 0.14
50 31 0.14
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATCTCAAG
Found at i:20468132 original size:47 final size:47
Alignment explanation
Indices: 20467793--20468134 Score: 194
Period size: 47 Copynumber: 7.3 Consensus size: 47
20467783 GTGTAATGCC
*
20467793 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT-C-
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CAT-AATGTGCT
* * * * * * * *
20467840 GATGCCATGTCCTAGACATGGACTTATACTAACTATCAAAATCGAGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-G-TGCT
* * * * * *
20467889 GACGCTATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCGTCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT--GTGCT
* * * *
20467939 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTACCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GT-GCT
* * *
20467985 GATG-CATG-CCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-G-TGCT
* *
20468030 GAT-CCATGTCCCAGA-TTTGTCTTACACTAGCTCTCATCTCAA--TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATGTGCT
*
20468076 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT-GCT
20468124 GATG-CATGTCC
1 GATGCCATGTCC
20468135 ACTAGCACAC
Statistics
Matches: 230, Mismatches: 40, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
43 10 0.04
44 12 0.05
45 27 0.12
46 37 0.16
47 50 0.22
48 30 0.13
49 32 0.14
50 30 0.13
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGCT
Found at i:20477968 original size:20 final size:22
Alignment explanation
Indices: 20477930--20477970 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
20477920 TTCAATAAAT
*
20477930 AAAAATAAAATTATTAATATTA
1 AAAAATAAAATTATAAATATTA
20477952 AAAAAT-AAA-TATAAATATT
1 AAAAATAAAATTATAAATATT
20477971 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAAAATTATAAATATTA
Found at i:20479177 original size:23 final size:24
Alignment explanation
Indices: 20479143--20479191 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
20479133 TAATAAATTT
*
20479143 TACACAAAATGAAAAACGACAAAG
1 TACACAAAATGAAAAACAACAAAG
20479167 TACA-AAAATGAAAAACAACAAAG
1 TACACAAAATGAAAAACAACAAAG
20479190 TA
1 TA
20479192 AATGATGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.65, C:0.14, G:0.10, T:0.10
Consensus pattern (24 bp):
TACACAAAATGAAAAACAACAAAG
Found at i:20487715 original size:39 final size:39
Alignment explanation
Indices: 20487661--20487740 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
20487651 TTTACAAATT
*
20487661 TTGGTAGACTTGTAGATATTTTGCCAAAATAGCAGATTC
1 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
20487700 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
1 TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
20487739 TT
1 TT
20487741 ACCCTGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (39 bp):
TTGGTAGACTTGTAGACATTTTGCCAAAATAGCAGATTC
Found at i:20506740 original size:39 final size:40
Alignment explanation
Indices: 20506639--20506862 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
20506629 TTGAATGATG
* *
20506639 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20506678 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
20506719 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
20506758 TCTGGGCTAAG-CCCGAAGGAATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20506797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20506836 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20506863 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 70 0.44
40 77 0.48
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20506884 original size:79 final size:79
Alignment explanation
Indices: 20506639--20506895 Score: 197
Period size: 79 Copynumber: 3.3 Consensus size: 79
20506629 TTGAATGATG
* * * * *
20506639 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAATA-CCGGGCTAAG-CCCGAAGGAA
** *
20506701 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
20506719 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAATTCTGGGCTAAGCCCGAAGGAATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGAATTTG
** *
20506783 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* * * *
20506797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGAATT
*
20506861 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
20506877 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20506896 TACGTGATTT
Statistics
Matches: 149, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.23
79 68 0.46
80 45 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGAATTTG
AACGAGTGACTAAA
Found at i:20513989 original size:39 final size:40
Alignment explanation
Indices: 20513888--20514111 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
20513878 TTGAATGATG
* *
20513888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20513927 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
20513968 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20514007 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACGAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20514046 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20514085 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20514112 AATGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 74 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20514063 original size:79 final size:80
Alignment explanation
Indices: 20513888--20514111 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 80
20513878 TTGAATGATG
* * * *
20513888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
* *
20513951 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACGAAA
20513968 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
20514030 TGTGCGAGTTACGAAA
65 TGTGCGAGATACGAAA
* * * * *
20514046 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
20514111 G
66 G
20514112 AATGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 35 0.28
79 56 0.44
80 35 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACGAAA
Found at i:20514134 original size:79 final size:78
Alignment explanation
Indices: 20513941--20514113 Score: 197
Period size: 78 Copynumber: 2.2 Consensus size: 78
20513931 GGACTAAGAT
** * * *
20513941 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACGAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTA
*
20514005 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** * *
20514019 CCGAAGGCATTTGTGCGAGTTACGAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACGAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATACTA
*
20514083 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
20514099 CCGAAGGCATTTGAA
1 CCGAAGGCATTTGAA
20514114 TGAGGAGCTA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 35 0.42
79 33 0.40
80 14 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACGAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:20514958 original size:42 final size:42
Alignment explanation
Indices: 20514899--20514983 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
20514889 TAAATAGTGA
20514899 ATAAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGG
1 ATAAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGG
20514941 ATAAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGG
1 ATAAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGG
20514983 A
1 A
20514984 AGGTAACGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (42 bp):
ATAAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGG
Found at i:20517647 original size:28 final size:30
Alignment explanation
Indices: 20517595--20517655 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
20517585 ATTTATTTTG
* *
20517595 CAATTTAACCCCTCAATTTACATTTTT-CT
1 CAATTTAAACCCTCAATATACATTTTTACT
*
20517624 CAATTTAAACCCT-AATATGCATTTTTACT
1 CAATTTAAACCCTCAATATACATTTTTACT
20517653 CAA
1 CAA
20517656 AATCACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (30 bp):
CAATTTAAACCCTCAATATACATTTTTACT
Found at i:20527627 original size:39 final size:39
Alignment explanation
Indices: 20527583--20527660 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
20527573 AACTCTGTGA
20527583 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
1 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
*
20527622 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGGAGAC
1 TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
20527661 ACCTAGGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (39 bp):
TATTTTGAATCAAAGGTGATTACTTAAATGAGGGAAGAC
Found at i:20544194 original size:47 final size:47
Alignment explanation
Indices: 20544140--20544333 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
20544130 TTAGGATTTT
** * *
20544140 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
*
20544187 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
* * *
20544234 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
* * * ***
20544281 ATGTGGTGAATATGAACATGCATATATGTGGTAAAATCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
20544328 ATGTGA
1 ATGTGA
20544334 AATATGTATG
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
Found at i:20544241 original size:94 final size:93
Alignment explanation
Indices: 20544140--20544378 Score: 275
Period size: 94 Copynumber: 2.5 Consensus size: 93
20544130 TTAGGATTTT
* *
20544140 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCTAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATATGTATATATG-GATAAGGCCGAATGGCTAATGTGATGAATATGAACA
**
20544205 TGCATATATGTGATAAGGCCGAATGGCCA
65 TGCATATATGTGATAAAACCGAATGGCCA
** * * * *
20544234 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAATGTGAATATGTATATATG-GATAAGGCCGAATGGCTAATGTGATGAATATGAACA
* * *
20544299 TGCATATATGTGGTAAAATCGAATGGCTA
65 TGCATATATGTGATAAAACCGAATGGCCA
* *
20544328 ATGTGA-AATATGTATGAGATATGTATATATGG-TAAAGCCGAATGGCTAATG
1 ATGTGATGA-ATG--TGA-ATATGTATATATGGATAAGGCCGAATGGCTAATG
20544379 CGAAACATGT
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 89 0.74
95 17 0.14
96 4 0.03
97 9 0.08
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (93 bp):
ATGTGATGAATGTGAATATGTATATATGGATAAGGCCGAATGGCTAATGTGATGAATATGAACAT
GCATATATGTGATAAAACCGAATGGCCA
Found at i:20544289 original size:25 final size:25
Alignment explanation
Indices: 20544214--20544289 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
20544204 ATGCATATAT
20544214 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
20544239 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
20544261 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
20544286 GTGA
1 GTGA
20544290 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:20544467 original size:98 final size:96
Alignment explanation
Indices: 20544304--20544487 Score: 271
Period size: 98 Copynumber: 1.9 Consensus size: 96
20544294 GAACATGCAT
* *
20544304 ATATGTGGTAAAATCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAAAGCCGA
1 ATATGTGGTAAAACCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAAAGCCGA
20544369 ATGGCTAATGCGAAACATGTATGAGATATGC
66 ATGGCTAATGCGAAACATGTATGAGATATGC
* *
20544400 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAACCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATATGGTAAAGC
* * *
20544464 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGCGAAACATGTA
20544488 GGCGATGTGC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.32
97 2 0.03
98 50 0.64
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAACCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAAAGCCGA
ATGGCTAATGCGAAACATGTATGAGATATGC
Found at i:20544503 original size:50 final size:48
Alignment explanation
Indices: 20544303--20544487 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
20544293 TGAACATGCA
**
20544303 TATATGTGGTAAAATCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
20544351 TATATATGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
20544399 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
20544449 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
20544488 GGCGATGTGC
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 74 0.62
49 4 0.03
50 40 0.33
51 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:20544741 original size:37 final size:37
Alignment explanation
Indices: 20544633--20544741 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
20544623 GGAAATATAT
*
20544633 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
20544670 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
20544707 TCCGGATAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
20544742 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Done.