Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 85 of 240
Found at i:26854280 original size:7 final size:7
Alignment explanation
Indices: 26854268--26854334 Score: 98
Period size: 7 Copynumber: 9.6 Consensus size: 7
26854258 TAGTTGATTG
*
26854268 GTATTTA
1 GTATTAA
*
26854275 GTATTTA
1 GTATTAA
*
26854282 GTATTTA
1 GTATTAA
26854289 GTATTAA
1 GTATTAA
26854296 GTATTAA
1 GTATTAA
26854303 GTATTAA
1 GTATTAA
26854310 GTATTAA
1 GTATTAA
26854317 GTATTAA
1 GTATTAA
*
26854324 GTATTAT
1 GTATTAA
26854331 GTAT
1 GTAT
26854335 ATAACTAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (7 bp):
GTATTAA
Found at i:26854931 original size:18 final size:18
Alignment explanation
Indices: 26854908--26854945 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26854898 TGCAAGGTGC
* *
26854908 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
26854926 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
26854944 GT
1 GT
26854946 GTCTTTTTCC
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:26855237 original size:21 final size:21
Alignment explanation
Indices: 26855213--26855252 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26855203 CTACCAGAGG
* * *
26855213 AACCAGAATCCCCGTCGGAGC
1 AACCACAACCCCCGCCGGAGC
26855234 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
26855253 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.20, T:0.05
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGC
Found at i:26855465 original size:7 final size:7
Alignment explanation
Indices: 26855445--26855484 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
26855435 ATTTATTAAA
26855445 AATTTAT
1 AATTTAT
26855452 AAATTTAT
1 -AATTTAT
26855460 AATTTAT
1 AATTTAT
26855467 AA-TTA-
1 AATTTAT
26855472 AATTTAT
1 AATTTAT
26855479 AATTTA
1 AATTTA
26855485 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:26855538 original size:33 final size:33
Alignment explanation
Indices: 26855501--26855718 Score: 108
Period size: 33 Copynumber: 6.3 Consensus size: 33
26855491 AAACCCTAAC
26855501 AAAAACCCTAACCCTAACCCTAAACCTTAACTT
1 AAAAACCCTAACCCTAACCCTAAACCTTAACTT
* * *
26855534 AAAAACCCTAACCCTTAA-CTTAAAAACCCTAACCCT
1 AAAAACCCTAACCC-TAACCCT--AAACCTTAA-CTT
* * *
26855570 AACCATTAA-CTTAAAAACCCTAACCTTAACCCTTAACTT
1 AA--A--AACCCT---AACCCTAACCCTAAACCTTAACTT
* * *
26855609 AAAAATCCTTAA-CTTAAAAACACCAAAACAC-TAAC--
1 AAAAA-CCCTAACCCT---AAC-CCTAAAC-CTTAACTT
*
26855644 AAAAACCCTAGCCCTAACCCT-AACTCTTAACTT
1 AAAAACCCTAACCCTAACCCTAAAC-CTTAACTT
* *
26855677 AAAAACCCTAACCATAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAAACCTTAACTT
*
26855710 AAAACCCCT
1 AAAAACCCT
26855719 TAACTTAAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 48
0.67 0.10 0.23
Matches are distributed among these distances:
30 4 0.03
31 6 0.04
32 3 0.02
33 53 0.38
34 11 0.08
35 17 0.12
36 7 0.05
37 12 0.09
38 2 0.01
39 6 0.04
40 9 0.06
41 3 0.02
42 8 0.06
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (33 bp):
AAAAACCCTAACCCTAACCCTAAACCTTAACTT
Found at i:26855542 original size:21 final size:21
Alignment explanation
Indices: 26855516--26855599 Score: 98
Period size: 21 Copynumber: 3.8 Consensus size: 21
26855506 CCCTAACCCT
26855516 AACCCTAAACCTTAACTTAAA
1 AACCCTAAACCTTAACTTAAA
*
26855537 AACCCTAACCCTTAACTTAAA
1 AACCCTAAACCTTAACTTAAA
26855558 AACCCTAACCCTAACCATTAACTTAAA
1 AACCCT-A----AACC-TTAACTTAAA
26855585 AACCCT-AACCTTAAC
1 AACCCTAAACCTTAAC
26855600 CCTTAACTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
20 5 0.09
21 30 0.55
22 1 0.02
26 3 0.05
27 16 0.29
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAAACCTTAACTTAAA
Found at i:26855544 original size:27 final size:26
Alignment explanation
Indices: 26855510--26855613 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
26855500 CAAAAACCCT
26855510 AACCCTAACCCTAAACCTTAACTTAAA
1 AACCCTAACCCT-AACCTTAACTTAAA
26855537 AACCCTAA--C---CCTTAACTTAAA
1 AACCCTAACCCTAACCTTAACTTAAA
26855558 AACCCTAACCCTAACCATTAACTTAAA
1 AACCCTAACCCTAACC-TTAACTTAAA
*
26855585 AACCCTAACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTAA-CCTTAACTTAAA
26855612 AA
1 AA
26855614 TCCTTAACTT
Statistics
Matches: 69, Mismatches: 1, Indels: 14
0.82 0.01 0.17
Matches are distributed among these distances:
21 20 0.29
23 1 0.01
25 1 0.01
26 2 0.03
27 43 0.62
28 2 0.03
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (26 bp):
AACCCTAACCCTAACCTTAACTTAAA
Found at i:26855563 original size:15 final size:15
Alignment explanation
Indices: 26855543--26855629 Score: 73
Period size: 15 Copynumber: 6.2 Consensus size: 15
26855533 TAAAAACCCT
26855543 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
26855558 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
*
26855570 AACCATTAACTTAAA
1 AACCCTTAACTTAAA
26855585 AACCC-TAACCTT---
1 AACCCTTAA-CTTAAA
26855597 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
26855612 AATCCTTAACTTAAA
1 AACCCTTAACTTAAA
26855627 AAC
1 AAC
26855630 ACCAAAACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
12 14 0.25
13 6 0.11
14 6 0.11
15 30 0.54
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:26855667 original size:95 final size:97
Alignment explanation
Indices: 26855560--26855743 Score: 275
Period size: 101 Copynumber: 1.9 Consensus size: 97
26855550 AACTTAAAAA
*
26855560 CCCTAACCCTAAC-CATTAACTTAAAAACCCTAACC-T-TAACCCTTAACTTAAAAATCCTTAAC
1 CCCTAACCCTAACTC-TTAACTTAAAAACCCTAACCATCTAACCCTTAACTTAAAAACCCTTAAC
26855622 TTAAAAACACCAAAACACTAACAAAAACCCTAG
65 TTAAAAACACCAAAACACTAACAAAAACCCTAG
*
26855655 CCCTAACCCTAACTCTTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAAACCCCTT
1 CCCTAACCCTAACTCTTAACTTAAAAACCCTAACCAT----CTAACCCTTAACTTAAAAACCCTT
*
26855720 AACTTAAAAACACCAAAACCCTAA
62 AACTTAAAAACACCAAAACACTAA
26855744 TGCTAATAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
95 33 0.42
96 2 0.03
101 44 0.56
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.21
Consensus pattern (97 bp):
CCCTAACCCTAACTCTTAACTTAAAAACCCTAACCATCTAACCCTTAACTTAAAAACCCTTAACT
TAAAAACACCAAAACACTAACAAAAACCCTAG
Found at i:26855720 original size:15 final size:15
Alignment explanation
Indices: 26855700--26855728 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26855690 ATAACCCTAA
26855700 CCCTTAACTTAAAAC
1 CCCTTAACTTAAAAC
26855715 CCCTTAACTTAAAA
1 CCCTTAACTTAAAA
26855729 ACACCAAAAC
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:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
CCCTTAACTTAAAAC
Found at i:26855760 original size:101 final size:92
Alignment explanation
Indices: 26855525--26855769 Score: 257
Period size: 101 Copynumber: 2.6 Consensus size: 92
26855515 TAACCCTAAA
* * *
26855525 CCTTAACTTAAAAAC-CC-TAACCCTTAAC-TTAAAAACCCTAACCCTAACCATTAACTTAAAAA
1 CCTTAACTTAAAAACACCAAAACAC-TAACAATAAAAACCCTAACCCTAACCATTAACTTAAAAA
*
26855587 CCCTAACCTTAACCCTTAACTTAAAAAT
65 CCCTAACCTTAACCCTTAACTTAAAAAC
*
26855615 CCTTAACTTAAAAACACCAAAACACTAACAA-AAACCCTAGCCCTAACCCTAACTC-TTAACTTA
1 CCTTAACTTAAAAACACCAAAACACTAACAATAAA----AACCCTAACCCTAAC-CATTAACTTA
*
26855678 AAAACCCTAACCATAACCCTAACCCTTAACTTAAAACC
61 AAAACCCTAACC-T-----TAACCCTTAACTTAAAAAC
*
26855716 CCTTAACTTAAAAACACCAAAACCCTAATGCTAATAAAAACCCTAACCCTAACC
1 CCTTAACTTAAAAACACCAAAACACTAA--C-AATAAAAACCCTAACCCTAACC
26855770 CTAATCTGAT
Statistics
Matches: 129, Mismatches: 8, Indels: 26
0.79 0.05 0.16
Matches are distributed among these distances:
90 15 0.12
91 9 0.07
92 4 0.03
95 34 0.26
96 2 0.02
100 1 0.01
101 58 0.45
103 1 0.01
104 2 0.02
105 3 0.02
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (92 bp):
CCTTAACTTAAAAACACCAAAACACTAACAATAAAAACCCTAACCCTAACCATTAACTTAAAAAC
CCTAACCTTAACCCTTAACTTAAAAAC
Found at i:26855912 original size:77 final size:76
Alignment explanation
Indices: 26855822--26855979 Score: 237
Period size: 77 Copynumber: 2.1 Consensus size: 76
26855812 ATTAACAATG
* * *
26855822 AATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAATAAT
1 AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTAC-AAAAAAT-ATAAT
*
26855887 TTGATATAA-TTT
64 TTGATAAAATTTT
* *
26855899 AATAATTTTACTAACAAAATGCTAGATTTTACAAAATGTTTTGATTGGTACAAAAAATATAATTT
1 AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATATAATTT
26855964 GATAAAATTTT
66 GATAAAATTTT
26855975 AATAA
1 AATAA
26855980 CAATTAATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 13 0.18
76 13 0.18
77 48 0.65
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (76 bp):
AATAATTTGACTAACAAAATGCTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATATAATTT
GATAAAATTTT
Found at i:26855988 original size:16 final size:16
Alignment explanation
Indices: 26855969--26856009 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
26855959 AATTTGATAA
26855969 AATTTTAATAACAATT
1 AATTTTAATAACAATT
26855985 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
26856001 AGTTTTAAT
1 AATTTTAAT
26856010 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:26856011 original size:22 final size:23
Alignment explanation
Indices: 26855983--26856032 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
26855973 TTAATAACAA
* *
26855983 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
26856005 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
26856028 TTAAT
1 TTAAT
26856033 AACCCAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:26863747 original size:44 final size:44
Alignment explanation
Indices: 26863698--26863929 Score: 139
Period size: 44 Copynumber: 5.3 Consensus size: 44
26863688 GATAGTAGAT
* * * * *
26863698 CTTGCCTTCCTGCATCAACAGCGAAGCAGATTGAAGACACCAGC
1 CTTGCCTCCCTGCATCAACAGTGAAGTAGATTGAAGATAACAGC
* ** * * *
26863742 CTTGCCTCCCT-CGGT-TGCAGTGGAGTAGGTTGAAGATAACAGAT
1 CTTGCCTCCCTGC-ATCAACAGTGAAGTAGATTGAAGATAACAG-C
* * * *
26863786 CTTGCCTTCCTGCACCAACAGTGAAGTAGATCGAAGACAACAGC
1 CTTGCCTCCCTGCATCAACAGTGAAGTAGATTGAAGATAACAGC
* ** * * * * *
26863830 CTTGCCTCCCT-CGGT-TGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTGC-ATCAACAGTGAAGTAGATTGAAGATAACAG-C
* * * * * *
26863874 CTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGATACCAGC
1 CTTGCCTCCCTGCATCAACAGTGAAGTAGATTGAAGATAACAGC
26863918 CTTGCCTCCCTG
1 CTTGCCTCCCTG
26863930 ACCAGCAGTG
Statistics
Matches: 134, Mismatches: 46, Indels: 16
0.68 0.23 0.08
Matches are distributed among these distances:
43 40 0.30
44 52 0.39
45 42 0.31
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGCATCAACAGTGAAGTAGATTGAAGATAACAGC
Found at i:26863777 original size:43 final size:43
Alignment explanation
Indices: 26863728--26863865 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
26863718 GCGAAGCAGA
*
26863728 TTGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
1 TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
* * * ***** * *
26863771 TTGAAGATAACAGATCTTGCCTTCCTGCACCAACAGTGAAGTAGA
1 TTGAAGACAACAG-CCTTGCCTCCCT-CGGTTGCAGTGGAGTAGG
* *
26863816 TCGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGG
1 TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
26863859 TTGAAGA
1 TTGAAGA
26863866 TAGCAGATCT
Statistics
Matches: 69, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 27 0.39
44 20 0.29
45 22 0.32
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (43 bp):
TTGAAGACAACAGCCTTGCCTCCCTCGGTTGCAGTGGAGTAGG
Found at i:26863954 original size:88 final size:88
Alignment explanation
Indices: 26863684--26863928 Score: 391
Period size: 88 Copynumber: 2.8 Consensus size: 88
26863674 AACAGATCAG
* * * *
26863684 TGAAGATAGTAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACAACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
26863749 CCCTCGGTTGCAGTGGAGTAGGT
66 CCCTCGGTTGCAGTGGAGTAGGT
* * * *
26863772 TGAAGATAACAGATCTTGCCTTCCTGCACCAACAGTGAAGTAGATCGAAGACAACAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACAACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
*
26863837 CCCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGTAGGT
* *
26863860 TGAAGATAGCAGATCTTGCCTTCCTGCAACGACAGCGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCAACAACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
26863925 CCCT
66 CCCT
26863929 GACCAGCAGT
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 143 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCAACAACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGTAGGT
Found at i:26863980 original size:44 final size:44
Alignment explanation
Indices: 26863923--26864475 Score: 720
Period size: 44 Copynumber: 12.6 Consensus size: 44
26863913 CCAGCCTTGC
26863923 CTCCCTGACCAGCAGTGGAATAGG-CTGAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTC-GAAGATTGTAAGTCCTAT
* * * *
26863967 CTACCTGATCAGCAGTGGAATA-GACTGAAGATTGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTC-GAAGATTGTAAGTCCTAT
* * *
26864011 CTCCCTGACTAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* *
26864055 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* *
26864099 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATGGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * *
26864143 CTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGGAAGTCCTAG
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
** * * *
26864187 CTCCCTGAATAGCAGTGAAATAGGTCGAAGATGGTAAGCCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* * * *
26864231 CTCCCTGAACAGTAGTGGAATAGATCGAAGATTGTAAGTCCTAG
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* *
26864275 CTCCCTGAACAGCAGTGGAATAGGTCGAAGATGGTAAG-CTCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTC-CTAT
*
26864319 CTCCCTGAACAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
*
26864363 CTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
* ** * *
26864407 CTCCCTGACCAGCAATGGAATAATTTGAAGATTGT-AGACCTTAT
1 CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCC-TAT
* * *
26864451 CT-CCTGAGCAGCAATGGAGTAGGTC
1 CTCCCTGACCAGCAGTGGAATAGGTC
26864476 AAAAATTACA
Statistics
Matches: 455, Mismatches: 49, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
43 24 0.05
44 429 0.94
45 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
CTCCCTGACCAGCAGTGGAATAGGTCGAAGATTGTAAGTCCTAT
Found at i:26876048 original size:16 final size:18
Alignment explanation
Indices: 26876013--26876050 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26876003 ATTCTTATTT
*
26876013 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
26876031 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
26876047 AAAT
1 AAAT
26876051 CTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:26876478 original size:15 final size:17
Alignment explanation
Indices: 26876458--26876489 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26876448 CAAAGGAAAA
26876458 AAAAT-ATT-TTTTTAT
1 AAAATAATTGTTTTTAT
26876473 AAAATAATTGTTTTTAT
1 AAAATAATTGTTTTTAT
26876490 TAATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AAAATAATTGTTTTTAT
Found at i:26881668 original size:27 final size:27
Alignment explanation
Indices: 26881599--26881671 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
26881589 GTCGGGTGGC
*
26881599 ACCTCATAGGGAGGCACCATTAAAAGT
1 ACCTCATAGGGAGGCGCCATTAAAAGT
* *
26881626 ACCTCGTAAGGAGGCGCCATTAAAAGT
1 ACCTCATAGGGAGGCGCCATTAAAAGT
*
26881653 GCCTCATAGGGAGGCGCCA
1 ACCTCATAGGGAGGCGCCA
26881672 ATGGGTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (27 bp):
ACCTCATAGGGAGGCGCCATTAAAAGT
Found at i:26881794 original size:19 final size:19
Alignment explanation
Indices: 26881772--26881939 Score: 60
Period size: 23 Copynumber: 8.2 Consensus size: 19
26881762 TTATAGTTTT
26881772 TATTAGTATTTTGTATGAA
1 TATTAGTATTTTGTATGAA
26881791 TATTA-TAATGTTT-TATGAA
1 TATTAGT-AT-TTTGTATGAA
* *
26881810 TATTGTAATTATTTTATAATGAA
1 TA-T-T-AGTATTTTGT-ATGAA
* *
26881833 T-TTTGTATTTATAGTTTTG--
1 TATTAGTATTT-T-G-TATGAA
* *
26881852 GATTAGTATTTTGTATGGA
1 TATTAGTATTTTGTATGAA
*
26881871 TATTGTAATATTGTTTGTATGAA
1 TA-T-TAGTA-T-TTTGTATGAA
*
26881894 TATTGTAATATTGTTTGTATGAA
1 TA-T-TAGTA-T-TTTGTATGAA
26881917 TATT-GTAATTTTGTATGAA
1 TATTAGT-ATTTTGTATGAA
26881936 TATT
1 TATT
26881940 GTAATTATTT
Statistics
Matches: 119, Mismatches: 11, Indels: 38
0.71 0.07 0.23
Matches are distributed among these distances:
17 3 0.03
18 2 0.02
19 36 0.30
20 17 0.14
21 13 0.11
22 7 0.06
23 41 0.34
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TATTAGTATTTTGTATGAA
Found at i:26881808 original size:79 final size:81
Alignment explanation
Indices: 26881701--26881902 Score: 302
Period size: 79 Copynumber: 2.5 Consensus size: 81
26881691 TATTGTAACT
* * *
26881701 TTTTGTACGAATATTATAAT-TTTGTATGAATATTATAATTATTTTATAATTAATTTTGTATTTA
1 TTTTGTATGAATATTATAATGTTTGTATGAATATTGTAATTATTTTATAATGAATTTTGTATTTA
*
26881765 TAGTTTT-TATTAGTA
66 TAGTTTTGGATTAGTA
26881780 TTTTGTATGAATATTATAATGTTT-TATGAATATTGTAATTATTTTATAATGAATTTTGTATTTA
1 TTTTGTATGAATATTATAATGTTTGTATGAATATTGTAATTATTTTATAATGAATTTTGTATTTA
26881844 TAGTTTTGGATTAGTA
66 TAGTTTTGGATTAGTA
* *
26881860 TTTTGTATGGATATTGTAATATTGTTTGTATGAATATTGTAAT
1 TTTTGTATGAATA-T-T-ATAATGTTTGTATGAATATTGTAAT
26881903 ATTGTTTGTA
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
79 64 0.58
80 22 0.20
81 1 0.01
82 1 0.01
83 8 0.07
84 15 0.14
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (81 bp):
TTTTGTATGAATATTATAATGTTTGTATGAATATTGTAATTATTTTATAATGAATTTTGTATTTA
TAGTTTTGGATTAGTA
Found at i:26881887 original size:23 final size:23
Alignment explanation
Indices: 26881861--26881944 Score: 131
Period size: 23 Copynumber: 3.8 Consensus size: 23
26881851 GGATTAGTAT
*
26881861 TTTGTATGGATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
26881884 TTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTG
26881907 TTTGTATGAATATTGT-A-A-T-
1 TTTGTATGAATATTGTAATATTG
26881926 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
26881945 TATTTTATAA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
19 16 0.28
20 2 0.03
21 1 0.02
22 1 0.02
23 38 0.66
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (23 bp):
TTTGTATGAATATTGTAATATTG
Found at i:26881940 original size:19 final size:19
Alignment explanation
Indices: 26881676--26881945 Score: 117
Period size: 19 Copynumber: 13.3 Consensus size: 19
26881666 GCGCCAATGG
*
26881676 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
*
26881695 GTAACTTTTTGTACGAATATT
1 GTAA--TTTTGTATGAATATT
*
26881716 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
26881735 ATAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
**
26881758 GT-ATTTATAGT-T-TTTATT
1 GTAATTT-T-GTATGAATATT
26881776 AGT-ATTTTGTATGAATATT
1 -GTAATTTTGTATGAATATT
*
26881795 ATAATGTTT-TATGAATATT
1 GTAAT-TTTGTATGAATATT
* *
26881814 GTAATTATTTTATAATGAATTTT
1 GT-A--ATTTTGT-ATGAATATT
* * *
26881837 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
26881857 GT-ATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
26881875 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
26881898 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
26881921 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
26881940 GTAATT
1 GTAATT
26881946 ATTTTATAAT
Statistics
Matches: 202, Mismatches: 21, Indels: 56
0.72 0.08 0.20
Matches are distributed among these distances:
17 8 0.04
18 9 0.04
19 74 0.37
20 20 0.10
21 28 0.14
22 11 0.05
23 52 0.26
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.55
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:26881943 original size:42 final size:46
Alignment explanation
Indices: 26881861--26881944 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 46
26881851 GGATTAGTAT
*
26881861 TTTGTATGGATATTGTAATATTGTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
26881907 TTTGTATGAATATTGT-A-A-T-TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAAT
26881945 TATTTTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 19 0.51
43 1 0.03
44 1 0.03
45 1 0.03
46 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (46 bp):
TTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTAATATTG
Found at i:26882019 original size:60 final size:60
Alignment explanation
Indices: 26881938--26882059 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
26881928 TGTATGAATA
* * * * *
26881938 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
26881998 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
26882058 TT
1 TT
26882060 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:26882213 original size:15 final size:16
Alignment explanation
Indices: 26882177--26882213 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
26882167 CTCATTTAAT
26882177 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
26882193 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
26882208 TTTTAT
1 TTTTAT
26882214 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:26889281 original size:5 final size:6
Alignment explanation
Indices: 26889264--26889330 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 6
26889254 TATTTCTCCC
* * *
26889264 TATTTT TATTTT TATTTT TATTTT CATTTAT ATAAACTCT TATTTT TATTATT
1 TATTTT TATTTT TATTTT TATTTT TATTT-T -T--ATTTT TATTTT TATT-TT
26889317 TATTATT TATTTT T
1 TATT-TT TATTTT T
26889331 GTAAAATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
6 32 0.64
7 14 0.28
8 1 0.02
9 1 0.02
10 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:26890491 original size:15 final size:15
Alignment explanation
Indices: 26890471--26890502 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26890461 CATTTCACTA
*
26890471 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
26890486 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26890501 TT
1 TT
26890503 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26891678 original size:15 final size:15
Alignment explanation
Indices: 26891660--26891689 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26891650 ATTAATTTTG
26891660 ATCAAGTAAAATTAA
1 ATCAAGTAAAATTAA
*
26891675 ATCAATTAAAATTAA
1 ATCAAGTAAAATTAA
26891690 TATGATATTT
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:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
ATCAAGTAAAATTAA
Found at i:26892129 original size:25 final size:24
Alignment explanation
Indices: 26892086--26892204 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 24
26892076 TGATTTCAGA
*
26892086 TTAATTATTTCAAAATTAATATTATT
1 TTAA-TATTT-AATATTAATATTATT
*
26892112 TTAATAGTTTAATATTAA-ATTTAGT
1 TTAATA-TTTAATATTAATA-TTATT
* *
26892137 TTAATATTT-ATCTTAATAATATT
1 TTAATATTTAATATTAATATTATT
* *
26892160 TTATTAATTTAATATTAAAGTGATTATC
1 TTAAT-ATTTAATATT-AA-T-ATTATT
*
26892188 TTAATATTAAAT-TTAAT
1 TTAATATTTAATATTAAT
26892205 TTAATGTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
23 13 0.18
24 10 0.14
25 25 0.34
26 11 0.15
27 7 0.09
28 8 0.11
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (24 bp):
TTAATATTTAATATTAATATTATT
Found at i:26899564 original size:48 final size:48
Alignment explanation
Indices: 26899511--26899617 Score: 155
Period size: 48 Copynumber: 2.2 Consensus size: 48
26899501 AATAAATATA
**
26899511 TTTATTTTTAATTTTTTTAA-A-TTTTAAAATAATTTTAAAATACTTTTT
1 TTTATTTTTAA-TTTTAAAATATTTTTAAAAT-ATTTTAAAATACTTTTT
26899559 TTTATTTTTAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTT
1 TTTATTTTTAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTT
*
26899607 TTAATTTTTAA
1 TTTATTTTTAA
26899618 AATAAATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
47 6 0.11
48 39 0.72
49 9 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (48 bp):
TTTATTTTTAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTT
Found at i:26899569 original size:21 final size:20
Alignment explanation
Indices: 26899563--26899621 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
26899553 CTTTTTTTTA
26899563 TTTTTAA-TTTTAAAATATT
1 TTTTTAATTTTTAAAATATT
**
26899582 TTTAAAATATTTTAAAATACTT
1 TTTTTAAT-TTTTAAAATA-TT
26899604 TTTTTAATTTTTAAAATA
1 TTTTTAATTTTTAAAATA
26899622 AATTTTTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.15
21 20 0.61
22 8 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATATT
Found at i:26899582 original size:10 final size:11
Alignment explanation
Indices: 26899570--26899605 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
26899560 TTATTTTTAA
*
26899570 TTTTAAAATAT
1 TTTTAAAATAC
26899581 TTTTAAAATA-
1 TTTTAAAATAC
26899591 TTTTAAAATAC
1 TTTTAAAATAC
26899602 TTTT
1 TTTT
26899606 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:26899586 original size:11 final size:11
Alignment explanation
Indices: 26899570--26899606 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
26899560 TTATTTTTAA
26899570 TTTTAAAATAT
1 TTTTAAAATAT
26899581 TTTTAAAATA-
1 TTTTAAAATAT
26899591 TTTTAAAATACT
1 TTTTAAAATA-T
26899603 TTTT
1 TTTT
26899607 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 10 0.42
12 4 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:26899594 original size:27 final size:27
Alignment explanation
Indices: 26899540--26899596 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
26899530 AATTTTAAAA
***
26899540 TAATTTTAAAATACTTTTTTTTATTTT
1 TAATTTTAAAATACTTTTTAAAATTTT
26899567 TAATTTTAAAATA-TTTTTAAAATATTT
1 TAATTTTAAAATACTTTTTAAAAT-TTT
26899594 TAA
1 TAA
26899597 AATACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TAATTTTAAAATACTTTTTAAAATTTT
Found at i:26899627 original size:21 final size:20
Alignment explanation
Indices: 26899563--26899628 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
26899553 CTTTTTTTTA
26899563 TTTTTAA-TTTTAAAAT-AT
1 TTTTTAATTTTTAAAATAAT
* *
26899581 TTTTAAAATATTTTAAAATACTT
1 TTTT-TAAT-TTTTAAAATA-AT
26899604 TTTTTAATTTTTAAAATAAAT
1 TTTTTAATTTTTAAAAT-AAT
26899625 TTTT
1 TTTT
26899629 GGTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 4 0.11
19 2 0.05
21 23 0.61
22 4 0.11
23 5 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATAAT
Found at i:26904146 original size:28 final size:29
Alignment explanation
Indices: 26904079--26904147 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
26904069 CGCTTAATCA
** * **
26904079 GCCTATTTCCCTAATTAATTTTAAAATCG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
**
26904108 GCCTAAAGGCCTAATTAA-TTAAAAAAAG
1 GCCTATTGGCCTAATTAATTTAAAAAAAG
26904136 GCCTATTGGCCT
1 GCCTATTGGCCT
26904148 TATTTTGCCA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (29 bp):
GCCTATTGGCCTAATTAATTTAAAAAAAG
Found at i:26904981 original size:17 final size:16
Alignment explanation
Indices: 26904947--26904980 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26904937 AATTTTAAAA
26904947 TTGTTTAAAAAACTTT
1 TTGTTTAAAAAACTTT
26904963 TTGTTTAAAAAACTTT
1 TTGTTTAAAAAACTTT
26904979 TT
1 TT
26904981 TTAAGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTGTTTAAAAAACTTT
Found at i:26907607 original size:27 final size:27
Alignment explanation
Indices: 26907577--26907740 Score: 222
Period size: 27 Copynumber: 6.1 Consensus size: 27
26907567 AGGCTATCCC
* * *
26907577 TTCATATTTCACCATAAAGGTTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* *
26907604 TTCATATTTCGCCAGAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
26907631 TTCATGA-TTCGCCACAAAGGCTTTTCT
1 TTCAT-ATTTCGCCACAAAGGCTTTTCT
*
26907658 TTCATGTTTCGCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
* *
26907685 TTTATATTTCGCCACAAAGACTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
**
26907712 TTCATATTTTTCCACAAAGGCTTTTCT
1 TTCATATTTCGCCACAAAGGCTTTTCT
26907739 TT
1 TT
26907741 TATGACATGT
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 120 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (27 bp):
TTCATATTTCGCCACAAAGGCTTTTCT
Found at i:26910122 original size:38 final size:38
Alignment explanation
Indices: 26910025--26910134 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 38
26910015 TGGTGTATTA
* *
26910025 TATCGGGCCTTGAGCCTAGCAAGCCTCGTGTCGGTGACT
1 TATCGGG-CTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
*
26910064 TATCGGGCTTTGAGCCTAGCAGGCCTCGTGCCGGTG-TT
1 TATCGGGC-TTGAGCCTAGCAGGCCTCGTGCCGGTGACT
* *
26910102 TATCGGGCTTGATGCTTAGCAGGCTTCGTGCCG
1 TATCGGGCTTGA-GCCTAGCAGGCCTCGTGCCG
26910135 CTTTAACAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
37 4 0.06
38 28 0.44
39 32 0.50
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (38 bp):
TATCGGGCTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
Found at i:26918967 original size:20 final size:21
Alignment explanation
Indices: 26918942--26918980 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26918932 ATACCAAGTG
26918942 AAAATAA-AAGAAAAAGAAGC
1 AAAATAAGAAGAAAAAGAAGC
*
26918962 AAAATAAGATGAAAAAGAA
1 AAAATAAGAAGAAAAAGAA
26918981 AATAGGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (21 bp):
AAAATAAGAAGAAAAAGAAGC
Found at i:26921683 original size:41 final size:41
Alignment explanation
Indices: 26921633--26921808 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
26921623 AATTCATCAT
* *
26921633 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
26921674 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
26921715 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
26921756 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
26921797 ATTCATATCACC
1 ATTCAGATCACC
26921809 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:26921776 original size:82 final size:82
Alignment explanation
Indices: 26921639--26921808 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
26921629 TCATATTCGG
26921639 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
26921704 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
26921721 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
26921786 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
26921803 ATCACC
1 ATCACC
26921809 AATTCCAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:26922044 original size:19 final size:19
Alignment explanation
Indices: 26922020--26922056 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26922010 TTGTTCGATC
*
26922020 CACACATATATATATATTA
1 CACACATATACATATATTA
26922039 CACACATATACATATATT
1 CACACATATACATATATT
26922057 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:26929322 original size:41 final size:41
Alignment explanation
Indices: 26929272--26929447 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
26929262 AATTCATCAT
* *
26929272 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
26929313 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
26929354 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
26929395 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
26929436 ATTCATATCACC
1 ATTCAGATCACC
26929448 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:26929415 original size:82 final size:82
Alignment explanation
Indices: 26929278--26929447 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
26929268 TCATATTCGG
26929278 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
26929343 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
26929360 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
26929425 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
26929442 ATCACC
1 ATCACC
26929448 AATTCCAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:26929683 original size:19 final size:19
Alignment explanation
Indices: 26929659--26929695 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26929649 TTGTTCGATC
*
26929659 CACACATATATATATATTA
1 CACACATATACATATATTA
26929678 CACACATATACATATATT
1 CACACATATACATATATT
26929696 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:26945226 original size:36 final size:32
Alignment explanation
Indices: 26945159--26945223 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
26945149 ATATATTAAG
26945159 CCATCAACGAAGTAGAATTAATTACTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
*
26945191 CCATCAACGAAGTAGAATTAATTATTCTCTTT
1 CCATCAACGAAGTAGAATTAATTACTCTCTTT
26945223 C
1 C
26945224 TTTTTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (32 bp):
CCATCAACGAAGTAGAATTAATTACTCTCTTT
Found at i:26950261 original size:29 final size:29
Alignment explanation
Indices: 26950229--26950286 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
26950219 AACTTATCTA
26950229 ATCTTATAGTTACAATTAAACTAATTTAG
1 ATCTTATAGTTACAATTAAACTAATTTAG
26950258 ATCTTATAGTTACAATTAAACTAATTTAG
1 ATCTTATAGTTACAATTAAACTAATTTAG
26950287 GTGAACCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (29 bp):
ATCTTATAGTTACAATTAAACTAATTTAG
Found at i:26952145 original size:66 final size:68
Alignment explanation
Indices: 26952068--26952199 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
26952058 GCGCTATCCA
*
26952068 AAAAGCGCCGCTAATGCTTGAC-TTTTGCGGC-GTTTCTAGAAAA-CGCCACTAATGTCTCTAAA
1 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTA-AAAAGCGCCACTAATGTCTCTAAA
26952130 GCTC
65 GCTC
* *
26952134 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCATTTTCTAAAAAGTGCCACTAATGTCTCTAAAG
1 AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTAAAAAGCGCCACTAATGTCTCTAAAG
26952199 C
66 C
26952200 GAAAAACAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
66 21 0.35
67 13 0.22
68 26 0.43
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (68 bp):
AAAAGCGCCGCTAATACTTGACTTTTTGCGGCAGTTTCTAAAAAGCGCCACTAATGTCTCTAAAG
CTC
Found at i:26952831 original size:13 final size:13
Alignment explanation
Indices: 26952790--26952831 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
26952780 CCAGTTCTTC
26952790 ATTACTTTTGAGA
1 ATTACTTTTGAGA
* *
26952803 AGTGCTTTTGAGA
1 ATTACTTTTGAGA
*
26952816 ATTACTTTTGAAA
1 ATTACTTTTGAGA
26952829 ATT
1 ATT
26952832 TTTAATGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (13 bp):
ATTACTTTTGAGA
Found at i:26961371 original size:13 final size:13
Alignment explanation
Indices: 26961332--26961371 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
26961322 TTTAAATCAA
*
26961332 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
* *
26961345 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
26961358 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
26961371 A
1 A
26961372 ATGAAGAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:26965889 original size:51 final size:51
Alignment explanation
Indices: 26965809--26965976 Score: 293
Period size: 51 Copynumber: 3.3 Consensus size: 51
26965799 ACTTCTGATC
*
26965809 AGTGACAAGTGATAAGTGGTAG-TTCTAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
* *
26965860 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATCGGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
26965911 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
26965962 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
26965977 ATGTGATCCA
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
51 109 0.98
52 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:26968935 original size:16 final size:17
Alignment explanation
Indices: 26968906--26968940 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26968896 AGCATATTTG
26968906 ATAAAAATAATTTAATC
1 ATAAAAATAATTTAATC
*
26968923 ATAAAAA-ATTTTAATC
1 ATAAAAATAATTTAATC
26968939 AT
1 AT
26968941 CCAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAAAATAATTTAATC
Found at i:26978063 original size:25 final size:25
Alignment explanation
Indices: 26978029--26978077 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
26978019 AGTAACATCA
26978029 CTCAAAGTAAAGAGCATCGTCCTAT
1 CTCAAAGTAAAGAGCATCGTCCTAT
26978054 CTCAAAGTAAAGAGCATCGTCCTA
1 CTCAAAGTAAAGAGCATCGTCCTA
26978078 AGGTGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (25 bp):
CTCAAAGTAAAGAGCATCGTCCTAT
Found at i:26981392 original size:3 final size:3
Alignment explanation
Indices: 26981345--26981380 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
26981335 ATTGATATCT
26981345 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26981381 GACTGTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26983258 original size:21 final size:21
Alignment explanation
Indices: 26983234--26983274 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26983224 GAAACATGAT
*
26983234 AGAAACAAAACAGGGAGAAAA
1 AGAAACAAAACAAGGAGAAAA
* *
26983255 AGAAAGAAAAGAAGGAGAAA
1 AGAAACAAAACAAGGAGAAA
26983275 TTAGGGTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.27, T:0.00
Consensus pattern (21 bp):
AGAAACAAAACAAGGAGAAAA
Found at i:26985641 original size:14 final size:14
Alignment explanation
Indices: 26985622--26985720 Score: 55
Period size: 13 Copynumber: 7.4 Consensus size: 14
26985612 GGGTGTTACA
26985622 ATATAACTATTTCC
1 ATATAACTATTTCC
*
26985636 ATATAAC-AGATT-C
1 ATATAACTA-TTTCC
* *
26985649 ATATAACCA-TTCT
1 ATATAACTATTTCC
* * *
26985662 GTATATCTATTTAC
1 ATATAACTATTTCC
* *
26985676 TTATAACTACTT-C
1 ATATAACTATTTCC
*
26985689 ATATAACCA-TTCC
1 ATATAACTATTTCC
* *
26985702 GTATATCTATTTCC
1 ATATAACTATTTCC
26985716 ATATA
1 ATATA
26985721 GCTGATTCAT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
12 4 0.06
13 30 0.48
14 29 0.46
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATAACTATTTCC
Found at i:26985672 original size:40 final size:40
Alignment explanation
Indices: 26985623--26985733 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
26985613 GGTGTTACAA
* *
26985623 TATAACTATTTCCATATAACAGATTCATATAACCATTCTG
1 TATATCTATTTCCATATAACAGATTCATATAACCATTCCG
* * *
26985663 TATATCTATTTACTTATAACTA-CTTCATATAACCATTCCG
1 TATATCTATTTCCATATAAC-AGATTCATATAACCATTCCG
* *
26985703 TATATCTATTTCCATATAGCTGATTCATATA
1 TATATCTATTTCCATATAACAGATTCATATA
26985734 TTCATTTTCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 58 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (40 bp):
TATATCTATTTCCATATAACAGATTCATATAACCATTCCG
Found at i:26985851 original size:25 final size:25
Alignment explanation
Indices: 26985786--26985851 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
26985776 ACGCGGGAAC
* *
26985786 AATGCTCACACAAACTGCGATTGTA
1 AATGCTCACACAAGCTGCAATTGTA
** *
26985811 AATGCTCACATGAGCTGTAATTGTA
1 AATGCTCACACAAGCTGCAATTGTA
*
26985836 ATTGCTCACACAAGCT
1 AATGCTCACACAAGCT
26985852 ATGATATGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AATGCTCACACAAGCTGCAATTGTA
Found at i:26988302 original size:11 final size:11
Alignment explanation
Indices: 26988286--26988315 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
26988276 TTTATTTTTT
26988286 TATTTTTAAAA
1 TATTTTTAAAA
26988297 TATTTTTAAAA
1 TATTTTTAAAA
26988308 TACTTTTT
1 TA-TTTTT
26988316 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:26988329 original size:28 final size:28
Alignment explanation
Indices: 26988297--26988354 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
26988287 ATTTTTAAAA
26988297 TATTTTTAAAATACTTTTTTTATTTTTT
1 TATTTTTAAAATACTTTTTTTATTTTTT
26988325 TATTTTTAAAATACTTTTTTTATTTTTT
1 TATTTTTAAAATACTTTTTTTATTTTTT
26988353 TA
1 TA
26988355 AAAAATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (28 bp):
TATTTTTAAAATACTTTTTTTATTTTTT
Found at i:26992200 original size:19 final size:20
Alignment explanation
Indices: 26992178--26992215 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26992168 AATTAACTTT
26992178 TTTAATT-ATTTTTAAAGAG
1 TTTAATTGATTTTTAAAGAG
26992197 TTTAATTGATTTTTAAAGA
1 TTTAATTGATTTTTAAAGA
26992216 TTATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTAATTGATTTTTAAAGAG
Found at i:26998182 original size:13 final size:13
Alignment explanation
Indices: 26998164--26998188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26998154 TCTTTCAAAT
26998164 TAAAATTGAATAG
1 TAAAATTGAATAG
26998177 TAAAATTGAATA
1 TAAAATTGAATA
26998189 AAAACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
TAAAATTGAATAG
Found at i:27013178 original size:13 final size:13
Alignment explanation
Indices: 27013162--27013214 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
27013152 AGTTCTTCAT
*
27013162 TGCTTTTGAAAAT
1 TGCTTTTGAAAAG
27013175 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
27013188 TGCTGTAGAAAAG
1 TGCTTTTGAAAAG
27013201 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
27013214 T
1 T
27013215 TTGGTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:27014366 original size:46 final size:46
Alignment explanation
Indices: 27014299--27014431 Score: 212
Period size: 46 Copynumber: 2.9 Consensus size: 46
27014289 CTATAACTTT
* * * *
27014299 GTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACGACTCA
1 GTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAACTCA
27014345 GTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAACTCA
1 GTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAACTCA
* *
27014391 GTATGGTTTTCTTTATTGAAATACCATACCTACATTCCACA
1 GTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACA
27014432 CTTTGTCATG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (46 bp):
GTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAACTCA
Found at i:27016492 original size:21 final size:20
Alignment explanation
Indices: 27016434--27016498 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
27016424 TTTTATAATC
27016434 TATA-ATTTATTTCTATTTTAT
1 TATATATTTATTT-TATTTT-T
**
27016455 TATATATTT-TTGAATTTTT
1 TATATATTTATTTTATTTTT
*
27016474 TATATATTTTATTTTATTTTC
1 TATATA-TTTATTTTATTTTT
27016495 TATA
1 TATA
27016499 AGTTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 7 0.19
20 8 0.22
21 17 0.47
22 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (20 bp):
TATATATTTATTTTATTTTT
Found at i:27016493 original size:19 final size:19
Alignment explanation
Indices: 27016441--27016498 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
27016431 ATCTATAATT
*
27016441 TATTTCTATTTTATTATATA
1 TATTT-TATTTTATTTTATA
*
27016461 T-TTTTGA-ATT-TTTTATA
1 TATTTT-ATTTTATTTTATA
*
27016478 TATTTTATTTTATTTTCTA
1 TATTTTATTTTATTTTATA
27016497 TA
1 TA
27016499 AGTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
17 8 0.27
18 9 0.30
19 12 0.40
20 1 0.03
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTTATTTTATTTTATA
Found at i:27021905 original size:40 final size:40
Alignment explanation
Indices: 27021856--27021935 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
27021846 TAAAATAATT
* * *
27021856 TTGAAATATTTATTATATTCTACTAATTATAAATGAAAAG
1 TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
* * *
27021896 TTGAAATATTTATAATGTTATAATATTTATAAGTGAAAAG
1 TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
27021936 CTAAAAGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (40 bp):
TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
Found at i:27023222 original size:21 final size:20
Alignment explanation
Indices: 27023165--27023228 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
27023155 TTTTATAATC
*
27023165 TATA-ATTTATTTCGATTTTAT
1 TATATATTTA-TTCAATTTT-T
27023186 TATATATTT-TT-AATTTTT
1 TATATATTTATTCAATTTTT
* *
27023204 TATATATTTAATTCTATTTTC
1 TATATATTT-ATTCAATTTTT
27023225 TATA
1 TATA
27023229 AGTTTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 10 0.28
19 5 0.14
20 4 0.11
21 13 0.36
22 4 0.11
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (20 bp):
TATATATTTATTCAATTTTT
Found at i:27023978 original size:25 final size:26
Alignment explanation
Indices: 27023941--27023997 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
27023931 TATTTCAAAA
* *
27023941 TAAAAACATAAAATTTGAT-ATTTTAT
1 TAAAAACATAAAATAT-ATAAATTTAT
*
27023967 TAAAAATA-AAAATATATAAATTTAT
1 TAAAAACATAAAATATATAAATTTAT
27023992 TAAAAA
1 TAAAAA
27023998 ATATGGAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 18 0.67
26 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
TAAAAACATAAAATATATAAATTTAT
Found at i:27025132 original size:16 final size:18
Alignment explanation
Indices: 27025112--27025150 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
27025102 TTGATTAAAT
27025112 TATTTAAT-ATAAAAACA
1 TATTTAATAATAAAAACA
*
27025129 -ATTTAATAATAGAAACA
1 TATTTAATAATAAAAACA
27025146 TATTT
1 TATTT
27025151 TGAAAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
TATTTAATAATAAAAACA
Found at i:27025625 original size:89 final size:87
Alignment explanation
Indices: 27025544--27025736 Score: 242
Period size: 89 Copynumber: 2.2 Consensus size: 87
27025534 AAACTTTTAC
* * * **
27025544 ACTTTTTCAAAAAAAGCAATTAGATCCCTACTTTTTTTTGCACTCAATTGTGAACTTGAACTTTC
1 ACTTTTTCAAAAAAAGCAATTAAACCCCTAC-TTTTTTT-CACTCAATTGAGAACTTGAACTACC
*
27025609 AATATGCATAAAAAAAATGCCCTCAA
64 AAAATGCATAAAAAAAA--CCCTCAA
**** * *
27025635 ACTTAAAAAAAAAAAGCAATTAAACCCCTACTTTTTTTCACTCAATTGAGTATTTGAACTACCAA
1 ACTTTTTCAAAAAAAGCAATTAAACCCCTACTTTTTTTCACTCAATTGAGAACTTGAACTACCAA
27025700 AATGCATAAAAAAAACCCTCAA
66 AATGCATAAAAAAAACCCTCAA
27025722 ACTTTTTCAAAAAAA
1 ACTTTTTCAAAAAAA
27025737 AAAAGCAATT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
87 18 0.21
89 36 0.42
90 7 0.08
91 25 0.29
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (87 bp):
ACTTTTTCAAAAAAAGCAATTAAACCCCTACTTTTTTTCACTCAATTGAGAACTTGAACTACCAA
AATGCATAAAAAAAACCCTCAA
Found at i:27025734 original size:91 final size:89
Alignment explanation
Indices: 27025552--27025761 Score: 255
Period size: 91 Copynumber: 2.3 Consensus size: 89
27025542 ACACTTTTTC
* * * ** *
27025552 AAAAAAAGCAATTAGATCCCTACTTTTTTTTGCACTCAATTGTGAACTTGAACTTTCAATATGCA
1 AAAAAAAGCAATTAAACCCCTAC-TTTTTTTGCACTCAATTGAGAACTTGAACTACCAAAATGCA
27025617 TAAAAAAAATGCCCTCAAACTTAAAA
65 TAAAAAAAA-GCCCTCAAACTTAAAA
* *
27025643 AAAAAAAGCAATTAAACCCCTACTTTTTTT-CACTCAATTGAGTATTTGAACTACCAAAATGCAT
1 AAAAAAAGCAATTAAACCCCTACTTTTTTTGCACTCAATTGAGAACTTGAACTACCAAAATGCAT
27025707 AAAAAAAA-CCCTCAAACTTTTTCAAAA
66 AAAAAAAAGCCCTCAAAC---TT-AAAA
* *
27025734 AAAAAAAGCAATTAAGCCCTTA-TTTTTT
1 AAAAAAAGCAATTAAACCCCTACTTTTTT
27025762 CTTTTTGTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
87 9 0.09
89 36 0.34
90 15 0.14
91 45 0.43
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (89 bp):
AAAAAAAGCAATTAAACCCCTACTTTTTTTGCACTCAATTGAGAACTTGAACTACCAAAATGCAT
AAAAAAAAGCCCTCAAACTTAAAA
Found at i:27025762 original size:89 final size:86
Alignment explanation
Indices: 27025552--27025762 Score: 226
Period size: 89 Copynumber: 2.3 Consensus size: 86
27025542 ACACTTTTTC
* * * ** *
27025552 AAAAAAAGCAATTAGATCCCTACTTTTTTTTGCACTCAATTGTGAACTTGAACTTTCAATATGCA
1 AAAAAAAGCAATTA-AACCCT--TATTTTTT-CACTCAATTGAGAACTTGAACTACCAAAATGCA
27025617 TAAAAAAAATGCCCTCAAACTTAAAA
62 TAAAAAAAA-GCCCTCAAACTTAAAA
* * *
27025643 AAAAAAAGCAATTAAACCCCTACTTTTTTTCACTCAATTGAGTATTTGAACTACCAAAATGCATA
1 AAAAAAAGCAATTAAACCCTTA--TTTTTTCACTCAATTGAGAACTTGAACTACCAAAATGCATA
27025708 AAAAAAA-CCCTCAAACTTTTTCAAAA
64 AAAAAAAGCCCTCAAAC---TT-AAAA
*
27025734 AAAAAAAGCAATTAAGCCCTTATTTTTTC
1 AAAAAAAGCAATTAAACCCTTATTTTTTC
27025763 TTTTTGTACT
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
87 9 0.09
88 1 0.01
89 43 0.42
90 12 0.12
91 38 0.37
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (86 bp):
AAAAAAAGCAATTAAACCCTTATTTTTTCACTCAATTGAGAACTTGAACTACCAAAATGCATAAA
AAAAAGCCCTCAAACTTAAAA
Found at i:27026190 original size:19 final size:19
Alignment explanation
Indices: 27026162--27026217 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
27026152 GTACGTTTAT
27026162 TTTTAT-TTTTTTTACGAA
1 TTTTATATTTTTTTACGAA
*
27026180 TTTTATATTTTTTTAC-AT
1 TTTTATATTTTTTTACGAA
*
27026198 TTTTCATAATTTTCTTACGA
1 TTTT-AT-ATTTTTTTACGA
27026218 CTTTATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 11 0.34
19 11 0.34
20 9 0.28
21 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAA
Found at i:27026284 original size:9 final size:9
Alignment explanation
Indices: 27026270--27026412 Score: 53
Period size: 9 Copynumber: 15.6 Consensus size: 9
27026260 TTGATAATTT
*
27026270 TTTTTATGA
1 TTTTTATAA
27026279 TTTTTATAAA
1 TTTTTAT-AA
* *
27026289 ATTTTACAA
1 TTTTTATAA
27026298 TTCTTTATAAA
1 TT-TTTAT-AA
**
27026309 TTTTTACGA
1 TTTTTATAA
*
27026318 TTTTTATATT
1 TTTTTATA-A
27026328 TTTTTATAA
1 TTTTTATAA
27026337 -TTTTAT--
1 TTTTTATAA
* *
27026343 TTTTAAATATT
1 TTTT-TATA-A
*
27026354 TTTTTATAT
1 TTTTTATAA
27026363 TTTATTA-AA
1 TTT-TTATAA
* *
27026372 ATTTAATAA
1 TTTTTATAA
27026381 TTTTTATAA
1 TTTTTATAA
** *
27026390 TACTTATTTA
1 TTTTTA-TAA
27026400 TTTTTAT-A
1 TTTTTATAA
27026408 TTTTT
1 TTTTT
27026413 TTGCCACATG
Statistics
Matches: 99, Mismatches: 23, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
7 3 0.03
8 16 0.16
9 38 0.38
10 34 0.34
11 8 0.08
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:27026293 original size:20 final size:20
Alignment explanation
Indices: 27026270--27026325 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
27026260 TTGATAATTT
*
27026270 TTTTTATGATTTTTATAAAA
1 TTTTTACGATTTTTATAAAA
*
27026290 -TTTTACAATTCTTTAT-AAA
1 TTTTTACGATT-TTTATAAAA
27026309 TTTTTACGATTTTTATA
1 TTTTTACGATTTTTATA
27026326 TTTTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTACGATTTTTATAAAA
Found at i:27026309 original size:19 final size:19
Alignment explanation
Indices: 27026278--27026340 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
27026268 TTTTTTTATG
*
27026278 ATTTTTATAAAATTTTACA
1 ATTTTTATAAATTTTTACA
*
27026297 ATTCTTTATAAATTTTTACG
1 ATT-TTTATAAATTTTTACA
** *
27026317 ATTTTTATATTTTTTTATA
1 ATTTTTATAAATTTTTACA
27026336 ATTTT
1 ATTTT
27026341 ATTTTTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTATAAATTTTTACA
Found at i:27026402 original size:19 final size:19
Alignment explanation
Indices: 27026338--27026407 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
27026328 TTTTTATAAT
*
27026338 TTTATTTTTA-AATATTTT
1 TTTATTTTTATAATATTTA
*
27026356 TTTATATTTTATTAAAATTTA
1 TTTAT-TTTTA-TAATATTTA
* * *
27026377 ATAATTTTTATAATACTTA
1 TTTATTTTTATAATATTTA
27026396 TTTATTTTTATA
1 TTTATTTTTATA
27026408 TTTTTTTGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.12
19 22 0.54
20 5 0.12
21 9 0.22
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATTTTTATAATATTTA
Found at i:27026896 original size:88 final size:88
Alignment explanation
Indices: 27026732--27026898 Score: 207
Period size: 88 Copynumber: 1.9 Consensus size: 88
27026722 AAAAATTTCA
* * * * * *
27026732 ATGTATTTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGGTTAATTGCTATTTT
1 ATGTATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAAGTAAGAGCTTAATTGATATTTT
27026797 TGAAAAGTTTGAGGGCCTTTTTT
66 TGAAAAGTTTGAGGGCCTTTTTT
*
27026820 ATGTATTTTGAAAGTTCAAATACCCAATTGAGTG-AAAAAAAA-TCAATAGCTTAATT-AT-TTT
1 ATGTATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAAGT-AAGAGCTTAATTGATATTT
27026881 TGTGTAAAAGTTTTGAGG
65 T-TG-AAAAG-TTTGAGG
27026899 ACTTTTTACA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
85 4 0.06
86 4 0.06
87 21 0.31
88 39 0.57
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (88 bp):
ATGTATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAAGTAAGAGCTTAATTGATATTTT
TGAAAAGTTTGAGGGCCTTTTTT
Found at i:27038511 original size:16 final size:16
Alignment explanation
Indices: 27038465--27038513 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
27038455 ATGTATTACA
*
27038465 AATATTTTAAAAAATT
1 AATATTTTATAAAATT
*
27038481 AATTTTTAATATAAAATT
1 AATATTT--TATAAAATT
27038499 AATATTTTATAAAAT
1 AATATTTTATAAAAT
27038514 AGTAACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTTATAAAATT
Found at i:27045547 original size:42 final size:42
Alignment explanation
Indices: 27045477--27045577 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
27045467 CGTGTCCTTA
*** * *
27045477 CCCGTGTAACTCACTGAGTAGGGTCACACGACCATGTGCCAG
1 CCCGTGTAACTCACTGAGTAGCCACACACAACCATATGCCAG
* * *
27045519 CCCGTGTAACTCTCTGAGTTGCCACACACAACCATATGCTAG
1 CCCGTGTAACTCACTGAGTAGCCACACACAACCATATGCCAG
**
27045561 GTCGTGTAACTCACTGA
1 CCCGTGTAACTCACTGA
27045578 CTTAAAACAC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (42 bp):
CCCGTGTAACTCACTGAGTAGCCACACACAACCATATGCCAG
Found at i:27046629 original size:12 final size:12
Alignment explanation
Indices: 27046612--27046641 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27046602 CCTTACACGC
27046612 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
27046624 CCGTGTGCTAGG
1 CCGTGTGCCAGG
27046636 CCGTGT
1 CCGTGT
27046642 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:27048288 original size:16 final size:17
Alignment explanation
Indices: 27048256--27048289 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27048246 CAATTCAGTC
27048256 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
*
27048273 CAAAATT-ATGCTTTTG
1 CAAAATTCATACTTTTG
27048289 C
1 C
27048290 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:27060829 original size:23 final size:23
Alignment explanation
Indices: 27060803--27060846 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
27060793 GCCAATAAAT
27060803 TAAAAAAT-ATTAAATTTTTTTAA
1 TAAAAAATAATT-AATTTTTTTAA
*
27060826 TAAAATATAATTAATTTTTTT
1 TAAAAAATAATTAATTTTTTT
27060847 CCCGGGTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAAAATAATTAATTTTTTTAA
Found at i:27060919 original size:27 final size:27
Alignment explanation
Indices: 27060883--27060965 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
27060873 ATACAAAATA
*
27060883 GTGGTGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* * *
27060910 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
27060937 GTGATGCC-ATGTTGAGAGGCGCCAATG
1 GTGGTGCCTAT-CTGAGAGGCGCCAATG
27060964 GT
1 GT
27060966 CTTATTTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.24
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:27069697 original size:15 final size:16
Alignment explanation
Indices: 27069677--27069713 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27069667 ACAAAATCAA
*
27069677 ATAAAA-TTACATTGT
1 ATAAAAGTTACATTAT
27069692 ATAAAAGTTACATTAT
1 ATAAAAGTTACATTAT
27069708 ATAAAA
1 ATAAAA
27069714 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
ATAAAAGTTACATTAT
Found at i:27069905 original size:60 final size:60
Alignment explanation
Indices: 27069831--27069952 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
27069821 ATACTAAACT
* * * * *
27069831 AAACACAATAATTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
27069891 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
27069951 AA
1 AA
27069953 TAATCCTACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:27069990 original size:28 final size:28
Alignment explanation
Indices: 27069945--27070022 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
27069935 ATTATAAAAT
* *
27069945 AATTACAATAATCCTACAAAAAATACGA
1 AATTACAATAATCATACAAAAAATACAA
* * *
27069973 TATTACAATAGTCATAC-AAAATTACAA
1 AATTACAATAATCATACAAAAAATACAA
*
27070000 AATTACAATATTCATACAAAAAA
1 AATTACAATAATCATACAAAAAA
27070023 ATTACAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (28 bp):
AATTACAATAATCATACAAAAAATACAA
Found at i:27069996 original size:19 final size:19
Alignment explanation
Indices: 27069995--27070193 Score: 109
Period size: 19 Copynumber: 10.4 Consensus size: 19
27069985 CATACAAAAT
27069995 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
27070014 TACAAAAAAATTACAATATTCA
1 TAC---AAAATTACAATATTCA
*
27070036 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
27070055 TAC--AA--A-AA-ATT-A
1 TACAAAATTACAATATTCA
*
27070067 -A-AATATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
27070084 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
27070102 AACTATAAA-TACAAAATTAATT-A
1 TAC-A-AAATTAC--AA-T-ATTCA
* *
27070125 TAAAATAATTATAATATTCA
1 TACAA-AATTACAATATTCA
27070145 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
27070164 TACAAAAAAATTAGAATATTCA
1 TAC---AAAATTACAATATTCA
27070186 TACAAAAT
1 TACAAAAT
27070194 ACTAATCCAA
Statistics
Matches: 139, Mismatches: 15, Indels: 52
0.67 0.07 0.25
Matches are distributed among these distances:
11 1 0.01
12 2 0.01
13 3 0.02
14 3 0.02
15 3 0.02
16 3 0.02
17 6 0.04
18 8 0.06
19 49 0.35
20 12 0.09
21 3 0.02
22 40 0.29
23 4 0.03
25 2 0.01
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:27070085 original size:48 final size:48
Alignment explanation
Indices: 27070018--27070183 Score: 143
Period size: 48 Copynumber: 3.2 Consensus size: 48
27070008 TATTCATACA
*
27070018 AAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATT
1 AAAATATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATT
* **
27070066 AAAATATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTAT
1 AAAATATTACAATATTCATA-AAAA-A-T--T--ACAA-TATTCATACAAAA--AA-T-T
* *
27070126 AAAATAATTATAATATTCATACAAAATTACAATATTCATACAAAAAAATT
1 AAAAT-ATTACAATATTCATAAAAAATTACAATATTCATAC-AAAAAATT
*
27070176 AGAATATT
1 AAAATATT
27070184 CATACAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 27
0.72 0.08 0.21
Matches are distributed among these distances:
48 19 0.20
49 7 0.07
50 6 0.06
51 2 0.02
52 2 0.02
53 8 0.09
54 7 0.07
55 3 0.03
56 12 0.13
58 3 0.03
59 2 0.02
60 9 0.10
61 14 0.15
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.31
Consensus pattern (48 bp):
AAAATATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATT
Found at i:27070114 original size:97 final size:97
Alignment explanation
Indices: 27069938--27070117 Score: 222
Period size: 97 Copynumber: 1.9 Consensus size: 97
27069928 CAAATTAATT
* **
27069938 ATAAAATAATTACAATAATCCTACAAAAAATACGATATTACAATAGTCATACAAAATTACAAAAT
1 ATAAAATAATTACAATAATCATACAAAAAATAAAATATTACAATAGTCATACAAAATTACAAAAT
* * **
27070003 TACAATATTCATACAAAAAAATTACAATATTC
66 CAAAATATAAATACAAAAAAATTACAATATTC
* * *
27070035 ATAAAA-AATTACAATATTCATACAAAAAATTAAAATATTACAATATTCATACAAAA-TAC-TAA
1 ATAAAATAATTACAATAATCATACAAAAAA-TAAAATATTACAATAGTCATACAAAATTACAAAA
27070097 TCCAAAACTATAAATACAAAA
65 T-CAAAA-TATAAATACAAAA
27070118 TTAATTATAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
95 3 0.04
96 27 0.39
97 40 0.57
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (97 bp):
ATAAAATAATTACAATAATCATACAAAAAATAAAATATTACAATAGTCATACAAAATTACAAAAT
CAAAATATAAATACAAAAAAATTACAATATTC
Found at i:27070244 original size:109 final size:105
Alignment explanation
Indices: 27070017--27070214 Score: 287
Period size: 109 Copynumber: 1.9 Consensus size: 105
27070007 ATATTCATAC
*
27070017 AAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTAAAATATTACAATATT
1 AAAATAATTACAATATTCATAAAAAATTACAATATTCATAC---AAA-TAAAATATTACAATATT
*
27070082 CATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTAT
62 CATACAAAATACTAATCCAAAACTATAAACACAAAATTAATTAT
* * *
27070126 AAAATAATTATAATATTCATACAAAATTACAATATTCATAC-AA-AAAA-ATTAGAATATTCATA
1 AAAATAATTACAATATTCATAAAAAATTACAATATTCATACAAATAAAATATTACAATATTCATA
27070188 CAAAATACTAATCC-AAACTATAAACAC
66 CAAAATACTAATCCAAAACTATAAACAC
27070215 TAAACATAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
101 12 0.14
102 28 0.33
103 4 0.05
105 2 0.02
109 38 0.45
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.29
Consensus pattern (105 bp):
AAAATAATTACAATATTCATAAAAAATTACAATATTCATACAAATAAAATATTACAATATTCATA
CAAAATACTAATCCAAAACTATAAACACAAAATTAATTAT
Found at i:27070253 original size:102 final size:103
Alignment explanation
Indices: 27070035--27070253 Score: 243
Period size: 102 Copynumber: 2.1 Consensus size: 103
27070025 TACAATATTC
27070035 ATAA-AAAATTACAATATTCATACAAAAAATTAAAATATTACAATATTCATACAAAATACTAATC
1 ATAACAAAATTACAATATTCATAC---AAA-TAAAATATTACAATATTCATACAAAATACTAATC
* * *
27070099 CAAAACTATAAATACAAAATTAATTATAAAATAATTATAATA
62 CAAAACTATAAACACAAAATAAATAATAAAATAATTATAATA
* *
27070141 TTCATACAAAATTACAATATTCATAC-AA-AAAA-ATTAGAATATTCATACAAAATACTAATCC-
1 AT-A-ACAAAATTACAATATTCATACAAATAAAATATTACAATATTCATACAAAATACTAATCCA
**
27070202 AAACTATAAACACTAAACATAAATAAT-TTATAATTAATAATTA
64 AAACTATAAACAC-AAA-ATAAATAATAAAATAATT-ATAA-TA
27070245 ATAACAAAA
1 ATAACAAAA
27070254 AATTCACAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
101 12 0.12
102 43 0.44
103 16 0.16
104 3 0.03
105 2 0.02
106 1 0.01
107 1 0.01
108 1 0.01
109 19 0.19
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (103 bp):
ATAACAAAATTACAATATTCATACAAATAAAATATTACAATATTCATACAAAATACTAATCCAAA
ACTATAAACACAAAATAAATAATAAAATAATTATAATA
Found at i:27070347 original size:12 final size:13
Alignment explanation
Indices: 27070322--27070373 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
27070312 TATATTACCT
27070322 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
27070335 TTTTTTTTCTTCTC
1 TTTTTTTTCTT-TC
*
27070349 TTCTTCTCCTTTCTCTC
1 TT-TT-T--TTTCTTTC
27070366 TTTTTTTT
1 TTTTTTTT
27070374 TTCTCTCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 14 0.42
14 4 0.12
15 3 0.09
16 3 0.09
17 4 0.12
18 5 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:27070557 original size:27 final size:27
Alignment explanation
Indices: 27070496--27070557 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
27070486 GGCCACCCAT
***
27070496 TGGCGCCTCCCTATGAGGCATTTTTAA
1 TGGCGCCTCCCTATGAGGCACAATTAA
* * *
27070523 TGGTGCCTCTCTATGAGGCACAATTAG
1 TGGCGCCTCCCTATGAGGCACAATTAA
27070550 TGGCGCCT
1 TGGCGCCT
27070558 ACCTGACAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAATTAA
Found at i:27070868 original size:27 final size:27
Alignment explanation
Indices: 27070827--27070888 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
27070817 CTCTCAACAT
* *
27070827 GGCACCACTAATGGCGCCTGTCAGATA
1 GGCACCACCAATGGCGCCTCTCAGATA
* *
27070854 GGCACCACCATTGGCGCCTCTGAGATA
1 GGCACCACCAATGGCGCCTCTCAGATA
*
27070881 GGCGCCAC
1 GGCACCAC
27070889 TACTTTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (27 bp):
GGCACCACCAATGGCGCCTCTCAGATA
Found at i:27071445 original size:17 final size:17
Alignment explanation
Indices: 27071420--27071465 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
27071410 CGAATATAAT
*
27071420 AAATATTTTTATTTTTA
1 AAATATTTTTAATTTTA
*
27071437 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
27071454 AAATACTTTTAA
1 AAATATTTTTAA
27071466 AATACTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:27071482 original size:42 final size:42
Alignment explanation
Indices: 27071431--27071545 Score: 176
Period size: 42 Copynumber: 2.7 Consensus size: 42
27071421 AATATTTTTA
27071431 TTTTTAAAATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAAAATTTTTTTAATTTTAAAATACTTTTAAAATACTT
* *
27071473 TTTTTAAAATTTTTTTAATTTAAAAATATTTTTAAAATACTT
1 TTTTTAAAATTTTTTTAATTTTAAAATACTTTTAAAATACTT
*
27071515 TTTTTAAATTTTTGTTTTAATTTTTAAAATA
1 TTTTTAAA-ATTT-TTTTAA-TTTTAAAATA
27071546 AATTTTTGGT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
42 48 0.73
43 3 0.05
44 6 0.09
45 9 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (42 bp):
TTTTTAAAATTTTTTTAATTTTAAAATACTTTTAAAATACTT
Found at i:27074457 original size:29 final size:30
Alignment explanation
Indices: 27074415--27074489 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
27074405 ACAAACGTAT
**
27074415 GAAAGATTAAAACCTTTTG-TTCAAAAAAA
1 GAAAGATTAAAACCTTTTGAAACAAAAAAA
*
27074444 GAAAGATTAAAACCTTTTGAAAGAAAAAAA
1 GAAAGATTAAAACCTTTTGAAACAAAAAAA
*
27074474 GAAAGATTGAAACCTT
1 GAAAGATTAAAACCTT
27074490 GAATTTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (30 bp):
GAAAGATTAAAACCTTTTGAAACAAAAAAA
Found at i:27075427 original size:27 final size:25
Alignment explanation
Indices: 27075370--27075440 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
27075360 TAAAATTAAT
*
27075370 TTTTTAAAAATTT-AAAAATAAAAAC
1 TTTTT-AAAATTTAAAAAATAAAAAA
*
27075395 TCTTTAAAATTATAAAAAATAAAAAGA
1 TTTTTAAAATT-TAAAAAATAAAAA-A
*
27075422 TTTTTAAAATCTAAAAAAT
1 TTTTTAAAATTTAAAAAAT
27075441 TTCAAAATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 19 0.49
27 9 0.23
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (25 bp):
TTTTTAAAATTTAAAAAATAAAAAA
Found at i:27075562 original size:19 final size:22
Alignment explanation
Indices: 27075538--27075582 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
27075528 ATTGACCCAC
*
27075538 GAACC-GG-TATAAAA-TGGTT
1 GAACCGGGCTATAAAACTAGTT
27075557 GAACCGGGCTATAAAACTAGTT
1 GAACCGGGCTATAAAACTAGTT
27075579 GAAC
1 GAAC
27075583 TAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 2 0.09
21 7 0.32
22 8 0.36
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (22 bp):
GAACCGGGCTATAAAACTAGTT
Found at i:27075607 original size:17 final size:16
Alignment explanation
Indices: 27075584--27075623 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
27075574 TAGTTGAACT
*
27075584 AATTTTTATATTTTTA
1 AATTTTTATAATTTTA
27075600 ATATTTTT-TAATTTTA
1 A-ATTTTTATAATTTTA
27075616 AATTTTTA
1 AATTTTTA
27075624 ATAACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTTATAATTTTA
Found at i:27078898 original size:18 final size:18
Alignment explanation
Indices: 27078866--27078917 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
27078856 TTAAAAAAAC
* *
27078866 TAGAATAATAGTACATAA
1 TAGAATAAAATTACATAA
27078884 TAGAATAAAATTACAT-A
1 TAGAATAAAATTACATAA
* *
27078901 TA-AAAAAAATTAGATAA
1 TAGAATAAAATTACATAA
27078918 ATTGCCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 11 0.38
17 4 0.14
18 14 0.48
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.27
Consensus pattern (18 bp):
TAGAATAAAATTACATAA
Found at i:27078962 original size:9 final size:9
Alignment explanation
Indices: 27078944--27078975 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
27078934 TGCTAACGAT
27078944 AACAATAAC
1 AACAATAAC
*
27078953 AACAACAAC
1 AACAATAAC
27078962 AACAATAAC
1 AACAATAAC
27078971 AACAA
1 AACAA
27078976 ATAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.69, C:0.25, G:0.00, T:0.06
Consensus pattern (9 bp):
AACAATAAC
Found at i:27079983 original size:25 final size:25
Alignment explanation
Indices: 27079930--27079989 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
27079920 AAGAAAATCC
*
27079930 AAAAGAATGAAAGAATAATTACTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
27079955 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
27079980 AAAA-AATGAA
1 AAAAGAATGAA
27079990 TGAGAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 9 0.28
25 23 0.72
ACGTcount: A:0.58, C:0.07, G:0.17, T:0.18
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:27082279 original size:390 final size:390
Alignment explanation
Indices: 27081560--27082347 Score: 1441
Period size: 390 Copynumber: 2.0 Consensus size: 390
27081550 ATTCCAGGGA
*
27081560 ACCTTTTTGCTATCCTTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCTG
1 ACCTTTTTGCTATCATTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCTG
***
27081625 TGCCCCTACCTCGTTAATATTAGGGTGTGAGATGATAATCACAGGATGATTTACTTTCAGAATTC
66 TGCCCCTACCTCGTTAATATTAGGGCCCGAGATGATAATCACAGGATGATTTACTTTCAGAATTC
*
27081690 TCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCTACTTCTTCATAAAACTCTATTTCT
131 TCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTTCT
27081755 TTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCAC
196 TTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCAC
*
27081820 CTCATGATGGAACTCACAATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAACC
261 CTCATGATGGAACTCACAATAATTTTTGGTCCCACCACCTTCCTCTAAATCCAAAATGATTAACC
* *
27081885 CTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTTAGTAATATTTGCCTAG
326 CTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTAG
*
27081950 ACCTTTTTGCTATCATTATATGAGAAATTTGCTGGTTTCTGAATTACGATCTTTGGTGTCACCTG
1 ACCTTTTTGCTATCATTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCTG
*
27082015 TGCCCCTACCTCGTTAATGTTAGGGCCCGAGATGATAATCACAGGATGATTTACTTTCAGAATTC
66 TGCCCCTACCTCGTTAATATTAGGGCCCGAGATGATAATCACAGGATGATTTACTTTCAGAATTC
*
27082080 TCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCGCTTCTTCATAAAACTCTATTTCT
131 TCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTTCT
27082145 TTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCAC
196 TTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCAC
27082210 CTCATGATGGAACTCACAATAATTTTTGGTCCCACCACCTTCCTCTAAATCCAAAATGATTAACC
261 CTCATGATGGAACTCACAATAATTTTTGGTCCCACCACCTTCCTCTAAATCCAAAATGATTAACC
* * *
27082275 CTCTTCTTGCCATCTCTTCCTAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTTCCTTG
326 CTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTAG
27082340 ACTCTTTT
1 AC-CTTTT
27082348 CCCCATATTT
Statistics
Matches: 383, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
390 378 0.99
391 5 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (390 bp):
ACCTTTTTGCTATCATTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCTG
TGCCCCTACCTCGTTAATATTAGGGCCCGAGATGATAATCACAGGATGATTTACTTTCAGAATTC
TCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTTCT
TTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCAC
CTCATGATGGAACTCACAATAATTTTTGGTCCCACCACCTTCCTCTAAATCCAAAATGATTAACC
CTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTAG
Found at i:27083606 original size:18 final size:18
Alignment explanation
Indices: 27083583--27083622 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27083573 ATAATATATG
27083583 ATAATAATAAAAAATAGA
1 ATAATAATAAAAAATAGA
* * *
27083601 ATAATAGTACATAATAGA
1 ATAATAATAAAAAATAGA
27083619 ATAA
1 ATAA
27083623 AATTACATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (18 bp):
ATAATAATAAAAAATAGA
Found at i:27083629 original size:18 final size:18
Alignment explanation
Indices: 27083595--27083647 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
27083585 AATAATAAAA
* *
27083595 AATAGAATAATAGTACAT
1 AATAGAATAAAATTACAT
27083613 AATAGAATAAAATTACAT
1 AATAGAATAAAATTACAT
*
27083631 -ATA-AA-AAAATTAGAT
1 AATAGAATAAAATTACAT
27083646 AA
1 AA
27083648 ATTGCCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 9 0.29
16 3 0.10
17 3 0.10
18 16 0.52
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (18 bp):
AATAGAATAAAATTACAT
Found at i:27083676 original size:6 final size:6
Alignment explanation
Indices: 27083667--27083736 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
27083657 AAAATAATGC
* * * * * *
27083667 TAACGA TAACAA TAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
1 TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA
* * *
27083715 CAACAA CAACAAA TAATAA TAA
1 TAACAA TAAC-AA TAACAA TAA
27083737 GATTAATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
6 55 0.93
7 4 0.07
ACGTcount: A:0.66, C:0.24, G:0.01, T:0.09
Consensus pattern (6 bp):
TAACAA
Found at i:27083688 original size:3 final size:3
Alignment explanation
Indices: 27083674--27083726 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
27083664 TGCTAACGAT
*
27083674 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
27083722 AAC AA
1 AAC AA
27083727 ATAATAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:27089325 original size:18 final size:20
Alignment explanation
Indices: 27089288--27089332 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
27089278 TCTTTTCACG
27089288 TTCTTTTTCTTTGGGTTTTCC
1 TTCTTTTTCTTT-GGTTTTCC
*
27089309 TTCTTTTT-TTT-GTTTTCT
1 TTCTTTTTCTTTGGTTTTCC
27089327 TTCTTT
1 TTCTTT
27089333 GTTTACTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.76
Consensus pattern (20 bp):
TTCTTTTTCTTTGGTTTTCC
Found at i:27090180 original size:24 final size:24
Alignment explanation
Indices: 27090152--27090217 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
27090142 AAGCATGTAT
* *
27090152 TATATTTTTATATTTGTATATCTG
1 TATATCTTTATATTTGTATATCGG
** * *
27090176 TATATCTACACATCTGTATATCGG
1 TATATCTTTATATTTGTATATCGG
27090200 TATATCTTTAT-TTTGTAT
1 TATATCTTTATATTTGTAT
27090218 CTATATATGG
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 6 0.19
24 26 0.81
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TATATCTTTATATTTGTATATCGG
Found at i:27091101 original size:12 final size:12
Alignment explanation
Indices: 27091084--27091110 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27091074 CATACCAAAG
27091084 CATGAATTAGCA
1 CATGAATTAGCA
27091096 CATGAATTAGCA
1 CATGAATTAGCA
27091108 CAT
1 CAT
27091111 TATTAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATGAATTAGCA
Found at i:27095915 original size:22 final size:22
Alignment explanation
Indices: 27095887--27095930 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27095877 CCCACTACGA
* *
27095887 TTAACACTCCGCTCATTAGTGT
1 TTAACACTCCACTCATCAGTGT
27095909 TTAACACTCCACTCATCAGTGT
1 TTAACACTCCACTCATCAGTGT
27095931 CTCCCACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
TTAACACTCCACTCATCAGTGT
Found at i:27100535 original size:45 final size:45
Alignment explanation
Indices: 27100477--27100581 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
27100467 CACCAGTATA
**
27100477 CAGTAATCAGTAACAATAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAA-CAGTAACAATAACAGTATTCAACACACAAAGTGCCAAAC
* ** *
27100523 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCAAAC
1 CAGTAACAGTAACAATAACAGTATTCAACACACAAAGTGCCAAAC
27100568 CAGTAACAGTAACA
1 CAGTAACAGTAACA
27100582 GTAGTCGGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 46 0.90
46 5 0.10
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (45 bp):
CAGTAACAGTAACAATAACAGTATTCAACACACAAAGTGCCAAAC
Found at i:27102012 original size:9 final size:9
Alignment explanation
Indices: 27101968--27102012 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
27101958 CATTTAAATA
27101968 AATAATTAT
1 AATAATTAT
27101977 AATAATTAT
1 AATAATTAT
27101986 AATAATTAT
1 AATAATTAT
27101995 -ATACA-TAT
1 AATA-ATTAT
*
27102003 AATATTTAT
1 AATAATTAT
27102012 A
1 A
27102013 TATATAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Done.