Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 203 of 279
Found at i:66343953 original size:68 final size:67
Alignment explanation
Indices: 66343844--66343986 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 67
66343834 TGGAAAATGT
* * * ** *
66343844 CATGCTTATAGCAGATCAATATGATAGCAATATTCATGCTTACAAC-AGATCAATACAGTAGCAA
1 CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAAT-AATACAGTAGCAA
66343908 TAGG
65 -AGG
* * *
66343912 CATGCTTATAACATATCAATATAATAACAATAGACATGCTTATAACAAAATAGTACAGTAGCAAA
1 CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA
*
66343977 GT
66 GG
66343979 CATGCTTA
1 CATGCTTA
66343987 ACATGTATTC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
67 10 0.16
68 51 0.80
69 3 0.05
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (67 bp):
CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA
GG
Found at i:66346483 original size:19 final size:20
Alignment explanation
Indices: 66346461--66346500 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66346451 TAAATTAACC
66346461 AATAT-TTTATAAAAATTAA
1 AATATATTTATAAAAATTAA
* *
66346480 AATATATTTGTAATAATTAA
1 AATATATTTATAAAAATTAA
66346500 A
1 A
66346501 TTTTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AATATATTTATAAAAATTAA
Found at i:66357872 original size:25 final size:27
Alignment explanation
Indices: 66357844--66357893 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
66357834 AGATCAATAA
66357844 ACAAATAATTAAA-TAAAA-TCTAACC
1 ACAAATAATTAAATTAAAAGTCTAACC
66357869 ACAAATAATTAAATTAAAAGTCTAA
1 ACAAATAATTAAATTAAAAGTCTAA
66357894 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.57
26 5 0.22
27 5 0.22
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (27 bp):
ACAAATAATTAAATTAAAAGTCTAACC
Found at i:66358338 original size:12 final size:11
Alignment explanation
Indices: 66358310--66358359 Score: 52
Period size: 10 Copynumber: 4.5 Consensus size: 11
66358300 GTTCCTATAT
66358310 TTAATTTAATT-
1 TTAA-TTAATTA
66358321 TTAATTAATTAA
1 TTAATTAATT-A
66358333 TTAATTAATTA
1 TTAATTAATTA
66358344 TTAA--AATATA
1 TTAATTAAT-TA
66358354 TTAATT
1 TTAATT
66358360 TACATTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.09
10 12 0.35
11 9 0.26
12 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:66358797 original size:22 final size:22
Alignment explanation
Indices: 66358772--66358813 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66358762 TTAAAAGATA
66358772 TTTTA-ATAATTAAATTTAATGT
1 TTTTACAT-ATTAAATTTAATGT
*
66358794 TTTTACATTTTAAATTTAAT
1 TTTTACATATTAAATTTAAT
66358814 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTACATATTAAATTTAATGT
Found at i:66360943 original size:31 final size:32
Alignment explanation
Indices: 66360881--66360943 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
66360871 AACTTAATTA
* ** *
66360881 CCATATGGCACATTAGTGATTGGTTTGATGTG
1 CCATATGGCACAATAGTGATTGGCGTCATGTG
*
66360913 CCATGTGGCACAATA-TGATTGGCGTCATGTG
1 CCATATGGCACAATAGTGATTGGCGTCATGTG
66360944 ACAACTGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (32 bp):
CCATATGGCACAATAGTGATTGGCGTCATGTG
Found at i:66361383 original size:55 final size:56
Alignment explanation
Indices: 66361314--66361449 Score: 152
Period size: 59 Copynumber: 2.4 Consensus size: 56
66361304 TATATTAGTA
* * * * * *
66361314 GTCACCTAATTATTAGTAATTTTTTTGGTCACTCAATTATAAAAA-TTATAAAATT
1 GTCACTTAACTATTAGTAATTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG
66361369 GTCACTTAACTATTAGTAAATTTTTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG
1 GTCACTTAACTATTAGT-AA---TTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG
*
66361429 GTCATTTAACTATT--TAATTTT
1 GTCACTTAACTATTAGTAATTTT
66361450 GTCTTTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
54 4 0.06
55 15 0.22
56 2 0.03
57 2 0.03
58 1 0.01
59 24 0.35
60 21 0.30
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.43
Consensus pattern (56 bp):
GTCACTTAACTATTAGTAATTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG
Found at i:66361458 original size:60 final size:58
Alignment explanation
Indices: 66361333--66361449 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 58
66361323 TTATTAGTAA
* * * *
66361333 TTTTTTTGGTCACTCAATTATAAAAATTATAAAATTGTCACTTAACTATTAGTAAATTT
1 TTTTTTTGGTCACCCAACTATAAAAATTACAAAATGGTCACTTAACTATTA-TAAATTT
*
66361392 TTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATGGTCATTTAACTATT-T-AATTT
1 TTTTTTTGGTCACCCAACTATAAAAA-TTACAAAATGGTCACTTAACTATTATAAATTT
66361449 T
1 T
66361450 GTCTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 6 0.12
58 1 0.02
59 24 0.46
60 21 0.40
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (58 bp):
TTTTTTTGGTCACCCAACTATAAAAATTACAAAATGGTCACTTAACTATTATAAATTT
Found at i:66361968 original size:56 final size:56
Alignment explanation
Indices: 66361885--66361991 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 56
66361875 GACAAAATTG
* * *
66361885 AATAGTTAGGTGTCTATTTTGTCACTTTTTATAGATAAG-TGACAAAAAAAAATATT
1 AATAGTTAGGTGTCTATTTTATAACTTTTAATAG-TAAGATGACAAAAAAAAATATT
* * *
66361941 AATAGTTGGGTGATC-ATTTTATAACTTTTAATAGTTAGATGATAAAAAAAA
1 AATAGTTAGGTG-TCTATTTTATAACTTTTAATAGTAAGATGACAAAAAAAA
66361992 GAAATTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
55 3 0.07
56 38 0.88
57 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (56 bp):
AATAGTTAGGTGTCTATTTTATAACTTTTAATAGTAAGATGACAAAAAAAAATATT
Found at i:66368484 original size:22 final size:23
Alignment explanation
Indices: 66368459--66368510 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
66368449 TGTAGAACTC
66368459 AATAGAA-GTGGTTAAATGTA-AA
1 AATAGAATGTGGTT-AATGTACAA
*
66368481 AATA-AATGTTGTTAATGTACAA
1 AATAGAATGTGGTTAATGTACAA
66368503 AATTAGAA
1 AA-TAGAA
66368511 CTGAGAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 8 0.32
22 13 0.52
23 2 0.08
24 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (23 bp):
AATAGAATGTGGTTAATGTACAA
Found at i:66369490 original size:30 final size:30
Alignment explanation
Indices: 66369456--66369516 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
66369446 AAGAATAGTG
66369456 TGTATTTGCTATTAAGCGGTATAGCATGAA
1 TGTATTTGCTATTAAGCGGTATAGCATGAA
66369486 TGTATTTGCTATTAAGCGGTATAGCATGAA
1 TGTATTTGCTATTAAGCGGTATAGCATGAA
66369516 T
1 T
66369517 ATATCAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (30 bp):
TGTATTTGCTATTAAGCGGTATAGCATGAA
Found at i:66369732 original size:35 final size:35
Alignment explanation
Indices: 66369686--66369755 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
66369676 TCAATACGTA
*
66369686 TGACTGAAGACCATGGAAACCTTGATTCTAAAACT
1 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT
66369721 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT
1 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT
66369756 ATCTGTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (35 bp):
TGACTGAAGACCATGAAAACCTTGATTCTAAAACT
Found at i:66371005 original size:86 final size:85
Alignment explanation
Indices: 66370859--66371027 Score: 329
Period size: 86 Copynumber: 2.0 Consensus size: 85
66370849 GGGATGCAAT
66370859 GGTTGCAAACCGTCGGATGGCGAGGTCGATGAATGTAGAAATATATTCACGATGCCATGAAACAT
1 GGTTGCAAACCGTCGGATGGCGAGGTCGATGAATGTAGAAATATATTCACGATGCCATGAAACAT
66370924 TTCGTGTTACAGAGACCATC
66 TTCGTGTTACAGAGACCATC
66370944 GNGTTGCAAACCGTCGGATGGCGAGGTCGATGAATGTAGAAATATATTCACGATGCCATGAAACA
1 G-GTTGCAAACCGTCGGATGGCGAGGTCGATGAATGTAGAAATATATTCACGATGCCATGAAACA
66371009 TTTCGTGTTACAGAGACCA
65 TTTCGTGTTACAGAGACCA
66371028 CGATCGTCGA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 1 0.01
86 82 0.99
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (85 bp):
GGTTGCAAACCGTCGGATGGCGAGGTCGATGAATGTAGAAATATATTCACGATGCCATGAAACAT
TTCGTGTTACAGAGACCATC
Found at i:66374240 original size:146 final size:145
Alignment explanation
Indices: 66374088--66374525 Score: 675
Period size: 146 Copynumber: 3.0 Consensus size: 145
66374078 TATTTTGGTA
*
66374088 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTATATTATT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATT
* *
66374153 TTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAAATCCGA
66 TTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAATCTGA
66374218 TTTTGACCGTTTGTTT
131 TTTTGACCGTTT-TTT
* * *
66374234 TTTATTTTATTCTT-GGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTA
1 TTTATTTTATT-TTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTA
* * *
66374298 TTTTAGTACATAATGTTCCAAATATATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAATTCT
64 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAATCT
*
66374362 GATTTTGGCCGTTTATTT
129 GATTTTGACCGTTT-TTT
* *
66374380 TTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTTTATTATT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATT
* * *
66374445 TTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCTG
66 TTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAA-TCTG
66374510 ATTTTGACC-TTTTTT
130 ATTTTGACCGTTTTTT
66374525 T
1 T
66374526 ATTTTCGAAT
Statistics
Matches: 264, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
145 48 0.18
146 158 0.60
147 58 0.22
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (145 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATATTATT
TTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAAATCTGA
TTTTGACCGTTTTTT
Found at i:66375033 original size:12 final size:12
Alignment explanation
Indices: 66375018--66375051 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
66375008 CTTCTTCTCC
66375018 TTCTCTTTTTCT
1 TTCTCTTTTTCT
66375030 TTCTCTTTTTCT
1 TTCTCTTTTTCT
*
66375042 TTTTCTTTTT
1 TTCTCTTTTT
66375052 TCTTCCCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:66375033 original size:18 final size:18
Alignment explanation
Indices: 66375012--66375049 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
66375002 CTTCTTCTTC
66375012 TTCTCCTTCTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
* *
66375030 TTCTCTTTTTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
66375048 TT
1 TT
66375050 TTTCTTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTCCTTCTCTTTTTCT
Found at i:66375289 original size:27 final size:27
Alignment explanation
Indices: 66375251--66375303 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
66375241 AGGAGTCAGC
66375251 GGTGCCGCCTGTGGGGTACCCTCCACT
1 GGTGCCGCCTGTGGGGTACCCTCCACT
66375278 GGTGCCGCCTGTGGGGTACCCTCCAC
1 GGTGCCGCCTGTGGGGTACCCTCCAC
66375304 CCATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.08, C:0.38, G:0.34, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTGTGGGGTACCCTCCACT
Found at i:66375637 original size:39 final size:37
Alignment explanation
Indices: 66375578--66375651 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
66375568 AAAGTATCAA
*
66375578 AAAAATATAAAAACTATTTTAATAATTATAATTTATT
1 AAAAATATAAAAAATATTTTAATAATTATAATTTATT
* *
66375615 AAAAATATAAAAAAATATTTTTAATATTTTTAATTTA
1 AAAAATAT-AAAAAATA-TTTTAATAATTATAATTTA
66375652 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 8 0.25
38 7 0.22
39 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
AAAAATATAAAAAATATTTTAATAATTATAATTTATT
Found at i:66376560 original size:44 final size:44
Alignment explanation
Indices: 66376485--66376568 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
66376475 TATCTCCCAG
* * * * *
66376485 CAATGTAATATCTTTATATCTGATTCGATCCTCTGAACTCAATA
1 CAATGCAACATCTTTATACCTGATTCAATCCTCTAAACTCAATA
66376529 CAATGCAACATCTTTATACCCT-ATTCAATCCTCTAAACTC
1 CAATGCAACATCTTTATA-CCTGATTCAATCCTCTAAACTC
66376569 GATATAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (44 bp):
CAATGCAACATCTTTATACCTGATTCAATCCTCTAAACTCAATA
Found at i:66378800 original size:25 final size:25
Alignment explanation
Indices: 66378722--66378819 Score: 94
Period size: 25 Copynumber: 3.9 Consensus size: 25
66378712 CAGCTCGTAT
*
66378722 GAGCTTCCCGATAT-ATAGCTTGTGA
1 GAGCTTACCGAT-TCATAGCTTGTGA
** * *
66378747 GAGCTTATTGATTC-TAAACTCGT-A
1 GAGCTTACCGATTCAT-AGCTTGTGA
66378771 TGAGCTTACCGATTCATAGCTTGTGA
1 -GAGCTTACCGATTCATAGCTTGTGA
*
66378797 GAGCATACCGATTCATAGCTTGT
1 GAGCTTACCGATTCATAGCTTGT
66378820 ATGAACATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.05
25 53 0.91
26 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTACCGATTCATAGCTTGTGA
Found at i:66378810 original size:50 final size:50
Alignment explanation
Indices: 66378715--66378810 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
66378705 CAGACCACAG
* * **
66378715 CTCGTATGAGCTTCCCGATATATAGCTTGTGAGAGCTTATTGATTCTAAA
1 CTCGTATGAGCTTACCGATATATAGCTTGTGAGAGCATACCGATTCTAAA
66378765 CTCGTATGAGCTTACCGAT-TCATAGCTTGTGAGAGCATACCGATTC
1 CTCGTATGAGCTTACCGATAT-ATAGCTTGTGAGAGCATACCGATTC
66378811 ATAGCTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 40 0.98
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
CTCGTATGAGCTTACCGATATATAGCTTGTGAGAGCATACCGATTCTAAA
Found at i:66378822 original size:50 final size:50
Alignment explanation
Indices: 66378713--66378823 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 50
66378703 GACAGACCAC
* * **
66378713 AGCTCGTATGAGCTTCCCGATATATAGCTTGTGAGAGCTTATTGATTCTA
1 AGCTCGTATGAGCTTACCGATATATAGCTTGTGAGAGCATACCGATTCTA
*
66378763 AACTCGTATGAGCTTACCGAT-TCATAGCTTGTGAGAGCATACCGATTC-A
1 AGCTCGTATGAGCTTACCGATAT-ATAGCTTGTGAGAGCATACCGATTCTA
*
66378812 TAGCTTGTATGA
1 -AGCTCGTATGA
66378824 ACATGTATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 2 0.04
50 50 0.96
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCGATATATAGCTTGTGAGAGCATACCGATTCTA
Found at i:66382368 original size:24 final size:22
Alignment explanation
Indices: 66382341--66382384 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
66382331 AAAAAGCAAA
66382341 AAGAAGAACACAAGAAAAAAAACC
1 AAGAAGAA-AC-AGAAAAAAAACC
*
66382365 AAGAAGAAACAGAACAAAAA
1 AAGAAGAAACAGAAAAAAAA
66382385 TAACGTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.73, C:0.14, G:0.14, T:0.00
Consensus pattern (22 bp):
AAGAAGAAACAGAAAAAAAACC
Found at i:66386713 original size:87 final size:86
Alignment explanation
Indices: 66386604--66386779 Score: 271
Period size: 87 Copynumber: 2.0 Consensus size: 86
66386594 GAAACACAAA
* * *
66386604 AATATAGACTTTTTAGCACCTTTTGAGCCCTAATTCATAAAGTTTCGAAGTAAATTTTATTGAAA
1 AATATAGACTTTTTAGCACCTTTTGAGCCCAAATTCATAAAGTTTCGAAGAAAATTTTATCGAAA
*
66386669 TTCATACTTTAATTATAAAAT
66 TTCATAATTTAATTATAAAAT
** * *
66386690 AATATAGACTTTTTTAGCACCTTTTGAGCCCAAATTCATGTAGTTTCGTAGAAAATTTTGTCGAA
1 AATATAGAC-TTTTTAGCACCTTTTGAGCCCAAATTCATAAAGTTTCGAAGAAAATTTTATCGAA
66386755 ATTCATAATTTAATTATAAAAT
65 ATTCATAATTTAATTATAAAAT
66386777 AAT
1 AAT
66386780 TAATTTGCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 9 0.11
87 72 0.89
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (86 bp):
AATATAGACTTTTTAGCACCTTTTGAGCCCAAATTCATAAAGTTTCGAAGAAAATTTTATCGAAA
TTCATAATTTAATTATAAAAT
Found at i:66386841 original size:28 final size:28
Alignment explanation
Indices: 66386764--66386829 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
66386754 AATTCATAAT
66386764 TTAA-TTA-TAAAATAATTAATTTGCAC
1 TTAAGTTATTAAAATAATTAATTTGCAC
66386790 TTAAGTTATTAAAATAATTAATTTGCAC
1 TTAAGTTATTAAAATAATTAATTTGCAC
66386818 TTAAGTTATTAA
1 TTAAGTTATTAA
66386830 CATATTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 31 0.82
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAAGTTATTAAAATAATTAATTTGCAC
Found at i:66387440 original size:14 final size:16
Alignment explanation
Indices: 66387409--66387442 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66387399 TTTCACCTAT
66387409 TCATTCAACACATCTC
1 TCATTCAACACATCTC
* *
66387425 TCATTCCACACTTCTC
1 TCATTCAACACATCTC
66387441 TC
1 TC
66387443 TTTCTTGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (16 bp):
TCATTCAACACATCTC
Found at i:66389358 original size:6 final size:6
Alignment explanation
Indices: 66389347--66389412 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
66389337 TTCTATTTTA
* * * * *
66389347 TTTATT TTTATT TTTATT TTAAGT TGTACT TTTATT TTTATT GTTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT
*
66389396 GTTTTTAT TTTATT TTT
1 -TTTAT-T TTTATT TTT
66389413 GAGACTTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 33 0.70
7 13 0.28
8 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:66389382 original size:24 final size:21
Alignment explanation
Indices: 66389335--66389411 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 21
66389325 CTTTACTTAG
* *
66389335 TTTTCTATTTTATTTATTTTTA
1 TTTT-TATTTTAATTGTTTTTA
66389357 TTTTTATTTTAAGTTGTACTTTTA
1 TTTTTATTTTAA-TTGT--TTTTA
*
66389381 TTTTTATTGTTGATTGTTTTTA
1 TTTTTATT-TTAATTGTTTTTA
66389403 -TTTTATTTT
1 TTTTTATTTT
66389412 TGAGACTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 12 0.25
24 17 0.35
25 3 0.06
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTAATTGTTTTTA
Found at i:66391095 original size:27 final size:28
Alignment explanation
Indices: 66391065--66391121 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
66391055 AAATGAATGG
*
66391065 AATAATTAGATCTAGTTATTA-AATATA
1 AATAATTAGATCTAGCTATTATAATATA
* *
66391092 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGATCTAGCTATTATAATATA
66391120 AA
1 AA
66391122 AAAATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (28 bp):
AATAATTAGATCTAGCTATTATAATATA
Found at i:66391641 original size:18 final size:18
Alignment explanation
Indices: 66391620--66391654 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66391610 AAAGAAAGCA
*
66391620 AATAAATAAATGAAAGAG
1 AATAAACAAATGAAAGAG
*
66391638 AATAAACAATTGAAAGA
1 AATAAACAAATGAAAGA
66391655 AGTGGGATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (18 bp):
AATAAACAAATGAAAGAG
Found at i:66392566 original size:10 final size:10
Alignment explanation
Indices: 66392551--66392590 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
66392541 TCACAAGTCT
66392551 TGTGATATAG
1 TGTGATATAG
*
66392561 TGTGATATAT
1 TGTGATATAG
66392571 TGTGATATATG
1 TGTGATATA-G
*
66392582 TATGATATA
1 TGTGATATA
66392591 TGTAGGGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (10 bp):
TGTGATATAG
Found at i:66392575 original size:20 final size:21
Alignment explanation
Indices: 66392550--66392591 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
66392540 ATCACAAGTC
*
66392550 TTGTGATATA-GTGTGATATA
1 TTGTGATATATGTATGATATA
66392570 TTGTGATATATGTATGATATA
1 TTGTGATATATGTATGATATA
66392591 T
1 T
66392592 GTAGGGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
TTGTGATATATGTATGATATA
Found at i:66396888 original size:15 final size:17
Alignment explanation
Indices: 66396854--66396886 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
66396844 ATAATTAATA
66396854 TATTATATTATAAAATT
1 TATTATATTATAAAATT
66396871 TATTAT-TTATAAAATT
1 TATTATATTATAAAATT
66396887 ATACATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATTATAAAATT
Found at i:66398122 original size:20 final size:20
Alignment explanation
Indices: 66398097--66398135 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66398087 TCAGGAAAAT
* *
66398097 TATAAATATATTAAAATTAG
1 TATAAACATATAAAAATTAG
66398117 TATAAACATATAAAAATTA
1 TATAAACATATAAAAATTA
66398136 TAAAATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
TATAAACATATAAAAATTAG
Found at i:66398134 original size:37 final size:36
Alignment explanation
Indices: 66398092--66398177 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
66398082 AAAAATCAGG
* * *
66398092 AAAATTATAAATATATTAAAATTAGTATAAACATATA
1 AAAATTATAAA-ATATTAAAAATAATAAAAACATATA
* *
66398129 AAAATTATAAAATACATAAAAATAATAAAAACTTATA
1 AAAATTATAAAATA-TTAAAAATAATAAAAACATATA
*
66398166 AATATTATAAAA
1 AAAATTATAAAA
66398178 ATATATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 3 0.07
37 39 0.93
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (36 bp):
AAAATTATAAAATATTAAAAATAATAAAAACATATA
Found at i:66398139 original size:9 final size:9
Alignment explanation
Indices: 66398092--66398184 Score: 66
Period size: 9 Copynumber: 10.0 Consensus size: 9
66398082 AAAAATCAGG
66398092 AAAATTATA
1 AAAATTATA
* *
66398101 AATA-TATT
1 AAAATTATA
66398109 AAAATTAGTA
1 AAAATTA-TA
66398119 TAAACA-TATA
1 -AAA-ATTATA
66398129 AAAATTAT-
1 AAAATTATA
*
66398137 AAAATACATA
1 AAAAT-TATA
*
66398147 AAAATAATA
1 AAAATTATA
66398156 AAAACTTATA
1 AAAA-TTATA
*
66398166 AATATTATA
1 AAAATTATA
66398175 AAAATATATA
1 AAAAT-TATA
66398185 TTTTTATAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
8 12 0.18
9 29 0.44
10 19 0.29
11 5 0.08
12 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:66398842 original size:9 final size:9
Alignment explanation
Indices: 66398828--66398920 Score: 57
Period size: 10 Copynumber: 10.1 Consensus size: 9
66398818 TATCATTTTT
66398828 AATTTTTAA
1 AATTTTTAA
66398837 AATTTTTAA
1 AATTTTTAA
*
66398846 TATGTTTT--
1 AAT-TTTTAA
*
66398854 TATTTTTAA
1 AATTTTTAA
*
66398863 AATTTATTAT
1 AATTT-TTAA
66398873 AATTTTT-A
1 AATTTTTAA
* *
66398881 CATTATTTAT
1 AATT-TTTAA
*
66398891 AATTTTTATG
1 AATTTTTA-A
66398901 AATTTTTATA
1 AATTTTTA-A
*
66398911 AAATTTTAA
1 AATTTTTAA
66398920 A
1 A
66398921 TATATTTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
7 4 0.06
8 6 0.09
9 26 0.39
10 31 0.46
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (9 bp):
AATTTTTAA
Found at i:66398843 original size:17 final size:18
Alignment explanation
Indices: 66398828--66398936 Score: 80
Period size: 18 Copynumber: 5.8 Consensus size: 18
66398818 TATCATTTTT
*
66398828 AATTTTTAAAATTTTTAA
1 AATTTTTATAATTTTTAA
*
66398846 TATGTTTT-T-ATTTTTAA
1 AAT-TTTTATAATTTTTAA
66398863 AATTTATTATAATTTTT-A
1 AATTT-TTATAATTTTTAA
* *
66398881 CATTATTTATAATTTTTATG
1 AATT-TTTATAATTTTTA-A
*
66398901 AATTTTTATAAAATTTTAA
1 AATTTTTAT-AATTTTTAA
66398920 ATATATTTTATTAATTT
1 A-AT-TTTTA-TAATTT
66398937 CATATATGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.03
17 12 0.17
18 18 0.25
19 17 0.24
20 12 0.17
21 9 0.13
22 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTTATAATTTTTAA
Found at i:66398844 original size:27 final size:26
Alignment explanation
Indices: 66398813--66398908 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 26
66398803 TAAATGATTC
66398813 TTTTATATCATTTTTAATTTTTAAAAT
1 TTTTATAT-ATTTTTAATTTTTAAAAT
*
66398840 TTTTA-ATATGTTTTTATTTTTAAAAT
1 TTTTATATAT-TTTTAATTTTTAAAAT
*
66398866 TTATTATA-ATTTTTACATTATTTATAAT
1 TT-TTATATATTTTTA-ATT-TTTAAAAT
66398894 TTTTATGA-ATTTTTA
1 TTTTAT-ATATTTTTA
66398909 TAAAATTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
25 2 0.03
26 23 0.38
27 17 0.28
28 18 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATATATTTTTAATTTTTAAAAT
Found at i:66398915 original size:11 final size:10
Alignment explanation
Indices: 66398828--66398936 Score: 51
Period size: 10 Copynumber: 11.5 Consensus size: 10
66398818 TATCATTTTT
66398828 AATTTTTA-A
1 AATTTTTATA
66398837 AATTTTTA-A
1 AATTTTTATA
*
66398846 TATGTTTT-T-
1 AAT-TTTTATA
66398855 -ATTTTTA-A
1 AATTTTTATA
66398863 AATTTATTAT-
1 AATTT-TTATA
66398873 AA-TTTT-TA
1 AATTTTTATA
*
66398881 CATTATTTAT-
1 AATT-TTTATA
*
66398891 AATTTTTATG
1 AATTTTTATA
66398901 AATTTTTATA
1 AATTTTTATA
*
66398911 AAATTTTA-A
1 AATTTTTATA
*
66398920 ATATATTTTATT
1 A-AT-TTTTATA
66398932 AATTT
1 AATTT
66398937 CATATATGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 29
0.68 0.06 0.25
Matches are distributed among these distances:
7 5 0.06
8 5 0.06
9 25 0.32
10 34 0.44
11 8 0.10
12 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61
Consensus pattern (10 bp):
AATTTTTATA
Found at i:66399198 original size:10 final size:9
Alignment explanation
Indices: 66399183--66399285 Score: 65
Period size: 10 Copynumber: 11.6 Consensus size: 9
66399173 TCAATATTAA
66399183 TTTTATAATT
1 TTTTATAA-T
*
66399193 TTTTATAGT
1 TTTTATAAT
*
66399202 TTATTA-GAT
1 TT-TTATAAT
66399211 TTTTAT-AT
1 TTTTATAAT
66399219 TTTTATAAT
1 TTTTATAAT
*
66399228 ATTTATAATT
1 TTTTATAA-T
66399238 TTTTATAAGT
1 TTTTATAA-T
* *
66399248 TTATATAAA
1 TTTTATAAT
66399257 TTTTA-ATAT
1 TTTTATA-AT
*
66399266 TTTGA-AAT
1 TTTTATAAT
66399274 TTTT-T-AT
1 TTTTATAAT
66399281 TTTTA
1 TTTTA
66399286 AAATATTCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
7 6 0.08
8 17 0.23
9 25 0.34
10 26 0.35
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:66399231 original size:19 final size:19
Alignment explanation
Indices: 66399183--66399245 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
66399173 TCAATATTAA
66399183 TTTTATAAT-TTTTTATA-
1 TTTTATAATATTTTTATAT
* * *
66399200 GTTTATTAGATTTTTATAT
1 TTTTATAATATTTTTATAT
*
66399219 TTTTATAATATTTATA-ATT
1 TTTTATAATATTTTTATA-T
66399238 TTTTATAA
1 TTTTATAA
66399246 GTTTATATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
17 6 0.17
18 9 0.25
19 21 0.58
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAATATTTTTATAT
Found at i:66399232 original size:28 final size:26
Alignment explanation
Indices: 66399183--66399280 Score: 69
Period size: 27 Copynumber: 3.6 Consensus size: 26
66399173 TCAATATTAA
66399183 TTTTATAATTTTTTATAGTTTATTAGAT
1 TTTTATAATTTTTTATAGTTTA-TA-AT
66399211 TTTTAT-ATTTTTATAATA-TTTATAATT
1 TTTTATAATTTTT-T-ATAGTTTATAA-T
* * *
66399238 TTTTATAAGTTTATATAAATTT-TAAT
1 TTTTATAATTTTTTAT-AGTTTATAAT
66399264 ATTTTGA-AATTTTTTAT
1 -TTTT-ATAATTTTTTAT
66399281 TTTTAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
26 4 0.07
27 32 0.55
28 19 0.33
29 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTATAATTTTTTATAGTTTATAAT
Found at i:66400705 original size:3 final size:3
Alignment explanation
Indices: 66400697--66400723 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
66400687 CAGTGTCCCA
66400697 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
66400724 GTTGTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66406565 original size:17 final size:19
Alignment explanation
Indices: 66406529--66406572 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
66406519 ATATAATTTT
*
66406529 TAAAAATATATATAATACA
1 TAAAAATATATATAAGACA
66406548 TAAAAATAT-TA-AAGACA
1 TAAAAATATATATAAGACA
*
66406565 TTAAAATA
1 TAAAAATA
66406573 AATGTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAATATATATAAGACA
Found at i:66407315 original size:16 final size:15
Alignment explanation
Indices: 66407296--66407335 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
66407286 AAACTATTAG
66407296 AAAAATCATAAAAATA
1 AAAAATCA-AAAAATA
*
66407312 AAAAATTGAAAAAATA
1 AAAAA-TCAAAAAATA
66407328 AAAAATCA
1 AAAAATCA
66407336 GTTCAATCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATCAAAAAATA
Found at i:66407914 original size:18 final size:16
Alignment explanation
Indices: 66407837--66407914 Score: 50
Period size: 17 Copynumber: 4.6 Consensus size: 16
66407827 AATTTTTTTC
*
66407837 ATAATTTTTAATTAAT
1 ATAATTTTTAAATAAT
* *
66407853 AACAAGTTATTTAAA-ATT
1 -ATAA-TT-TTTAAATAAT
*
66407871 AAAATTTATTAAATAAT
1 ATAATTT-TTAAATAAT
*
66407888 ATAAATTTTAAATATAT
1 ATAATTTTTAAATA-AT
66407905 GATAATTTTT
1 -ATAATTTTT
66407915 TATTTATATG
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
15 1 0.02
16 14 0.30
17 15 0.32
18 12 0.26
19 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAATTTTTAAATAAT
Found at i:66411056 original size:177 final size:177
Alignment explanation
Indices: 66410757--66411131 Score: 588
Period size: 177 Copynumber: 2.1 Consensus size: 177
66410747 CTACTGCTTA
* *
66410757 GGAGATAAGATCTGCAATTTTTAGCCTGTTACCCTACAGCTTAGGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
* * *
66410822 AACCTGCTCTCTTGCTACCTCAGAAAGATAAAGCCGGTGGCTAAAATCTGCTCCATAGTCAATAC
66 AACCTGCTCTCTTGCCACCTCAGAAAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCAATAC
* * * **
66410887 ATAGAGATAGGACTCGCCATTTTTGATCTGCTTTATAGCCGATACAT
131 ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
*
66410934 GGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
* * * * * *
66410999 AACCTGCTCTCTTGCCATCTTAGAGAGATAAGGCCGGTGGCTAAAACCTGTTCCATAGCCGATAC
66 AACCTGCTCTCTTGCCACCTCAGAAAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCAATAC
*
66411064 ATGGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
131 ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
66411111 GGAGATAAGATCTGTAATTTT
1 GGAGATAAGATCTGTAATTTT
66411132 CAGTCTGCTT
Statistics
Matches: 180, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 180 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (177 bp):
GGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACAGCTTAAGGGGTTAAGGCTCGTATCTTC
AACCTGCTCTCTTGCCACCTCAGAAAGATAAAGCCGGTGGCTAAAACCTGCTCCATAGCCAATAC
ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
Found at i:66411102 original size:45 final size:45
Alignment explanation
Indices: 66411050--66411253 Score: 163
Period size: 45 Copynumber: 4.6 Consensus size: 45
66411040 TAAAACCTGT
66411050 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
1 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
* *
66411095 TCCATAGCCGATACATGGAGATAAGA-TCTGTAATTT-TCAGTCTGC
1 TCCATAGCCGATACATGGAGATAAGACTC-GCAATTTCTGA-TCTGC
* * * * * * * ** *
66411140 TTCC-T-G-CAACTTCAAGAACATAATACTTG---TGGCTAAAATCTGC
1 -TCCATAGCCGA-TACATGGAGATAAGACTCGCAATTTCT--GATCTGC
* *
66411183 TCCATAGCCGATACATGGAGATAAGACTCACCATTTCTGATCTGC
1 TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
*
66411228 TCCATAGCCGATGCATGGAGATAAGA
1 TCCATAGCCGATACATGGAGATAAGA
66411254 TCTGTAATTT
Statistics
Matches: 121, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 8 0.07
44 30 0.25
45 72 0.60
46 3 0.02
47 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
TCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGC
Found at i:66411200 original size:133 final size:133
Alignment explanation
Indices: 66411035--66411431 Score: 623
Period size: 133 Copynumber: 3.0 Consensus size: 133
66411025 GATAAGGCCG
* * *
66411035 GTGGCTAAAACCTGTTCCATAGCCGATACATGGAGATAAGACTCGCAATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
* * *
66411100 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAACATAATA
66 AGCCGATGCATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
66411165 CTT
131 CTT
*
66411168 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
*
66411233 AGCCGATGCATGGAGATAAGATCTGTAATTTACAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
66 AGCCGATGCATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
66411298 CTT
131 CTT
* * * * * * *
66411301 GTGGCTAAAATCTACTCCATAGCCGATACATGAAGATAATACTTGCCATTTTTTATTTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
* * * *
66411366 AGCTGATGCATGGAGATAAGATCCGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
66 AGCCGATGCATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
66411431 C
131 C
66411432 CTGTATCTTC
Statistics
Matches: 243, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 243 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (133 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
AGCCGATGCATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGA
CTT
Found at i:66411207 original size:177 final size:176
Alignment explanation
Indices: 66410757--66411184 Score: 383
Period size: 177 Copynumber: 2.4 Consensus size: 176
66410747 CTACTGCTTA
* * * * **** * * **
66410757 GGAGATAAGATCTGCAATTTTTAGCCTGTTACCCTACAGCTTAGGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTCAGCCTGTTA-CCTACAACTTAAGAACATAAGACTCGTAGCTAA
* * * * * * *
66410822 AACCTGCTCTCTTGCTA-CCTCAGAAAGATAAAGCCGGTGGCTAAAATCTGCTCCATAGTCAATA
65 AACCTGCTCTCTAGCCATCAT-AGAGAGATAAGGCCGGTGGCTAAAACCTGCTCCATAGCCAATA
* * * **
66410886 CATAGAGATAGGACTCGCCATTTTTGATCTGCTTTATAGCCGATACAT
129 CATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
* ** **** * * **
66410934 GGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCGTATCTTC
1 GGAGATAAGATCTGTAATTTTCAGCCTGTTA-CCTACAACTTAAGAACATAAGACTCGTAGCTAA
* * * *
66410999 AACCTGCTCTCTTGCCATCTTAGAGAGATAAGGCCGGTGGCTAAAACCTGTTCCATAGCCGATAC
65 AACCTGCTCTCTAGCCATCATAGAGAGATAAGGCCGGTGGCTAAAACCTGCTCCATAGCCAATAC
*
66411064 ATGGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
130 ATAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
* * * * *
66411111 GGAGATAAGATCTGTAATTTTCAGTCTGCTT-CCTGCAACTTCAAGAACATAATACTTGTGGCTA
1 GGAGATAAGATCTGTAATTTTCAGCCTG-TTACCTACAACTT-AAGAACATAAGACTCGTAGCTA
*
66411175 AAATCTGCTC
64 AAACCTGCTC
66411185 CATAGCCGAT
Statistics
Matches: 214, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
176 7 0.03
177 203 0.95
178 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (176 bp):
GGAGATAAGATCTGTAATTTTCAGCCTGTTACCTACAACTTAAGAACATAAGACTCGTAGCTAAA
ACCTGCTCTCTAGCCATCATAGAGAGATAAGGCCGGTGGCTAAAACCTGCTCCATAGCCAATACA
TAGAGATAAGACTCGCAATTTCTGATCTGCTCCATAGCCGATACAT
Found at i:66421576 original size:16 final size:17
Alignment explanation
Indices: 66421549--66421582 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
66421539 AAATGGATTT
66421549 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
66421566 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
66421582 A
1 A
66421583 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:66425224 original size:23 final size:22
Alignment explanation
Indices: 66425184--66425228 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
66425174 AACCAGAATG
*
66425184 AAGAAAAATAAAAAGAATTGAAA
1 AAGAAAAAGAAAAAGAA-TGAAA
**
66425207 AAGAAAAAGAAAGGGAATGAAA
1 AAGAAAAAGAAAAAGAATGAAA
66425229 GAATGATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (22 bp):
AAGAAAAAGAAAAAGAATGAAA
Found at i:66425755 original size:57 final size:58
Alignment explanation
Indices: 66425692--66425809 Score: 193
Period size: 57 Copynumber: 2.1 Consensus size: 58
66425682 CATTTCCAGA
* *
66425692 TCATTTTTATTTTGAAGAAAACCACATTCATTTCCAAATG-TTTCCATTTCTCCATTT
1 TCATTTTCATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCCATTTCTCCATTT
* *
66425749 TCATTTTCATTTTGAAAAAAACCACATTCATTTCTAAATGTTTTCCATTTCTCCTTTT
1 TCATTTTCATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCCATTTCTCCATTT
66425807 TCA
1 TCA
66425810 CAATTTCTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
57 37 0.66
58 19 0.34
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (58 bp):
TCATTTTCATTTTGAAAAAAACCACATTCATTTCCAAATGTTTTCCATTTCTCCATTT
Found at i:66426222 original size:12 final size:12
Alignment explanation
Indices: 66426205--66426229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66426195 CAAGTCATTC
66426205 ATTACAGAAACA
1 ATTACAGAAACA
66426217 ATTACAGAAACA
1 ATTACAGAAACA
66426229 A
1 A
66426230 ACGAGTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
ATTACAGAAACA
Found at i:66428760 original size:13 final size:13
Alignment explanation
Indices: 66428724--66428762 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
66428714 TGTATTTTTA
66428724 AAAAAATT-ATAT
1 AAAAAATTAATAT
*
66428736 AAAAATAGTAATAT
1 AAAAA-ATTAATAT
66428750 AAAAAATTAATAT
1 AAAAAATTAATAT
66428763 GGTCGGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 9 0.39
14 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAAATTAATAT
Found at i:66439216 original size:26 final size:27
Alignment explanation
Indices: 66439187--66439240 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
66439177 TTTAGTGATG
*
66439187 ATGGGTTA-TTCCAAGTGTTTAAGCAA
1 ATGGGTTAGTTCAAAGTGTTTAAGCAA
* *
66439213 ATGGGTTAGTTGAAAGTTTTTAAGCAA
1 ATGGGTTAGTTCAAAGTGTTTAAGCAA
66439240 A
1 A
66439241 CGTTTCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (27 bp):
ATGGGTTAGTTCAAAGTGTTTAAGCAA
Found at i:66441505 original size:15 final size:15
Alignment explanation
Indices: 66441485--66441514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66441475 AATGTTCATG
66441485 AATAATAAAAAAACA
1 AATAATAAAAAAACA
*
66441500 AATAATAAATAAACA
1 AATAATAAAAAAACA
66441515 TATATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAATAAAAAAACA
Found at i:66444686 original size:46 final size:46
Alignment explanation
Indices: 66444619--66444835 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
66444609 TGGCAACCTG
*
66444619 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
66444665 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
66444711 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
66444757 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
66444803 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
66444836 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:66444814 original size:138 final size:130
Alignment explanation
Indices: 66444570--66444835 Score: 363
Period size: 138 Copynumber: 2.0 Consensus size: 130
66444560 AGTGTGCTCT
*
66444570 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
66444635 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
66444700 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
66444765 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
66444829 TATGGCA
122 CATGGCA
66444836 TCACGTCAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:66445141 original size:23 final size:25
Alignment explanation
Indices: 66445096--66445142 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66445086 AATAAATATA
*
66445096 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
66445121 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
66445143 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:66446813 original size:22 final size:22
Alignment explanation
Indices: 66446785--66446828 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
66446775 TTTGTGTATC
66446785 CATTTGAGTCCAAATCAAGTTA
1 CATTTGAGTCCAAATCAAGTTA
*
66446807 CATTTGAGTCCAAATTAAGTTA
1 CATTTGAGTCCAAATCAAGTTA
66446829 ACAGGGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (22 bp):
CATTTGAGTCCAAATCAAGTTA
Found at i:66447741 original size:12 final size:12
Alignment explanation
Indices: 66447724--66447749 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66447714 TAATAGCTGA
66447724 ATATATATATAC
1 ATATATATATAC
66447736 ATATATATATAC
1 ATATATATATAC
66447748 AT
1 AT
66447750 GAGAGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:66454017 original size:11 final size:12
Alignment explanation
Indices: 66453993--66454023 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
66453983 AAAATTAAAA
66453993 ATAAATAATAAT
1 ATAAATAATAAT
66454005 ATAAATAAT-AT
1 ATAAATAATAAT
66454016 ATAAATAA
1 ATAAATAA
66454024 ATAAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:66454206 original size:34 final size:34
Alignment explanation
Indices: 66454113--66454195 Score: 139
Period size: 34 Copynumber: 2.4 Consensus size: 34
66454103 TAAAAATATT
* *
66454113 TATCTAATTTATTTTAAACAGAATATCATCCATA
1 TATCTAATTTATTTTACACAAAATATCATCCATA
66454147 TATCTAATTTATTTTACACAAAATATCATCCATA
1 TATCTAATTTATTTTACACAAAATATCATCCATA
66454181 TAATCTAATTTATTT
1 T-ATCTAATTTATTT
66454196 AAGTTAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 33 0.72
35 13 0.28
ACGTcount: A:0.40, C:0.14, G:0.01, T:0.45
Consensus pattern (34 bp):
TATCTAATTTATTTTACACAAAATATCATCCATA
Found at i:66457499 original size:20 final size:18
Alignment explanation
Indices: 66457470--66457509 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
66457460 ACATTAATTT
66457470 ATTTTAATATTAAATTAAAA
1 ATTTTAATA-T-AATTAAAA
*
66457490 ATTTTTATATAATTAAAA
1 ATTTTAATATAATTAAAA
66457508 AT
1 AT
66457510 GTCACTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAATATAATTAAAA
Found at i:66457916 original size:18 final size:19
Alignment explanation
Indices: 66457871--66457917 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
66457861 AGTTTTTTTT
*
66457871 TATATTTTAAAATTTTAAAA
1 TATA-TTTATAATTTTAAAA
66457891 TATATTTATAATTTTAAAA
1 TATATTTATAATTTTAAAA
66457910 T-TATTTAT
1 TATATTTAT
66457918 TAAAGTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 7 0.27
19 15 0.58
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATAATTTTAAAA
Found at i:66458004 original size:18 final size:18
Alignment explanation
Indices: 66457981--66458018 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
66457971 AAATTAATAT
66457981 TTTAAT-TTATTTAGAAAA
1 TTTAATATTATTT-GAAAA
66457999 TTTAATATTATTTGAAAA
1 TTTAATATTATTTGAAAA
66458017 TT
1 TT
66458019 CCATAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTAATATTATTTGAAAA
Found at i:66463209 original size:26 final size:26
Alignment explanation
Indices: 66463180--66463232 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
66463170 TTGTAAAAGA
*
66463180 TAGAGATAAATAAAGTGAATCAAATC
1 TAGAGATAAATAAAGTCAATCAAATC
66463206 TAGAGATAAATAAAGTCAATCAAATC
1 TAGAGATAAATAAAGTCAATCAAATC
66463232 T
1 T
66463233 GAATATGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (26 bp):
TAGAGATAAATAAAGTCAATCAAATC
Found at i:66465311 original size:38 final size:37
Alignment explanation
Indices: 66465241--66465361 Score: 134
Period size: 38 Copynumber: 3.2 Consensus size: 37
66465231 AGAAGTATAT
* * *
66465241 TGTTATTCGGGCTTTGTGCCTAGTAGACTTTGTGACG
1 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCG
* *
66465278 CTGTTATTCGGGCTTTGTGCCTAACAGGTTTTGTGCCAG
1 -TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCC-G
* * * *
66465317 TGCTATTCTGGCTTTATGCCTAGCAAGCTTTGTGCCGG
1 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCC-G
66465355 TGTTATT
1 TGTTATT
66465362 AAGTCTTTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
38 68 0.99
39 1 0.01
ACGTcount: A:0.13, C:0.19, G:0.27, T:0.40
Consensus pattern (37 bp):
TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCG
Found at i:66465384 original size:21 final size:22
Alignment explanation
Indices: 66465344--66465384 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66465334 GCCTAGCAAG
*
66465344 CTTTGTGCCGGTGTTATTAAGT
1 CTTTGTGCCAGTGTTATTAAGT
66465366 CTTTGTGCCAGTG-TATTAA
1 CTTTGTGCCAGTGTTATTAA
66465385 AAGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (22 bp):
CTTTGTGCCAGTGTTATTAAGT
Found at i:66467715 original size:26 final size:29
Alignment explanation
Indices: 66467655--66467716 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 29
66467645 AAATTCTAAA
*
66467655 AATTTTATGGTAAGAATATATATGAGTCT
1 AATTTTATGGTAAGAATATATAGGAGTCT
*
66467684 AGTTTTATGG-AA-AAT-TATAGGA-TCTT
1 AATTTTATGGTAAGAATATATAGGAGTC-T
66467710 AATTTTA
1 AATTTTA
66467717 AGTTCTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.07
26 13 0.45
27 3 0.10
28 2 0.07
29 9 0.31
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.44
Consensus pattern (29 bp):
AATTTTATGGTAAGAATATATAGGAGTCT
Found at i:66474723 original size:12 final size:12
Alignment explanation
Indices: 66474706--66474739 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
66474696 CGTTCATGTG
66474706 CTACCACACGGC
1 CTACCACACGGC
*
66474718 CTACCACACGGG
1 CTACCACACGGC
*
66474730 CGACCACACG
1 CTACCACACG
66474740 CCCGTGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.47, G:0.21, T:0.06
Consensus pattern (12 bp):
CTACCACACGGC
Found at i:66479851 original size:7 final size:7
Alignment explanation
Indices: 66479839--66479870 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
66479829 AATTGTTTTA
66479839 AACAAAC
1 AACAAAC
66479846 AACAAAC
1 AACAAAC
66479853 AACAAAC
1 AACAAAC
66479860 AACAAAC
1 AACAAAC
66479867 AACA
1 AACA
66479871 TGAAACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
AACAAAC
Found at i:66507792 original size:24 final size:24
Alignment explanation
Indices: 66507765--66507815 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
66507755 TTTTTATTTC
66507765 AATATAATTAATTTTGAAATGTGT
1 AATATAATTAATTTTGAAATGTGT
66507789 AATATAATTAATTTTGAAATGTGT
1 AATATAATTAATTTTGAAATGTGT
66507813 AAT
1 AAT
66507816 GAATAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (24 bp):
AATATAATTAATTTTGAAATGTGT
Found at i:66508828 original size:31 final size:31
Alignment explanation
Indices: 66508782--66508858 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
66508772 ATAACATCGA
*
66508782 TTTC-AATAGTCCAATAACTTAAATAAAAAC
1 TTTCGAATAGTTCAATAACTTAAATAAAAAC
* ** *
66508812 TTTTGAATAGTTCAATAGTTTAAATGAAAAC
1 TTTCGAATAGTTCAATAACTTAAATAAAAAC
*
66508843 TTTCGAGTAGTTCAAT
1 TTTCGAATAGTTCAAT
66508859 GATCAAATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (31 bp):
TTTCGAATAGTTCAATAACTTAAATAAAAAC
Found at i:66509418 original size:25 final size:24
Alignment explanation
Indices: 66509384--66509432 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
66509374 AATTTAAAAT
66509384 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
66509409 TTATATTAATATTACATAAAATAA
1 TTATATTAATATTAAATAAAATAA
66509433 AAATCCCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:66509729 original size:6 final size:6
Alignment explanation
Indices: 66509718--66509742 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66509708 GGGGAAGGGA
66509718 GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG G
66509743 GTTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:66509785 original size:25 final size:24
Alignment explanation
Indices: 66509752--66509805 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
66509742 GGTTTTTATT
66509752 TTATTTTATTTAATATTAAGATAA
1 TTATTTTATTTAATATTAAGATAA
*
66509776 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAATATTAAGATAA
*
66509801 ATATT
1 TTATT
66509806 AATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTTTATTTAATATTAAGATAA
Found at i:66509819 original size:12 final size:12
Alignment explanation
Indices: 66509788--66509813 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66509778 ATATTTATTT
66509788 AATATTAATATA
1 AATATTAATATA
66509800 AATATTAATATA
1 AATATTAATATA
66509812 AA
1 AA
66509814 ATTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTAATATA
Found at i:66509955 original size:10 final size:10
Alignment explanation
Indices: 66509901--66509976 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
66509891 TACTTTTTAG
66509901 TTTTATATAT
1 TTTTATATAT
66509911 TTTTA-A-AT
1 TTTTATATAT
66509919 TTATTATTATAT
1 TT-TTA-TATAT
* *
66509931 TTTTAAAAAT
1 TTTTATATAT
* *
66509941 ATTTATGTAT
1 TTTTATATAT
66509951 TTTTATATAT
1 TTTTATATAT
* *
66509961 TTCTTTTAAAT
1 TT-TTATATAT
66509972 TTTTA
1 TTTTA
66509977 GAATAATGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 26 0.52
11 12 0.24
12 4 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:66509958 original size:48 final size:47
Alignment explanation
Indices: 66509815--66509958 Score: 116
Period size: 48 Copynumber: 3.0 Consensus size: 47
66509805 TAATATAAAA
* *
66509815 TTTAAATTTATTTATTATATTCTTTTGAAAATATTTATT-TTTATATA-T
1 TTTAAATTTA-TTATTATA-T-TTTTAAAAATATTTATTATTTTTATATT
* * * * * *
66509863 TTTATATATTATTATT-TCTTGTCAAGATTACTTT-TTAGTTTTATATATT
1 TTTAAAT-TTATTATTATATTTTTAAAAATA-TTTATTA-TTTT-TATATT
66509912 TTTAAATTTATTATTATATTTTTAAAAATATTTATGTATTTTTATAT
1 TTTAAATTTATTATTATATTTTTAAAAATATTTAT-TATTTTTATAT
66509959 ATTTCTTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
45 8 0.11
46 4 0.05
47 4 0.05
48 31 0.42
49 24 0.33
50 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (47 bp):
TTTAAATTTATTATTATATTTTTAAAAATATTTATTATTTTTATATT
Found at i:66510164 original size:38 final size:38
Alignment explanation
Indices: 66510113--66510188 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
66510103 TCTCTTTTGT
66510113 GATTTCAATGGGAGTGACTAAAATAAGAGATCATGTAA
1 GATTTCAATGGGAGTGACTAAAATAAGAGATCATGTAA
66510151 GATTTCAATGGGAGTGACTAAAATAAGAGATCATGTAA
1 GATTTCAATGGGAGTGACTAAAATAAGAGATCATGTAA
66510189 AGTGGATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (38 bp):
GATTTCAATGGGAGTGACTAAAATAAGAGATCATGTAA
Found at i:66517235 original size:105 final size:106
Alignment explanation
Indices: 66517089--66517338 Score: 256
Period size: 107 Copynumber: 2.4 Consensus size: 106
66517079 AGAATGAAAA
* ** * * *
66517089 AATTGAATTGATAAACCATTGTTGTCGGGTAA-TCGGAGGTGGTAAGCCATCGTTG-TGGGGTAA
1 AATTGAATCGATAAACCATCATTGTCGGGCAATTCAG-GGTGGTAAGCCATCGTTGCT-GGGCAA
* *
66517152 CCTGGGG-GTG-GTTCATCATTGCTAGGAAACCCAACATGATAG
64 CCTGGGGTG-GAGGTCATCATTACTAGGAAACCCAACATGATAG
* * *
66517194 AATTAAATCGATAAACCATCATTGTCGGGCAATTCAGGGTGGTAAGCCATTGTTGCTGGGCAATC
1 AATTGAATCGATAAACCATCATTGTCGGGCAATTCAGGGTGGTAAGCCATCGTTGCTGGGCAACC
* * * * ***
66517259 TGGGGTGGCAGGTCATCGTTACTGGGCAGCCCGGGATGATAG
66 TGGGGTGG-AGGTCATCATTACTAGGAAACCCAACATGATAG
* *
66517301 AATTGAATCGATAAACCATCATTGTCGAGCAATCCAGG
1 AATTGAATCGATAAACCATCATTGTCGGGCAATTCAGG
66517339 ATGGCATGTC
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
105 56 0.47
106 5 0.04
107 58 0.49
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (106 bp):
AATTGAATCGATAAACCATCATTGTCGGGCAATTCAGGGTGGTAAGCCATCGTTGCTGGGCAACC
TGGGGTGGAGGTCATCATTACTAGGAAACCCAACATGATAG
Found at i:66533391 original size:15 final size:15
Alignment explanation
Indices: 66533367--66533406 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
66533357 TGTAAATTGA
*
66533367 ATTTCCTTATCATGG
1 ATTTCTTTATCATGG
*
66533382 ATTTCTTTATCTTGG
1 ATTTCTTTATCATGG
66533397 ATTTCTTTAT
1 ATTTCTTTAT
66533407 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (15 bp):
ATTTCTTTATCATGG
Found at i:66542123 original size:15 final size:15
Alignment explanation
Indices: 66542103--66542132 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66542093 GTGAAGTGAT
66542103 AACATGGTGATTGAA
1 AACATGGTGATTGAA
66542118 AACATGGTGATTGAA
1 AACATGGTGATTGAA
66542133 GCATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:66545544 original size:16 final size:15
Alignment explanation
Indices: 66545513--66545553 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
66545503 TTATTTATTA
66545513 AATTAATTTT-AATT
1 AATTAATTTTCAATT
66545527 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
66545543 AAATAATTTTC
1 AATTAATTTTC
66545554 TCAACTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:66557265 original size:23 final size:23
Alignment explanation
Indices: 66557239--66557283 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
66557229 TGGGTATGTG
*
66557239 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
66557262 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
66557284 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:66557976 original size:27 final size:26
Alignment explanation
Indices: 66557946--66558020 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
66557936 CGTTTCTTTG
*
66557946 GACTATCTCGTGTTTAATATCCTATCA
1 GACTATC-CGTGTTTAACATCCTATCA
* * *
66557973 GACTATCCCATGTTTAGCATCCTGTCA
1 GACTAT-CCGTGTTTAACATCCTATCA
*
66558000 AACTATCCTGTGTTTAACATC
1 GACTATCC-GTGTTTAACATC
66558021 ACATTGAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.05
27 36 0.92
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
GACTATCCGTGTTTAACATCCTATCA
Found at i:66560947 original size:50 final size:48
Alignment explanation
Indices: 66560787--66560960 Score: 193
Period size: 48 Copynumber: 3.7 Consensus size: 48
66560777 TGTAAGCCAA
* * *
66560787 TGTAAGA-CATGTCTGGGACAT-GCATCGACTAC-G--AGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATAGAGGTGTCAG
*
66560831 TGTAAGACCATGTCTAGGACATGGCAT-GGACACGGATAGAGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CACGGATAGAGGTGTCAG
*
66560879 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGT-TTA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATA---GAG-GTGTCAG
66560929 TGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA
66560961 TTATACCCTA
Statistics
Matches: 113, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
44 7 0.06
45 16 0.14
46 6 0.05
48 43 0.38
49 2 0.02
50 32 0.28
51 5 0.04
52 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAGAGGTGTCAG
Found at i:66564930 original size:60 final size:60
Alignment explanation
Indices: 66564858--66564977 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
66564848 GTTAATTCGT
*
66564858 AAGTTTAATGTGTTAGTGATCGACTGTAGGATTATCGCGTGGGAGATATCGTCATCAATC
1 AAGTCTAATGTGTTAGTGATCGACTGTAGGATTATCGCGTGGGAGATATCGTCATCAATC
* *
66564918 AAGTCTAATGTGTTAGTGATCGATTGTAGGATTATCTCGTGGGAGATATCGTCATCAATC
1 AAGTCTAATGTGTTAGTGATCGACTGTAGGATTATCGCGTGGGAGATATCGTCATCAATC
66564978 GTCATCAACC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (60 bp):
AAGTCTAATGTGTTAGTGATCGACTGTAGGATTATCGCGTGGGAGATATCGTCATCAATC
Found at i:66567544 original size:26 final size:27
Alignment explanation
Indices: 66567515--66567574 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
66567505 CCACATATAT
*
66567515 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
66567541 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
66567568 ATATCTG
1 ATATCTG
66567575 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:66571791 original size:23 final size:23
Alignment explanation
Indices: 66571765--66571817 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
66571755 TCATTTCATA
66571765 ATGGATGATTTCATGAATTAAGT
1 ATGGATGATTTCATGAATTAAGT
66571788 ATGGATGATTTCATGAATTAAGT
1 ATGGATGATTTCATGAATTAAGT
66571811 ATGGATG
1 ATGGATG
66571818 TATGCTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (23 bp):
ATGGATGATTTCATGAATTAAGT
Found at i:66576098 original size:20 final size:20
Alignment explanation
Indices: 66576068--66576112 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
66576058 CTGTTTTATT
66576068 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
66576087 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
66576107 ATGGGC
1 ATGGGC
66576113 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:66576242 original size:28 final size:27
Alignment explanation
Indices: 66576202--66576254 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
66576192 TATTGTAATA
* *
66576202 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAG-TTAACACTGATAT
66576230 GGGCTAAGGCCCAGTTAACACTGAT
1 GGGCTAAGGCCCAGTTAACACTGAT
66576255 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACACTGATAT
Found at i:66577973 original size:18 final size:18
Alignment explanation
Indices: 66577928--66577975 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
66577918 GATGACTTTA
66577928 ATAACGATC-CTCGAGTGC
1 ATAACGATCTC-CGAGTGC
66577946 ATAACGATCTCCGAGTGC
1 ATAACGATCTCCGAGTGC
*
66577964 GTAACGATCTCC
1 ATAACGATCTCC
66577976 AAAATCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (18 bp):
ATAACGATCTCCGAGTGC
Found at i:66584262 original size:47 final size:45
Alignment explanation
Indices: 66584194--66584318 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 45
66584184 TTTGTCTGCT
* * *
66584194 AGTGTAAGACATGTCTGGGACATACATCGGCCACATT-ATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGACGAGAGCC
*
66584240 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT--GACGAGAGCC
66584288 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
66584319 TACGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 4 0.06
46 16 0.23
47 28 0.41
48 21 0.30
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGACGAGAGCC
Found at i:66584360 original size:46 final size:47
Alignment explanation
Indices: 66584239--66584459 Score: 146
Period size: 49 Copynumber: 4.6 Consensus size: 47
66584229 TTATGAGATC
* *
66584239 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAG
1 CAGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGACGAGAG
* * *
66584286 CTAGTGTAAGA-CATGTCTGGGACA-TGCATCGGC-TACGAGATGTG-T
1 C-AGTGTAAGACCATGTCTGGGACATTGCATCGGCAT-CGAGACGAGAG
* * ** * * *
66584331 CAGTGTAAGACCATATCTAGGACATTGCATCGATATGGATATGTGAGAGG
1 CAGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGA--CGAGA-G
* * * * * * *
66584381 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTG-GTTTCGATAG
1 CAGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAG--ACGAGAG
* *
66584429 TCAGTGTAAGACCATGTCTAGGACATGGCAT
1 -CAGTGTAAGACCATGTCTGGGACATTGCAT
66584460 TGACTTGATG
Statistics
Matches: 133, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
44 9 0.07
45 13 0.10
46 24 0.18
47 15 0.11
48 13 0.10
49 30 0.23
50 29 0.22
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGACGAGAG
Found at i:66584379 original size:94 final size:94
Alignment explanation
Indices: 66584191--66584415 Score: 258
Period size: 94 Copynumber: 2.4 Consensus size: 94
66584181 TTATTTGTCT
* * *
66584191 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCACATTATGAGATCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGATCCAGTGTAAGACCATATC
* * *
66584256 TGGGACATGGCATCGGCATTGAGACGAGA
66 TAGGACATGGCATCGACATGGAGACGAGA
* *
66584285 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTG-T-CAGTGTAAGACCATAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGATCCAGTGTAAGACCATAT
* * * *
66584347 CTAGGACATTGCATCGATATGGATATGTGAGA
65 CTAGGACATGGCATCGACATGGAGA--CGAGA
* *
66584379 GGTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC
66584416 TTGGTTTCGA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
92 34 0.31
93 1 0.01
94 54 0.49
95 15 0.14
96 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGATCCAGTGTAAGACCATATC
TAGGACATGGCATCGACATGGAGACGAGA
Found at i:66586704 original size:35 final size:35
Alignment explanation
Indices: 66586664--66586822 Score: 183
Period size: 35 Copynumber: 4.5 Consensus size: 35
66586654 GTCTGTACAT
66586664 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
66586699 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * ** * *
66586734 ATGTGATGTTATATTGAGCTTGTATATTCAGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
66586769 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
66586804 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
66586823 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:66588117 original size:14 final size:14
Alignment explanation
Indices: 66588098--66588126 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
66588088 GGTGAGAGTT
66588098 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
66588112 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
66588126 T
1 T
66588127 GTTCGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (14 bp):
TATGTGTGTGTGTG
Found at i:66600132 original size:17 final size:19
Alignment explanation
Indices: 66600098--66600132 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
66600088 AAATATTTTT
66600098 TTTATAATCTATTAAATAC
1 TTTATAATCTATTAAATAC
66600117 TTTAT-ATCTA-TAAATA
1 TTTATAATCTATTAAATA
66600133 TTAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATAATCTATTAAATAC
Found at i:66600330 original size:17 final size:17
Alignment explanation
Indices: 66600308--66600342 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
66600298 TTCATTATAT
66600308 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
66600325 TTACATTTTATTATATA
1 TTACATTTTATTACATA
66600342 T
1 T
66600343 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:66600377 original size:21 final size:19
Alignment explanation
Indices: 66600335--66600390 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
66600325 TTACATTTTA
66600335 TTATATATATATATATAT--T
1 TTATAT-TAT-TATATATGGT
*
66600354 TTATGTTACTTATTATATGGT
1 TTATATTA-TTA-TATATGGT
66600375 TTATATTATTATATAT
1 TTATATTATTATATAT
66600391 TTTGGTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 16 0.52
20 3 0.10
21 8 0.26
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATATTATTATATATGGT
Found at i:66604112 original size:28 final size:30
Alignment explanation
Indices: 66604081--66604144 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
66604071 ATTATAAAAA
66604081 ATAAAAATCAATAAAAGTTAA-AAAAAT-T
1 ATAAAAATCAATAAAAGTTAATAAAAATAT
* * **
66604109 ATAAAAATTATTAAATTTTAATAAAAATAT
1 ATAAAAATCAATAAAAGTTAATAAAAATAT
66604139 ATAAAA
1 ATAAAA
66604145 TTACAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.57
29 6 0.20
30 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (30 bp):
ATAAAAATCAATAAAAGTTAATAAAAATAT
Found at i:66604123 original size:10 final size:9
Alignment explanation
Indices: 66604070--66604154 Score: 59
Period size: 9 Copynumber: 9.3 Consensus size: 9
66604060 GTTGCAAAAG
66604070 AATTATAAA
1 AATTATAAA
66604079 AA--ATAAA
1 AATTATAAA
*
66604086 AATCAATAAA
1 AAT-TATAAA
* *
66604096 AGTTAAAAA
1 AATTATAAA
66604105 AATTATAAA
1 AATTATAAA
66604114 AATTATTAAA
1 AATTA-TAAA
**
66604124 TTTTAATAAA
1 AATT-ATAAA
66604134 AA-TATATAA
1 AATTATA-AA
*
66604143 AATTACAAA
1 AATTATAAA
66604152 AAT
1 AAT
66604155 CGTAAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.12
8 3 0.05
9 28 0.47
10 20 0.34
11 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:66604250 original size:31 final size:31
Alignment explanation
Indices: 66604195--66604263 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
66604185 TATAAAAATC
*
66604195 AAAAATTTTATAAAATATATAG-AAATATAGA
1 AAAAAATTTATAAAATATATAGAAAAT-TAGA
* *
66604226 AAAAAATTTATAAAATCGTA-AGAAAATTATA
1 AAAAAATTTATAAAAT-ATATAGAAAATTAGA
66604257 AAAAAAT
1 AAAAAAT
66604264 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAATTTATAAAATATATAGAAAATTAGA
Found at i:66604525 original size:19 final size:20
Alignment explanation
Indices: 66604490--66604532 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
66604480 ATTTATAAAA
66604490 TTTTACAATTTTTTTTATATT
1 TTTTACAA-TTTTTTTATATT
66604511 TTTTACAA-TTTTTTATATT
1 TTTTACAATTTTTTTATATT
66604530 TTT
1 TTT
66604533 CTAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACAATTTTTTTATATT
Found at i:66604561 original size:8 final size:9
Alignment explanation
Indices: 66604500--66604558 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
66604490 TTTTACAATT
66604500 TTTTTTATA
1 TTTTTTATA
*
66604509 TTTTTTACAA
1 TTTTTTA-TA
66604519 TTTTTTATA
1 TTTTTTATA
66604528 TTTTTCTA-A
1 TTTTT-TATA
* *
66604537 GTTTTAATA
1 TTTTTTATA
66604546 -TTTTTATA
1 TTTTTTATA
66604554 TTTTT
1 TTTTT
66604559 ATAAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.20
9 23 0.56
10 10 0.24
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTTTATA
Found at i:66604577 original size:26 final size:26
Alignment explanation
Indices: 66604522--66604588 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
66604512 TTTACAATTT
* ** *
66604522 TTTATATTTTTCTAAGTTTTAATATT
1 TTTATATTTTTATAAAATTTAATATA
66604548 TTTATATTTTTATAAAAATTTAATA-A
1 TTTATATTTTTAT-AAAATTTAATATA
66604574 TTTAATAATTTTTAT
1 TTT-AT-ATTTTTAT
66604589 TTTTATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 15 0.44
27 11 0.32
28 8 0.24
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTATATTTTTATAAAATTTAATATA
Found at i:66608703 original size:110 final size:110
Alignment explanation
Indices: 66608510--66608732 Score: 437
Period size: 110 Copynumber: 2.0 Consensus size: 110
66608500 CATTTCAAAT
*
66608510 AACAACTTATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
1 AACAACTAATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
66608575 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66608620 AACAACTAATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
1 AACAACTAATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
66608685 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66 TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
66608730 AAC
1 AAC
66608733 CATTTGGTAC
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (110 bp):
AACAACTAATAAACATGTATAACCAAGTACTCTATTTGGTCAAAATAAACAACTAACTTCCAATT
TGATTTGGATCTATACATACCATAAATCTTTTTTACCAAAACACA
Found at i:66611484 original size:277 final size:277
Alignment explanation
Indices: 66610990--66611544 Score: 1110
Period size: 277 Copynumber: 2.0 Consensus size: 277
66610980 TAGTTTAGGG
66610990 GTTTACATGCAAGGAATTTGTCTAGATAAAATTTTCAAGCTTCCATGGCTTCTTTTCTTTTCATT
1 GTTTACATGCAAGGAATTTGTCTAGATAAAATTTTCAAGCTTCCATGGCTTCTTTTCTTTTCATT
66611055 TTCTATTGGAAAAATAGAAATTAAAGATGACAACTTTGTTTTATTTTATTTTATTTATCTTTTAT
66 TTCTATTGGAAAAATAGAAATTAAAGATGACAACTTTGTTTTATTTTATTTTATTTATCTTTTAT
66611120 TACTTATTTATAAAATTACCCTTACCTAACCTTAAAAATTACACTAATGCCAAGCCATGCACATC
131 TACTTATTTATAAAATTACCCTTACCTAACCTTAAAAATTACACTAATGCCAAGCCATGCACATC
66611185 CACTATCATGTTTAATGGTATATTTACCATATAAGGACTTCCACTTTAAAGTTATATAGCTATTT
196 CACTATCATGTTTAATGGTATATTTACCATATAAGGACTTCCACTTTAAAGTTATATAGCTATTT
66611250 AATACCTTTAGCTTATA
261 AATACCTTTAGCTTATA
66611267 GTTTACATGCAAGGAATTTGTCTAGATAAAATTTTCAAGCTTCCATGGCTTCTTTTCTTTTCATT
1 GTTTACATGCAAGGAATTTGTCTAGATAAAATTTTCAAGCTTCCATGGCTTCTTTTCTTTTCATT
66611332 TTCTATTGGAAAAATAGAAATTAAAGATGACAACTTTGTTTTATTTTATTTTATTTATCTTTTAT
66 TTCTATTGGAAAAATAGAAATTAAAGATGACAACTTTGTTTTATTTTATTTTATTTATCTTTTAT
66611397 TACTTATTTATAAAATTACCCTTACCTAACCTTAAAAATTACACTAATGCCAAGCCATGCACATC
131 TACTTATTTATAAAATTACCCTTACCTAACCTTAAAAATTACACTAATGCCAAGCCATGCACATC
66611462 CACTATCATGTTTAATGGTATATTTACCATATAAGGACTTCCACTTTAAAGTTATATAGCTATTT
196 CACTATCATGTTTAATGGTATATTTACCATATAAGGACTTCCACTTTAAAGTTATATAGCTATTT
66611527 AATACCTTTAGCTTATA
261 AATACCTTTAGCTTATA
66611544 G
1 G
66611545 AACACAACTT
Statistics
Matches: 278, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
277 278 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (277 bp):
GTTTACATGCAAGGAATTTGTCTAGATAAAATTTTCAAGCTTCCATGGCTTCTTTTCTTTTCATT
TTCTATTGGAAAAATAGAAATTAAAGATGACAACTTTGTTTTATTTTATTTTATTTATCTTTTAT
TACTTATTTATAAAATTACCCTTACCTAACCTTAAAAATTACACTAATGCCAAGCCATGCACATC
CACTATCATGTTTAATGGTATATTTACCATATAAGGACTTCCACTTTAAAGTTATATAGCTATTT
AATACCTTTAGCTTATA
Found at i:66612003 original size:18 final size:18
Alignment explanation
Indices: 66611980--66612017 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
66611970 TAGGGTTCAT
*
66611980 AATGAAAAGGAAGTTGAG
1 AATGAAAAGGAAGCTGAG
*
66611998 AATGAAGAGGAAGCTGAG
1 AATGAAAAGGAAGCTGAG
66612016 AA
1 AA
66612018 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.13
Consensus pattern (18 bp):
AATGAAAAGGAAGCTGAG
Found at i:66614508 original size:6 final size:6
Alignment explanation
Indices: 66614497--66614609 Score: 61
Period size: 6 Copynumber: 18.8 Consensus size: 6
66614487 GGATTTCAGC
* *
66614497 TCATCA TCATCA TCATTA TCAT-A TTCATCA TC-TCTA TCTTCA TCATCA
1 TCATCA TCATCA TCATCA TCATCA -TCATCA TCATC-A TCATCA TCATCA
* * * * * * * * *
66614545 CCATC- GCTATCA CCATCG CCATCA CCATCG CCATCA TTATCA TCATCA
1 TCATCA TC-ATCA TCATCA TCATCA TCATCA TCATCA TCATCA TCATCA
* *
66614593 TCATCT TCATCT TCATC
1 TCATCA TCATCA TCATC
66614610 TACATCTCCA
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
5 4 0.05
6 80 0.91
7 4 0.05
ACGTcount: A:0.27, C:0.35, G:0.03, T:0.35
Consensus pattern (6 bp):
TCATCA
Found at i:66614556 original size:12 final size:12
Alignment explanation
Indices: 66614540--66614580 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
66614530 CTATCTTCAT
66614540 CATCACCATCGC
1 CATCACCATCGC
*
66614552 TATCACCATCGC
1 CATCACCATCGC
66614564 CATCACCATCGC
1 CATCACCATCGC
66614576 CATCA
1 CATCA
66614581 TTATCATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.27, C:0.46, G:0.07, T:0.20
Consensus pattern (12 bp):
CATCACCATCGC
Found at i:66614591 original size:24 final size:24
Alignment explanation
Indices: 66614536--66614597 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
66614526 ATCTCTATCT
*
66614536 TCATCATCACCATCGCTATCACCA
1 TCATCATCACCATCGCCATCACCA
** **
66614560 TCGCCATCACCATCGCCATCATTA
1 TCATCATCACCATCGCCATCACCA
*
66614584 TCATCATCATCATC
1 TCATCATCACCATC
66614598 TTCATCTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.40, G:0.05, T:0.27
Consensus pattern (24 bp):
TCATCATCACCATCGCCATCACCA
Found at i:66614610 original size:6 final size:6
Alignment explanation
Indices: 66614587--66614665 Score: 56
Period size: 6 Copynumber: 13.2 Consensus size: 6
66614577 ATCATTATCA
* * *
66614587 TCATCA TCATCT TCATCT TCATCT ACATCT CCATC- TCTAT-T TCCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC-ATCT T-CATCT
* * *
66614635 TCATCT CCAACAT T-ATCT TCATTT TCATCT T
1 TCATCT TCATC-T TCATCT TCATCT TCATCT T
66614666 GTTCTTCAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.88
7 4 0.07
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (6 bp):
TCATCT
Found at i:66627267 original size:26 final size:26
Alignment explanation
Indices: 66627231--66627314 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
66627221 CATGAAATTC
66627231 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
66627257 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
66627283 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
66627309 TTATCA
1 TTATCA
66627315 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:66633075 original size:26 final size:26
Alignment explanation
Indices: 66633044--66633203 Score: 304
Period size: 26 Copynumber: 6.2 Consensus size: 26
66633034 TGAAATGCCC
66633044 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCTATT
66633070 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
66633096 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
66633122 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
66633148 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
66633174 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
66633200 ATCA
1 ATCA
66633204 ATTTGTATCA
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
25 4 0.03
26 129 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCTATT
Found at i:66634100 original size:30 final size:30
Alignment explanation
Indices: 66634051--66634109 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66634041 AACTTTTTAT
*
66634051 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
66634080 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
66634110 TTCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Done.