Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 196 of 320
Found at i:65412636 original size:15 final size:15
Alignment explanation
Indices: 65412618--65412649 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65412608 TATTTTACTA
*
65412618 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
65412633 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
65412648 TT
1 TT
65412650 TGCATGCACA
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:65416288 original size:30 final size:30
Alignment explanation
Indices: 65416254--65416314 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
65416244 TTCCCGAGCC
65416254 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
65416284 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
65416314 T
1 T
65416315 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:65432822 original size:36 final size:36
Alignment explanation
Indices: 65432782--65432850 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
65432772 TAGCCCAGCT
* ** *
65432782 ATGGTTTTACACGATGTCTCATATCGATGCCATGTC
1 ATGGTCTTACACGAAATCACATATCGATGCCATGTC
*
65432818 ATGGTCTTACATGAAATCACATATCGATGCCAT
1 ATGGTCTTACACGAAATCACATATCGATGCCAT
65432851 ATCCCAGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (36 bp):
ATGGTCTTACACGAAATCACATATCGATGCCATGTC
Found at i:65433023 original size:24 final size:23
Alignment explanation
Indices: 65432971--65433024 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
65432961 GAACTTGCTC
*
65432971 ATAATATTAATCATATAAATCAT
1 ATAATATTAATCATATAAAACAT
*
65432994 ATAATATTAAATCAATCTAAAACAT
1 ATAATATT-AATC-ATATAAAACAT
65433019 A-AATAT
1 ATAATAT
65433025 AGAATTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 9 0.33
25 10 0.37
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATTAATCATATAAAACAT
Found at i:65437798 original size:5 final size:5
Alignment explanation
Indices: 65437783--65437901 Score: 84
Period size: 5 Copynumber: 22.8 Consensus size: 5
65437773 TATTACACAA
*
65437783 AAAATT AAAAT AAAAT AAAGT -AAAT AACTAAT AAAAT AAAAT AATTAAT
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AA--AAT AAAAT AAAAT AA--AAT
* * * *
65437832 -TAAT AAGAT ATAAT AAAA- AATAAA AAAAT AAAAT AAAAT AAAAT GAAAAT
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT
65437882 AAAATT AAAGA- AAAAT AAAA
1 AAAA-T AAA-AT AAAAT AAAA
65437902 ATTGGGTTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
4 9 0.10
5 59 0.64
6 15 0.16
7 9 0.10
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:65437806 original size:10 final size:11
Alignment explanation
Indices: 65437783--65437903 Score: 53
Period size: 11 Copynumber: 11.0 Consensus size: 11
65437773 TATTACACAA
65437783 AAAATTAAAAT
1 AAAATTAAAAT
*
65437794 AAAA-TAAAGT
1 AAAATTAAAAT
65437804 -AAA-TAACTAAT
1 AAAATTAA--AAT
65437815 AAAA-TAAAAT
1 AAAATTAAAAT
65437825 --AATTAATTAAT
1 AAAATTAA--AAT
*
65437836 AAGATATAATAA-
1 AAAAT-TAA-AAT
*
65437848 AAAATAAAAAAAT
1 AAAAT-TAA-AAT
65437861 AAAA-TAAAAT
1 AAAATTAAAAT
*
65437871 AAAATGAAAAT
1 AAAATTAAAAT
65437882 AAAATTAAAGA-
1 AAAATTAAA-AT
*
65437893 AAAATAAAAAT
1 AAAATTAAAAT
65437904 TGGGTTGTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
8 2 0.02
9 9 0.10
10 16 0.18
11 32 0.37
12 16 0.18
13 9 0.10
14 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:65437815 original size:21 final size:20
Alignment explanation
Indices: 65437791--65437901 Score: 98
Period size: 21 Copynumber: 5.3 Consensus size: 20
65437781 AAAAAATTAA
*
65437791 AATAAAATAAAGTAAATAACT
1 AATAAAATAAAATAAATAA-T
*
65437812 AATAAAATAAAATAATTAATT
1 AATAAAATAAAATAAATAA-T
* * *
65437833 AATAAGATATAATAAAAAAT
1 AATAAAATAAAATAAATAAT
*
65437853 AAAAAAATAAAATAAAATAA-
1 AATAAAATAAAAT-AAATAAT
* *
65437873 AATGAAAATAAAATTAAAGAAA
1 AAT-AAAATAAAA-TAAATAAT
65437895 AATAAAA
1 AATAAAA
65437902 ATTGGGTTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
20 13 0.18
21 56 0.77
22 4 0.05
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAATAAATAAT
Found at i:65437880 original size:16 final size:16
Alignment explanation
Indices: 65437848--65437901 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
65437838 GATATAATAA
65437848 AAAAT-AAA-AAAAT-
1 AAAATAAAATAAAATG
65437861 AAAATAAAATAAAATG
1 AAAATAAAATAAAATG
*
65437877 AAAATAAAATTAAA-G
1 AAAATAAAATAAAATG
65437892 AAAAATAAAA
1 -AAAATAAAA
65437902 ATTGGGTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
13 5 0.14
14 3 0.08
15 6 0.17
16 22 0.61
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAATG
Found at i:65437883 original size:46 final size:44
Alignment explanation
Indices: 65437812--65437902 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 44
65437802 GTAAATAACT
* *
65437812 AATAAAATAAAATAATTAATTAATAAGATATAATA-AAAAATAAAAA
1 AATAAAATAAAATAA-TAATAAATAAAAT-TAA-AGAAAAATAAAAA
65437858 AATAAAATAAAATAA-AATGAAAATAAAATTAAAGAAAAATAAAAA
1 AATAAAATAAAATAATAAT--AAATAAAATTAAAGAAAAATAAAAA
65437903 TTGGGTTGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
44 4 0.10
45 14 0.35
46 22 0.55
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (44 bp):
AATAAAATAAAATAATAATAAATAAAATTAAAGAAAAATAAAAA
Found at i:65443484 original size:53 final size:53
Alignment explanation
Indices: 65443421--65443542 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 53
65443411 TATTCTAGAC
* * * *
65443421 ATGGTATTATAC-AGAAGCACATAATCACATCTCTTCGAAACCATAGCCCAGCT
1 ATGGTCTTATACGA-AAGCACATAACCACATCACATCGAAACCATAGCCCAGCT
* * * * **
65443474 ATGGTCTTATACGAAATCAGATGACCACGTCACATCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGAAAGCACATAACCACATCACATCGAAACCATAGCCCAGCT
65443527 ATGGTCTTATACGAAA
1 ATGGTCTTATACGAAA
65443543 ATCGCATGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 57 0.98
54 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (53 bp):
ATGGTCTTATACGAAAGCACATAACCACATCACATCGAAACCATAGCCCAGCT
Found at i:65443569 original size:54 final size:54
Alignment explanation
Indices: 65443461--65443605 Score: 180
Period size: 53 Copynumber: 2.8 Consensus size: 54
65443451 CTCTTCGAAA
* *
65443461 CCATAGCCCAGCTATGGTCTTATACG-AAATCAG-ATGACCACGTCACATCGATG
1 CCATAGCCCAGCTATGGTCTTATACGAAAATC-GCATGATCACATCACATCGATG
*
65443514 CCATAGCCCAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATTGATG
1 CCATAGCCCAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATCGATG
* *
65443568 CCAT-----AGCTATGGTCTTATACAAAAATCACAT-ATCACAT
1 CCATAGCCCAGCTATGGTCTTATACGAAAATCGCATGATCACAT
65443606 GTTGCCATGG
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
48 7 0.08
49 25 0.29
53 27 0.32
54 26 0.31
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (54 bp):
CCATAGCCCAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATCGATG
Found at i:65443578 original size:49 final size:50
Alignment explanation
Indices: 65443469--65443605 Score: 156
Period size: 54 Copynumber: 2.7 Consensus size: 50
65443459 AACCATAGCC
* *
65443469 CAGCTATGGTCTTATACG-AAATCAG-ATGACCACGTCACATCGATGCCAT
1 CAGCTATGGTCTTATACGAAAATC-GCATGATCACATCACATCGATGCCAT
*
65443518 AGCCCAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATTGATGCCAT
1 ----CAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATCGATGCCAT
* *
65443572 -AGCTATGGTCTTATACAAAAATCACAT-ATCACAT
1 CAGCTATGGTCTTATACGAAAATCGCATGATCACAT
65443606 GTTGCCATGG
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
48 7 0.09
49 25 0.32
53 19 0.25
54 26 0.34
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (50 bp):
CAGCTATGGTCTTATACGAAAATCGCATGATCACATCACATCGATGCCAT
Found at i:65448327 original size:40 final size:40
Alignment explanation
Indices: 65448226--65448446 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
65448216 TATTCGAATG
* * *
65448226 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * * *
65448267 ATATCAGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
65448307 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
65448347 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
65448387 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
65448426 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
65448447 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 95 0.63
41 27 0.18
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:65451322 original size:47 final size:47
Alignment explanation
Indices: 65451187--65451358 Score: 159
Period size: 47 Copynumber: 3.6 Consensus size: 47
65451177 ATAGTAAAAC
* * * *
65451187 TATGGTCTTGCACA-TAGTCACATATTACACACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATA-T-CACACCGATGCCATATCCCAGA
* * * * *
65451236 CATGGTCTTACAC-GGATCACATATCACACTGATGTCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
65451282 TATGGTCTTATACAGTAGCACATATCACGCCGATGCCATATCCCAAA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
65451329 TATGGTCTTATACGGAAGCACATAATCACA
1 TATGGTCTTACACAGTAGCACAT-ATCACA
65451359 TCTCTCTGAT
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
46 28 0.28
47 49 0.49
48 11 0.11
49 12 0.12
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:65451427 original size:54 final size:54
Alignment explanation
Indices: 65451312--65451517 Score: 235
Period size: 53 Copynumber: 3.9 Consensus size: 54
65451302 CATATCACGC
* * * * * * *
65451312 CGATGCCATATCCCAA-ATATGGTCTTATACG-GAAGCACATAATCACATCTC-T
1 CGATGCCATA-GCCAAGCTATGGTCTTATACGAAAATCACATGATCACGTCACAT
65451364 CTGATGCCATAGCCAAGCTATGGTCTTATACGAAAATCACATGATCACGTCACAT
1 C-GATGCCATAGCCAAGCTATGGTCTTATACGAAAATCACATGATCACGTCACAT
* * *
65451419 CGATGCCATAGCCCAGTTAT-GTCTTATACGAAAATCGCATGATCACGTCACAT
1 CGATGCCATAGCCAAGCTATGGTCTTATACGAAAATCACATGATCACGTCACAT
* *
65451472 CGATGCCATAG-CATAACTATGGTCTTATGCGAAAATCACAT-ATCAC
1 CGATGCCATAGCCA-AGCTATGGTCTTATACGAAAATCACATGATCAC
65451518 ATGTTGCCAT
Statistics
Matches: 133, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
52 6 0.05
53 75 0.56
54 50 0.38
55 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (54 bp):
CGATGCCATAGCCAAGCTATGGTCTTATACGAAAATCACATGATCACGTCACAT
Found at i:65454536 original size:27 final size:27
Alignment explanation
Indices: 65454506--65454682 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
65454496 ATATTGAGCC
* *
65454506 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
65454533 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
65454560 CGCACACTTAGTGCTACATAGTCAACC
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
65454587 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65454614 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65454641 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
65454668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65454683 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 118 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65454591 original size:54 final size:54
Alignment explanation
Indices: 65454506--65454682 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 54
65454496 ATATTGAGCC
* * * * *
65454506 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
65454560 CGCACACTTAGTGCTACATAGTCAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
65454614 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
65454668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65454683 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.02
54 98 0.98
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:65462487 original size:27 final size:27
Alignment explanation
Indices: 65462457--65462634 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
65462447 ATATTGAGCC
* *
65462457 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
65462484 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65462511 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
65462539 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
65462566 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
65462593 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
65462620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65462635 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65462596 original size:82 final size:81
Alignment explanation
Indices: 65462478--65462633 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
65462468 TGCTATATAA
* * *
65462478 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
65462543 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65462560 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
65462624 CACTTAGTGC
65 CACTTAGTGC
65462634 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65479038 original size:16 final size:16
Alignment explanation
Indices: 65479017--65479061 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
65479007 ATATATTTTC
* *
65479017 TAAATATAATAATGTA
1 TAAATAAAATAATGAA
*
65479033 TAAATAAAATCATGAA
1 TAAATAAAATAATGAA
*
65479049 TATATAAAATAAT
1 TAAATAAAATAAT
65479062 ACTTGAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAATAAAATAATGAA
Found at i:65479624 original size:91 final size:90
Alignment explanation
Indices: 65479421--65479625 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 90
65479411 TTTAAGGGGT
*
65479421 AAAAAACCCTCAAAC-T-TT--AAAAAAAAACAATTAAGCCCCTCTTTTTTTTTGCACTCAATTG
1 AAAAAACCCTCAAACTTCTTCAAAAAAAAAACAATTAAGCCCCTCTTTTTTTATGCACTCAATTG
* *
65479482 AGCAATTGAATTTTCAAAATGTATC
66 AGCAATTGAACTTTCAAAATGCATC
**
65479507 AAAAAGGCCTCAAACTTCTTCAAAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTAT-CACTCAAT
1 AAAAAACCCTCAAACTTCTTCAAAAAAAAAA-CAATTAAGCCCCT-CTTTTTTTATGCACTCAAT
* *
65479571 TGGGCACTTGAACTTTCAAAATGCATC
64 TGAGCAATTGAACTTTCAAAATGCATC
* * *
65479598 AAAAAAACCCTTAAATTTTTTCAAAAAA
1 -AAAAAACCCTCAAACTTCTTCAAAAAA
65479626 GCAAGTAAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
86 13 0.13
87 1 0.01
88 2 0.02
90 9 0.09
91 44 0.44
92 31 0.31
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (90 bp):
AAAAAACCCTCAAACTTCTTCAAAAAAAAAACAATTAAGCCCCTCTTTTTTTATGCACTCAATTG
AGCAATTGAACTTTCAAAATGCATC
Found at i:65479683 original size:19 final size:21
Alignment explanation
Indices: 65479647--65479692 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
65479637 TTGCCCTTAT
*
65479647 TAAAAATTAGAAAGAAAATTA
1 TAAAAAATAGAAAGAAAATTA
65479668 TAAAAAATA-AAA-AAAATTA
1 TAAAAAATAGAAAGAAAATTA
*
65479687 GAAAAA
1 TAAAAA
65479693 TTATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAAAAATAGAAAGAAAATTA
Found at i:65480027 original size:28 final size:29
Alignment explanation
Indices: 65479995--65480078 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 29
65479985 TCTTACGACT
65479995 TTATAAAATTTTATAATTTTTTATATTTC
1 TTATAAAATTTTATAATTTTTTATATTTC
* * *
65480024 -TAT-ATATTTTATGATTTTTTACGA-TTC
1 TTATAAAATTTTATAATTTTTTA-TATTTC
* *
65480051 TTATAAAAGTTTACAATTTTTTATATTT
1 TTATAAAATTTTATAATTTTTTATATTT
65480079 TTTACGATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
27 19 0.44
28 8 0.19
29 16 0.37
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (29 bp):
TTATAAAATTTTATAATTTTTTATATTTC
Found at i:65480082 original size:19 final size:19
Alignment explanation
Indices: 65480060--65480096 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65480050 CTTATAAAAG
*
65480060 TTTACAATTTTTTATATTT
1 TTTACAATTTTTAATATTT
*
65480079 TTTACGATTTTTAATATT
1 TTTACAATTTTTAATATT
65480097 GGAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTACAATTTTTAATATTT
Found at i:65480089 original size:56 final size:55
Alignment explanation
Indices: 65479957--65480093 Score: 161
Period size: 56 Copynumber: 2.5 Consensus size: 55
65479947 ATTTACGAAC
* *
65479957 TTTATATTTCTTTACATTTGGTATAATTTCTTACGACTTTATAAAATTTTATAATTT
1 TTTATATTTCTTTACATTT--TATAATTTCTTACGACTTTATAAAAGTTTACAATTT
* * * * *
65480014 TTTATATTTCTATATATTTTATGATTTTTTACGATTCTTATAAAAGTTTACAATTT
1 TTTATATTTCTTTACATTTTATAATTTCTTACGACT-TTATAAAAGTTTACAATTT
65480070 TTTATATTT-TTTACGATTTT-TAAT
1 TTTATATTTCTTTAC-ATTTTATAAT
65480094 ATTGGAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 20 0.29
56 31 0.46
57 17 0.25
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.58
Consensus pattern (55 bp):
TTTATATTTCTTTACATTTTATAATTTCTTACGACTTTATAAAAGTTTACAATTT
Found at i:65480375 original size:89 final size:90
Alignment explanation
Indices: 65480191--65480381 Score: 280
Period size: 89 Copynumber: 2.1 Consensus size: 90
65480181 GGCTTAAATT
* * *
65480191 TTTTTTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC
1 TTTTTTTG-AAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
* *
65480256 AAAAAAAAACGTAGGGGCTTAATTGC
65 AAAAAAAAACGAAGGGGCTTAATTAC
*
65480282 --TTTTTGAAAAGCTTTGAGGGCCTTTTTGATGCATTTTGAAGGTTCAAGTACCCAAATGAGTGC
1 TTTTTTTGAAAAG-TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
*
65480345 AAAAAAATA-GAAGGGGCTTAATTAC
65 AAAAAAAAACGAAGGGGCTTAATTAC
65480370 TTTTTTTGAAAA
1 TTTTTTTGAAAA
65480382 AACTTGACGA
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
88 19 0.21
89 61 0.68
90 10 0.11
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (90 bp):
TTTTTTTGAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA
AAAAAAAACGAAGGGGCTTAATTAC
Found at i:65484435 original size:27 final size:27
Alignment explanation
Indices: 65484397--65484452 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
65484387 TCTAAATGTA
65484397 GACTAAGATTTTGAAAAGGAGTTTAGG
1 GACTAAGATTTTGAAAAGGAGTTTAGG
65484424 GACTAAGATTTTGAAAAGGAGTTTAGG
1 GACTAAGATTTTGAAAAGGAGTTTAGG
65484451 GA
1 GA
65484453 TTCATAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.30, T:0.29
Consensus pattern (27 bp):
GACTAAGATTTTGAAAAGGAGTTTAGG
Found at i:65493262 original size:40 final size:40
Alignment explanation
Indices: 65493209--65493481 Score: 440
Period size: 40 Copynumber: 6.8 Consensus size: 40
65493199 CAGCCGCAAA
* * * *
65493209 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
65493249 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65493289 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65493329 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
65493369 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65493409 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
65493449 CATAATTGCCTTCGGGTC-TAGCCCGGATATATC
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATC
65493482 CAATGTTCAT
Statistics
Matches: 215, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 14 0.07
40 201 0.93
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:65501994 original size:40 final size:40
Alignment explanation
Indices: 65501941--65502213 Score: 429
Period size: 40 Copynumber: 6.8 Consensus size: 40
65501931 CAGCCGCAAA
* * * *
65501941 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
65501981 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65502021 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65502061 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
65502101 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
65502141 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
65502181 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
65502214 TCCAATGTTC
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:65502047 original size:80 final size:80
Alignment explanation
Indices: 65501941--65502213 Score: 474
Period size: 80 Copynumber: 3.4 Consensus size: 80
65501931 CAGCCGCAAA
* * * *
65501941 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
* * *
65502006 GGATATATCATCCCG
66 GGATATGTCAACTCG
*
65502021 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
65502086 GGATATGTCAACTCG
66 GGATATGTCAACTCG
65502101 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
1 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
65502166 GGATATGTCAACTCG
66 GGATATGTCAACTCG
65502181 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCATAACCCGGATATAT
65502214 TCCAATGTTC
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 184 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (80 bp):
CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCC
GGATATGTCAACTCG
Found at i:65507401 original size:27 final size:27
Alignment explanation
Indices: 65507371--65507479 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
65507361 ATAGTCATCA
* *
65507371 TACCATAAAAGGGTAAAAGAATCATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* * *
65507398 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* * * * *
65507425 TACCTCATAAGGGCAAAATAGTTATTT
1 TACCACAAAAGGGCAAAAGAATCATTT
* *
65507452 TACCCCATAAA-GGCAAAATAATCATTT
1 TACCACA-AAAGGGCAAAAGAATCATTT
65507479 T
1 T
65507480 GTCAATTTAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
27 68 0.97
28 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCACAAAAGGGCAAAAGAATCATTT
Found at i:65507416 original size:54 final size:54
Alignment explanation
Indices: 65507347--65507476 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
65507337 AAACATACAT
* * *
65507347 CACATAGGGGTAAAATAGTCATCATACCAT-AAAAGGGTAAAAGAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATCATACC-TCAAAAGGGCAAAAGAATCATTTTAC
** * * * *
65507401 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAATAGTCATCATACCTCAAAAGGGCAAAAGAATCATTTTAC
* * *
65507455 CCCATAAAGGCAAAATAATCAT
1 CACATAAGGGCAAAATAGTCAT
65507477 TTTGTCAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 62 0.98
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAATAGTCATCATACCTCAAAAGGGCAAAAGAATCATTTTAC
Found at i:65515290 original size:48 final size:48
Alignment explanation
Indices: 65515238--65515368 Score: 142
Period size: 48 Copynumber: 2.7 Consensus size: 48
65515228 CTCTCACACT
* *
65515238 AAGTGCTCAA-ATCATGCCCCGAAGCCAACTCAAT-ATATCTCATACCCG
1 AAGTGCT-AATATCATGCCCCGAAGCCAAATCAATGA-AGCTCATACCCG
* *
65515286 AAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAAGCTCATACCCG
1 AAGTGCTAATATCATGCCCCGAAGCCAAATCAATGAAGCTCATACCCG
* ** *
65515334 AAGTGTTGTTATCATAG-ACCGAAGCCAAATCAATG
1 AAGTGCTAATATCAT-GCCCCGAAGCCAAATCAATG
65515369 TATCCCCTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.03
48 67 0.94
49 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (48 bp):
AAGTGCTAATATCATGCCCCGAAGCCAAATCAATGAAGCTCATACCCG
Found at i:65518147 original size:18 final size:18
Alignment explanation
Indices: 65518100--65518140 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
65518090 AGATGGATTG
*
65518100 ATATGAT-ATATATATGT
1 ATATGATAAGATATATGT
65518117 ATATGATAAGATATATGT
1 ATATGATAAGATATATGT
65518135 ATATGA
1 ATATGA
65518141 AGTGATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATATGATAAGATATATGT
Found at i:65522243 original size:48 final size:48
Alignment explanation
Indices: 65522181--65522308 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
65522171 CTCGCACACT
* * * *
65522181 AAGTGCTCAA-ATCATGGCCCGAAGCCAACTCAATA-TATCTCGTACCTG
1 AAGTGCT-AATATCATGGCCCGAAGCCAAATCAA-AGAAGCCCGTACCTG
65522229 AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
** *
65522277 AAGTG-TTGTATCATGGACCGAAGCCAAATCAA
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAA
65522309 CGTATCCCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
47 27 0.38
48 44 0.62
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGAAGCCCGTACCTG
Found at i:65529480 original size:40 final size:40
Alignment explanation
Indices: 65529414--65529489 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
65529404 TCAAGCACAA
* ** **
65529414 ATAAAACACAAAATTAAAAATTAAAAACTATTAAAAATCT
1 ATAAAACACAAAATGAAAAAGAAAAAAAAATTAAAAATCT
65529454 ATAAAA-ACAAAATGAAATAAGAAAAAAAAATTAAAA
1 ATAAAACACAAAATGAAA-AAGAAAAAAAAATTAAAA
65529490 TTTTCTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 10 0.33
40 20 0.67
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.20
Consensus pattern (40 bp):
ATAAAACACAAAATGAAAAAGAAAAAAAAATTAAAAATCT
Found at i:65535835 original size:16 final size:16
Alignment explanation
Indices: 65535811--65535845 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65535801 TTAAGAAGCA
*
65535811 AAAAGTTGTTGGAACC
1 AAAAGTTGTTGAAACC
*
65535827 AAAATTTGTTGAAACC
1 AAAAGTTGTTGAAACC
65535843 AAA
1 AAA
65535846 TGTGAGACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (16 bp):
AAAAGTTGTTGAAACC
Found at i:65536830 original size:30 final size:30
Alignment explanation
Indices: 65536796--65536853 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
65536786 GAAGATGAAA
*
65536796 GAAATATGGTTGAATTGGAACTCGAACTAG
1 GAAATATGGTTAAATTGGAACTCGAACTAG
65536826 GAAATATGGTTAAATTGGAACTCGAACT
1 GAAATATGGTTAAATTGGAACTCGAACT
65536854 GAAGGGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (30 bp):
GAAATATGGTTAAATTGGAACTCGAACTAG
Found at i:65538510 original size:42 final size:42
Alignment explanation
Indices: 65538451--65538579 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
65538441 TTAGGGTTAC
*
65538451 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
* * * *
65538493 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGGTA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATTGGTA
* * ** **
65538536 CGAAATTACAAGTAAGACCATATCTAAGATATGGCATTGGTA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
65538578 TG
1 TG
65538580 GTACTGTGTG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 39 0.56
43 31 0.44
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGGTA
Found at i:65540250 original size:27 final size:27
Alignment explanation
Indices: 65540220--65540397 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65540210 ATATTGAGTC
* * * *
65540220 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65540247 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65540274 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65540302 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65540329 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65540356 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65540383 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65540398 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65540359 original size:82 final size:81
Alignment explanation
Indices: 65540241--65540396 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65540231 TGCTATATAA
* *
65540241 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65540306 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65540323 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65540387 CACTTAGTGC
65 CACTTAGTGC
65540397 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65548354 original size:27 final size:27
Alignment explanation
Indices: 65548324--65548501 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65548314 ATATTGAGTC
* * * *
65548324 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65548351 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65548378 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65548406 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65548433 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65548460 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65548487 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65548502 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65548463 original size:82 final size:81
Alignment explanation
Indices: 65548345--65548500 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65548335 TGCTATATAA
* *
65548345 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65548410 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65548427 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65548491 CACTTAGTGC
65 CACTTAGTGC
65548501 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65551030 original size:17 final size:17
Alignment explanation
Indices: 65551008--65551066 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
65550998 ATGCTTGGTG
65551008 AATGTGAATTGTTTGGA
1 AATGTGAATTGTTTGGA
*
65551025 AATGTG-ATT-TATGGCA
1 AATGTGAATTGTTTGG-A
* *
65551041 TGAATGTGAAATGTTTGGT
1 --AATGTGAATTGTTTGGA
65551060 AATGTGA
1 AATGTGA
65551067 TCTATTGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 13 0.39
18 6 0.18
19 2 0.06
20 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.39
Consensus pattern (17 bp):
AATGTGAATTGTTTGGA
Found at i:65552825 original size:40 final size:40
Alignment explanation
Indices: 65552770--65552917 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
65552760 TGAAAAAAAA
* * *
65552770 TATAACTGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
65552810 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
65552850 TATAACCGGGTTAAGTTCTGAAGTCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
65552890 TATAACCGGGTTAAGTCCCGAAGGCATT
1 TATAACCGGGTTAAGTCCCGAAGGCATT
65552918 TGTACTGGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:65558591 original size:637 final size:635
Alignment explanation
Indices: 65557357--65558619 Score: 1403
Period size: 637 Copynumber: 2.0 Consensus size: 635
65557347 CCCCCATACT
*
65557357 CGAGACCGTCGCCGGAGTCGAGCACGAGGTGTTAACGGACTTAATTCATTAATTAAACAGCTCAA
1 CGAGACCGTCGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCATTAATT----A--TCAA
* * *
65557422 ACAATTTATTTTAGAATTTCCAGACAAGCTAGCTAACTGCGTCACAGTCGCTAAAAAATCCATAT
60 ACAATTCATTTTACAATTTCCAGACAAGCTAGCTAACTGCGTCACAGTCCCTAAAAAATCCATAT
** * *
65557487 CTCAAGTTATGAAACCCAAAATCCAATTCCGTAAATTTACCCTGAAACTACACTCATATATATAC
125 CTCAAGTTACAAAACCCAAAAACCAATTCCGTAAATTTACCCCGAAACTACACTCATATATATAC
65557552 TTACTAATTTTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTTAAAGCTTCCC
190 TTACTAATTTTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTTAAAGCTTCCC
* * * ** * *
65557617 CTGTTTCAGGGTTCGGCTACTCTGCCCCCTTTGTATTACGAATCAGATATCCCCTTGTATAGAAT
255 CTGTTACAGGGTTCGACTACTCTG-CACCTTTACATTACGAATCAGATATCCCCTTGTACAGAAC
* * * * * * *
65557682 TTCAATGAATATTCCGTTTGTTTTTAATAAAACTAGACTCAATAATGATTTTATACATTAAGGTA
319 TTCAATGAATATGCCGTTTATTTCTAATAAAACTAGACTCAATAAGGAATCTATACATTAAGGCA
* * * * ** * *
65557747 AAACTCCTAATTGTTTTTCTACAATTTATGGTGAATTTTTAAAGTCAGAACAGGAGATTCAGAGA
384 AAACTCCTAATTATTCTGCTACAATTTATAGTGAATTTCCAAAGTCAGAACAGGAGATCCAGAAA
* * * * *
65557812 TTGCTCTGCCCTGTTTCACCAAAACTTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGT
449 TCGCTCTGCCCTGTTTCACCAAAACTTAAACATCCCATAAAATACAACTCATTGACCTGTTTCGT
* * *
65557877 TTCTTCCATATGAAAATAGACTCATCAAGATTCAATTCCATAACTTTTTCATCATTTAATTCCAT
514 TTCTTCCATATAAAAATAGAATCATCAAGATTCAATTACATAACTTTTTCATCATTTAATTCCAT
* *
65557942 TTATAATATTTTTAGTGATTTTTCAAATTCACGGCACTGCTTGTAACACCCTGTACC
579 TTATAATATTTTTAGTGATATTTCAAATTCACAGCACTGCTTGTAACACCCTGTACC
* * *
65557999 CGAGACCGTTGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCACTT-ATT-T-ATACAGT
1 CGAGACCGTCGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCA-TTAATTATCAAACAAT
* * *
65558061 TCATTTTACCATTTCCAGACAAGCTGGCTAACTGCGTCACTA-TCACCTTAAAAAT-CATATCTC
65 TCATTTTACAATTTCCAGACAAGCTAGCTAACTGCGTCAC-AGTC-CCTAAAAAATCCATATCTC
* * * ** * *
65558124 GAGTTCCAAAACTCAAAAACTGATTCTGTAAATTTTCCCCGAAACTAGC-CTCATATATCCAT-C
128 AAGTTACAAAACCCAAAAACCAATTCCGTAAATTTACCCCGAAACTA-CACTCATATAT--ATAC
* *
65558187 -TAC-AAGTTTTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTTAATG-TC
190 TTACTAA---TTTTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTTAAAGCT-
* * *
65558249 TCCCCTGTTACAGGGTTCGACTACTCTG-ACCTTCATACATTACGACTTAGATATCTTCC-TGTA
251 TCCCCTGTTACAGGGTTCGACTACTCTGCACCTT--TACATTACGAATCAGATATC-CCCTTGTA
* * *
65558312 CAGAGCTTCAAT-ACTTATGCCGTTTATTTCTAA-AGAAACTAGACTCGAA-AAGGAATCTGTAC
313 CAGAACTTCAATGA-ATATGCCGTTTATTTCTAATA-AAACTAGACTC-AATAAGGAATCTATAC
* ** * * * * *
65558374 ATATAGGGCATGACTTCTAATTATCTCTGGT-TAATTTATAGTTAATTTCCAAAGTTAGAACAGG
375 AT-TAAGGCAAAACTCCTAATTAT-TCTGCTACAATTTATAGTGAATTTCCAAAGTCAGAACAGG
* * * * **
65558438 GGATCCAGAAATCGCTCTGCCTTGTTTCACGAAAACTTAAACATCCCTTAAAATACGGCTCATAT
438 AGATCCAGAAATCGCTCTGCCCTGTTTCACCAAAACTTAAACATCCCATAAAATACAACTCAT-T
* * * *
65558503 GATC-GTTTCGTTTCTTCCATATAAAAATAGAATCATCAAGGTTCGATTACATAA-TTTATTC-G
502 GACCTGTTTCGTTTCTTCCATATAAAAATAGAATCATCAAGATTCAATTACATAACTTT-TTCAT
* * *
65558565 CTATTTAATTCCATTTCTACTATTTTTAGTGATATTTCAAATTCACATCACTGCT
566 C-ATTTAATTCCATTTATAATATTTTTAGTGATATTTCAAATTCACAGCACTGCT
65558620 GCTGTCAGCA
Statistics
Matches: 518, Mismatches: 82, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
633 2 0.00
634 103 0.20
635 15 0.03
636 148 0.29
637 193 0.37
638 6 0.01
642 49 0.09
643 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (635 bp):
CGAGACCGTCGCCGGAGTCGAACACGAGGTGTTAACGGACTTAATTCATTAATTATCAAACAATT
CATTTTACAATTTCCAGACAAGCTAGCTAACTGCGTCACAGTCCCTAAAAAATCCATATCTCAAG
TTACAAAACCCAAAAACCAATTCCGTAAATTTACCCCGAAACTACACTCATATATATACTTACTA
ATTTTTTTCTAGAATTTTTGGTCGGACCAATTAGTACAGTTTATTAGTTAAAGCTTCCCCTGTTA
CAGGGTTCGACTACTCTGCACCTTTACATTACGAATCAGATATCCCCTTGTACAGAACTTCAATG
AATATGCCGTTTATTTCTAATAAAACTAGACTCAATAAGGAATCTATACATTAAGGCAAAACTCC
TAATTATTCTGCTACAATTTATAGTGAATTTCCAAAGTCAGAACAGGAGATCCAGAAATCGCTCT
GCCCTGTTTCACCAAAACTTAAACATCCCATAAAATACAACTCATTGACCTGTTTCGTTTCTTCC
ATATAAAAATAGAATCATCAAGATTCAATTACATAACTTTTTCATCATTTAATTCCATTTATAAT
ATTTTTAGTGATATTTCAAATTCACAGCACTGCTTGTAACACCCTGTACC
Found at i:65559400 original size:40 final size:41
Alignment explanation
Indices: 65559333--65559504 Score: 185
Period size: 40 Copynumber: 4.3 Consensus size: 41
65559323 ACCCAAGCAT
65559333 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAAGCAACTCGCACAAATGC
**
65559372 CTTATGGTCTTAGCCCGGATA-AAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
* * * *
65559412 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAAGGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
* * ** *
65559452 CTTCGGGACATAGCCCAAATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
*
65559492 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
65559505 TCTGGTTATC
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 91 0.84
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
Found at i:65577522 original size:40 final size:40
Alignment explanation
Indices: 65577475--65577659 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
65577465 CTTGCACAAG
* *
65577475 GCCTTCGGGTCTTAGCTCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
65577515 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
65577555 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
65577595 GCCTTCGGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
65577636 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
65577660 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:65577570 original size:80 final size:79
Alignment explanation
Indices: 65577439--65577659 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
65577429 CTCAAGTAAT
* ** * * *
65577439 CTTCGGGATTTAGCCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCTCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
65577503 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
65577517 CTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
* *
65577582 AACTCGCACGAATGC
65 AACTAGCACAAATGC
* * * *
65577597 CTTC-GGATCTTAGTCCAGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTTA-CTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
65577660 CATTCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 12 0.10
79 20 0.17
80 56 0.46
81 33 0.27
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTTACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:65580997 original size:27 final size:27
Alignment explanation
Indices: 65580956--65581009 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65580946 TGTCATGTGA
* *
65580956 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
65580983 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
65581010 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:65581333 original size:49 final size:50
Alignment explanation
Indices: 65581255--65581487 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 50
65581245 ATCTATTGTG
65581255 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
65581305 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * ** * * * * **
65581355 CGATCACGCGTGTAGTACTATGTGCAGGCTATTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
65581405 AGGTCACGTATGTAGTACTAAGTGTAGGCTACTACATGTACAGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
65581455 -GGTCCCATGTGTAGTGCTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
65581488 TGCGTACTAG
Statistics
Matches: 147, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 71 0.48
50 41 0.28
51 35 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:65581527 original size:150 final size:150
Alignment explanation
Indices: 65581255--65581533 Score: 384
Period size: 150 Copynumber: 1.9 Consensus size: 150
65581245 ATCTATTGTG
* * * *
65581255 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
* ** * *
65581320 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGCGTGTAGTACTATGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
65581385 ATTACGTGTATCAGATGGTT
131 ATTACGTGTATCAGATGGTT
* *
65581405 AGGTCACGTATGTAGTACTAAGTGTAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
1 AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
* * *
65581470 GCTAAGTGCAGGCTACTATGCGTACTAGATAGCCTT-G-TCTACAAGTGT-GAAAATATGTGCAG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGTGTAG-AAATATGTGCAG
65581532 GC
128 GC
65581534 AACTAAGTAT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
149 3 0.03
150 106 0.95
151 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACATATGTAGTACTAAGTGCAGGCTACTACATGTACAGGATAATTGGTCCCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATATGTGCAGGCT
ATTACGTGTATCAGATGGTT
Found at i:65585115 original size:19 final size:19
Alignment explanation
Indices: 65585091--65585129 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
65585081 CGGGTTACTT
65585091 AGAAAATATCTTCTCAAAA
1 AGAAAATATCTTCTCAAAA
*
65585110 AGAAAATATCTTCTTAAAA
1 AGAAAATATCTTCTCAAAA
65585129 A
1 A
65585130 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (19 bp):
AGAAAATATCTTCTCAAAA
Found at i:65589423 original size:39 final size:40
Alignment explanation
Indices: 65589328--65589550 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
65589318 TTGAATGCTG
*
65589328 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
65589366 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
65589407 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
65589446 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
65589485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
65589524 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
65589551 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:65589522 original size:79 final size:81
Alignment explanation
Indices: 65589328--65589550 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
65589318 TTGAATGCTG
* * * *
65589328 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65589390 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
65589407 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TTCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65589468 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
65589485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
65589549 TG
66 TG
65589551 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 53 0.42
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:65589572 original size:79 final size:79
Alignment explanation
Indices: 65589328--65589583 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
65589318 TTGAATGCTG
* * * *
65589328 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
65589389 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* **
65589407 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
65589471 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
65589485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
65589548 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
65589565 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65589584 TACGTGATTT
Statistics
Matches: 151, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 67 0.44
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:65591585 original size:27 final size:27
Alignment explanation
Indices: 65591555--65591732 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65591545 ATATTGAGTC
* * * *
65591555 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65591582 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65591609 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65591637 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65591664 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65591691 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65591718 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65591733 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65591694 original size:82 final size:81
Alignment explanation
Indices: 65591576--65591731 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65591566 TGCTATATAA
* *
65591576 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65591641 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65591658 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65591722 CACTTAGTGC
65 CACTTAGTGC
65591732 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65592229 original size:12 final size:12
Alignment explanation
Indices: 65592212--65592237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65592202 ATGGCATACT
65592212 TATGTATATATA
1 TATGTATATATA
65592224 TATGTATATATA
1 TATGTATATATA
65592236 TA
1 TA
65592238 CTTCGGAATG
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:65600912 original size:39 final size:40
Alignment explanation
Indices: 65600817--65601039 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
65600807 TTGAATGCTG
*
65600817 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
65600855 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
65600896 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
65600935 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
65600974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
65601013 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
65601040 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:65601003 original size:79 final size:81
Alignment explanation
Indices: 65600817--65601039 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
65600807 TTGAATGCTG
* * *
65600817 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65600879 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
65600896 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
65600957 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
65600974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
65601038 TG
66 TG
65601040 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:65601061 original size:79 final size:79
Alignment explanation
Indices: 65600817--65601072 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
65600807 TTGAATGCTG
* * * *
65600817 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
65600878 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
65600896 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
65600960 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
65600974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
65601037 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
65601054 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65601073 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:65606684 original size:27 final size:27
Alignment explanation
Indices: 65606654--65606809 Score: 190
Period size: 27 Copynumber: 5.9 Consensus size: 27
65606644 ATTACCAAAG
*
65606654 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
65606681 TACCCTCGATTTATA-AATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
65606707 TACCCTTGATTTATAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACTGTTT
* *
65606734 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
65606761 TACCCTTGATTTACAGAATTATTG-TT
1 TACCCTCGATTTACAGAATTACTGTTT
*
65606787 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
65606810 AAAATACCCT
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 46 0.42
27 64 0.58
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:65606699 original size:53 final size:53
Alignment explanation
Indices: 65606627--65606835 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 53
65606617 ATTATTGAAA
* * **
65606627 TACCCTCGACTTGTA-AAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGA-TT-TATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
** * * *
65606681 TACCCTCGATTTATAAATTACTATTTTACCCTTGATTTATAGAATTACCGTTC
1 TACCCTCGATTTATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
** *
65606734 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTATTG-TT
1 TACCCTCGATTTATA-AATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
* * * *
65606787 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTA-TAAATTACTAAATTACCCTTGATTTACAGAATTAC
65606836 CAAAATACCC
Statistics
Matches: 132, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 88 0.67
54 42 0.32
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTATAAATTACTAAATTACCCTTGATTTACAGAATTACTGTTT
Found at i:65606818 original size:80 final size:80
Alignment explanation
Indices: 65606627--65606835 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 80
65606617 ATTATTGAAA
* * * * *
65606627 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
65606692 TATAAATTACTATTT
66 TACAAATTACTATTT
* * **** * *
65606707 TACCCTTGATTTATAGAATTACCGTTCTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
65606772 TACAGAATTA-T-TGTT
66 TACA-AATTACTAT-TT
* * * * *
65606787 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTAC
65606836 CAAAATACCC
Statistics
Matches: 102, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
79 1 0.01
80 96 0.94
81 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (80 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TACAAATTACTATTT
Found at i:65606826 original size:27 final size:27
Alignment explanation
Indices: 65606787--65607119 Score: 169
Period size: 27 Copynumber: 12.3 Consensus size: 27
65606777 AATTATTGTT
* * *
65606787 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
65606814 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
65606841 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * * * *
65606868 TACCC-TAGTCTATAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
65606894 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** *
65606921 TATCCC-TAGTTTGTAAAGTTACCAAAA
1 TA-CCCTTGGTTTACAAAATTACCAAAA
* *** *
65606948 TACCAC-TAGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
* ***
65606975 TACACTCAATTT-CTAAAATTACCAAAA
1 TACCCTTGGTTTAC-AAAATTACCAAAA
* **
65607002 TACCCCTAATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* * *
65607029 CACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* *
65607058 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
65607085 TACCCTCGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
65607112 CACCCTTG
1 TACCCTTG
65607120 TAGGGTGAAA
Statistics
Matches: 246, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
26 26 0.11
27 189 0.77
28 12 0.05
29 19 0.08
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:65606872 original size:107 final size:107
Alignment explanation
Indices: 65606624--65606873 Score: 254
Period size: 107 Copynumber: 2.3 Consensus size: 107
65606614 CATATTATTG
* * *
65606624 AAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCTC
1 AAATACCCTCGATC-AGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTC
* *** * * *
65606688 GATTTATAAATTACTATTTTACCCTTGATTTATAGAATTACCG
65 GATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACCA
*** * * * *** * *
65606731 TTCTACCCTCGATTTA-TAGAATTACTATTTTACCCTTGATTTACAGAATTATTG-TTTACCCTC
1 AAATACCCTCGA-TCAGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTC
*
65606794 GATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
65 GATTTA-AAAATTACTAAAATACCCTTGATTTACAAAATTACCA
65606838 AAATACCCTCGATCAGTAAAATTACCAAAATACCCT
1 AAATACCCTCGATCAGTAAAATTACCAAAATACCCT
65606874 AGTCTATAAA
Statistics
Matches: 109, Mismatches: 30, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
106 17 0.16
107 92 0.84
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (107 bp):
AAATACCCTCGATCAGTAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTTTACCCTCG
ATTTAAAAATTACTAAAATACCCTTGATTTACAAAATTACCA
Found at i:65606910 original size:53 final size:53
Alignment explanation
Indices: 65606801--65607023 Score: 187
Period size: 54 Copynumber: 4.2 Consensus size: 53
65606791 CTCGATTTAC
* * * * * **
65606801 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACC-CTCGATCAGT
1 AAAATTACCAAAATACCC-TAGTCTATAAAATTACCAAAATACCACTAG-TTTGT
* * * *
65606855 AAAATTACCAAAATACCCTAGTCTATAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTCTATAAAATTACCAAAATACCACTAGTTTGT
* * *
65606908 AAAATTACCAAAATATCCCTAGTTTGTAAAGTTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTCTATAAAATTACCAAAATACCACTAGTTTGT
* * * * * * * * **
65606962 GAAATTACCGAAATACACTCAATTTCTAAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCT-AGTCTATAAAATTACCAAAATACCACTAGTTTGT
65607016 AAAATTAC
1 AAAATTAC
65607024 AGAAACACCC
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
53 41 0.29
54 98 0.71
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTCTATAAAATTACCAAAATACCACTAGTTTGT
Found at i:65607180 original size:27 final size:27
Alignment explanation
Indices: 65607141--65607209 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
65607131 GACTAAAATA
65607141 CCCCTATTA-GGTAAAAAGACCGTAAAG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
* ** *
65607168 CCCCTGTAGGGTAAAGTGACTGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
65607195 CCCCTATAGGGTAAA
1 CCCCTATAGGGTAAA
65607210 GTGACTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:65607234 original size:27 final size:27
Alignment explanation
Indices: 65607162--65607236 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
65607152 TAAAAAGACC
65607162 GTAAAGCCCCTGTAGGGTAAAGTGACT
1 GTAAAGCCCCTGTAGGGTAAAGTGACT
*
65607189 GTAAAGCCCCTATAGGGTAAAGTGACT
1 GTAAAGCCCCTGTAGGGTAAAGTGACT
* *
65607216 GTAATA-CCCTTGTATGGTAAA
1 GTAA-AGCCCCTGTAGGGTAAA
65607237 ATGATGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
GTAAAGCCCCTGTAGGGTAAAGTGACT
Found at i:65608070 original size:26 final size:26
Alignment explanation
Indices: 65608041--65608215 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
65608031 GAGGAAGTGC
* *
65608041 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
65608067 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
65608093 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
**
65608119 AAAAGGGCTTATGCCCCAGTTTACAA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
65608145 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
65608171 AAAAGGGCTT-TGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
65608196 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
65608216 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 31 0.23
26 103 0.77
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:65608119 original size:52 final size:52
Alignment explanation
Indices: 65608041--65608215 Score: 282
Period size: 52 Copynumber: 3.4 Consensus size: 52
65608031 GAGGAAGTGC
* *
65608041 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
*
65608093 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
* *
65608145 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCTCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
*
65608196 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
65608216 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 9 0.08
51 22 0.19
52 85 0.73
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACAG
Found at i:65608469 original size:31 final size:31
Alignment explanation
Indices: 65608434--65608538 Score: 192
Period size: 31 Copynumber: 3.4 Consensus size: 31
65608424 GTTTACAGTA
*
65608434 AAGGCTTCGGCCCAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
65608465 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
65608496 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
65608527 AAGGCTTCGGCC
1 AAGGCTTCGGCC
65608539 TAGTAACCGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:65610876 original size:27 final size:27
Alignment explanation
Indices: 65610846--65611004 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
65610836 ATTACCAAAG
* *
65610846 TACCCCCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
65610873 TACCCTCAATTTATAGAATTAGTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* **
65610900 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
65610927 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
65610954 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
65610981 TACCCTCAATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
65611005 AAATACCCTT
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:65610893 original size:54 final size:54
Alignment explanation
Indices: 65610835--65611029 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
65610825 CGACTTGTAA
* * ** *
65610835 AATTACCAAAGTACCCCCGATTTACAAAATTACTATTTTACCCTCAATTTATAG
1 AATTACTAAATTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATTTATAG
* ** * * *
65610889 AATTAGTATTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
1 AATTACTAAATTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATTTATAG
** * * *
65610943 AATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTACAA
1 AATTACTAAATTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATTTATAG
* *
65610997 AATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AATTACTAAATTACCCTTGATTTACAAAATTAC
65611030 CAAAATACCC
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (54 bp):
AATTACTAAATTACCCTTGATTTACAAAATTACTGTTTTACCCTCAATTTATAG
Found at i:65611012 original size:81 final size:81
Alignment explanation
Indices: 65610833--65611029 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
65610823 CTCGACTTGT
* * * *
65610833 AAAATTACCAAAGTACCCCCGATTTACAAAATTACTATTTTACCCTCAATTTATAGAATTAGTAT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTAT
**
65610898 TTTACCCTTGATTTAC
66 TTTACCCTCAATTTAC
* **** * * ** *
65610914 AGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTAT
65610979 TTTACCCTCAATTTAC
66 TTTACCCTCAATTTAC
* * *
65610995 AAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTAC
65611030 CAAAATACCC
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTACTAT
TTTACCCTCAATTTAC
Found at i:65611106 original size:80 final size:81
Alignment explanation
Indices: 65610995--65611199 Score: 254
Period size: 80 Copynumber: 2.5 Consensus size: 81
65610985 CTCAATTTAC
* *
65610995 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
65611059 AAATACC-CTGGTTTGT
65 AAATACCACTGGTTTGT
* * * ** *
65611075 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
65611140 AATACCACTGGTTTGT
66 AATACCACTGGTTTGT
* * ** *
65611156 GAAATTACCAAAATA-CCCTCAATTTCTAAAATTACCAAAATACC
1 AAAATTACTAAAATACCCCT-GGTTTATAAAATTACCAAAATACC
65611200 TCTGATTTAC
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 64 0.59
81 42 0.39
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTTTGT
Found at i:65611287 original size:27 final size:27
Alignment explanation
Indices: 65610990--65611313 Score: 187
Period size: 27 Copynumber: 12.0 Consensus size: 27
65610980 TTACCCTCAA
*
65610990 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
*
65611017 TTTACAAAATTACCAAAATACCC-TCG
1 TTTACAAAATTACCAAAATACCCTTGG
* * *
65611043 ATCAGTAAAATTACCAAAATACCC-TGG
1 TTTA-CAAAATTACCAAAATACCCTTGG
** * * *
65611070 TTTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
65611097 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
** *
65611124 TTTGTAAAGTTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
*** ***
65611151 TTTGTGAAATTACCAAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
*
65611178 TTT-CTAAAATTACCAAAATA-CCTCTGA
1 TTTAC-AAAATTACCAAAATACCCT-TGG
* *
65611205 TTTACAAAATTA-TAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* **
65611233 TTT-CTAAAAATTA-TAGAAATACTATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
**
65611261 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
65611288 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
65611314 TAGGGTGAAA
Statistics
Matches: 243, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
26 26 0.11
27 185 0.76
28 12 0.05
29 20 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:65611430 original size:27 final size:27
Alignment explanation
Indices: 65611352--65611413 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
65611342 TAGGTAAAAA
65611352 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
65611379 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
65611406 GACCGTAA
1 GACCGTAA
65611414 TACTCTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.18
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:65611435 original size:27 final size:27
Alignment explanation
Indices: 65611344--65611435 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
65611334 ACCCCTATTA
*
65611344 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
65611371 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
65611398 GGTAAAGTGACCGTAATA-CTCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
65611425 GGTAAAATGAC
1 GGTAAAATGAC
65611436 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:65611786 original size:20 final size:21
Alignment explanation
Indices: 65611750--65611789 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65611740 GCACGATGGT
65611750 AAATTGGGCCTCAATGGGCTG
1 AAATTGGGCCTCAATGGGCTG
65611771 AAATTGGGCC-CAATGGGCT
1 AAATTGGGCCTCAATGGGCT
65611790 TTCGGACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
AAATTGGGCCTCAATGGGCTG
Found at i:65612193 original size:16 final size:16
Alignment explanation
Indices: 65612172--65612202 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65612162 CAAATATGGG
*
65612172 CATGACATTTTGCATA
1 CATGACATGTTGCATA
65612188 CATGACATGTTGCAT
1 CATGACATGTTGCAT
65612203 TGGGTTAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:65612265 original size:26 final size:26
Alignment explanation
Indices: 65612236--65612410 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
65612226 GAGGAAGTGC
65612236 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
65612262 AAAAGGGCATATGCCTCAGTTTATCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
65612288 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
65612314 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
65612340 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
65612366 AAAAGGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
65612391 AAAAGGGCTT-TCCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
65612411 ATTAAAGAGG
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
25 33 0.25
26 100 0.75
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:65612703 original size:31 final size:31
Alignment explanation
Indices: 65612628--65612706 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
65612618 CGTTTACAGT
*
65612628 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
*
65612659 TAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
65612690 AAAGGCTTCGGCCTAGT
1 AAAGGCTTCGGCCTAGT
65612707 AACCGTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGATTTATGA
Found at i:65613618 original size:43 final size:42
Alignment explanation
Indices: 65613578--65613685 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
65613568 CGCATCCATT
65613578 ATGAACTC-GAACCACTCAACGAGCTCGGATGCTCACATCCACA
1 ATGAACTCAG-ACCACTCAACGAGCTCGGATGC-CACATCCACA
* * **
65613621 ATGAACTCAGACCACTCCAGGAGCTCGGATGCCACATATATC-
1 ATGAACTCAGACCACTCAACGAGCTCGGATGCCACATCCA-CA
* *
65613663 ACGAACCCAGACCACTCAACGAG
1 ATGAACTCAGACCACTCAACGAG
65613686 TCCAGACTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 25 0.45
43 29 0.53
44 1 0.02
ACGTcount: A:0.33, C:0.34, G:0.18, T:0.15
Consensus pattern (42 bp):
ATGAACTCAGACCACTCAACGAGCTCGGATGCCACATCCACA
Found at i:65613675 original size:42 final size:43
Alignment explanation
Indices: 65613588--65613685 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
65613578 ATGAACTCGA
* * *
65613588 ACCACTCAACGAGCTCGGATGCTCACATCCACAATGAACTCAG
1 ACCACTCAACGAGCTCGGATGCTCACATACACAACGAACCCAG
* * *
65613631 ACCACTCCAGGAGCTCGGATGC-CACATATATC-ACGAACCCAG
1 ACCACTCAACGAGCTCGGATGCTCACATACA-CAACGAACCCAG
65613673 ACCACTCAACGAG
1 ACCACTCAACGAG
65613686 TCCAGACTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.33, C:0.36, G:0.17, T:0.14
Consensus pattern (43 bp):
ACCACTCAACGAGCTCGGATGCTCACATACACAACGAACCCAG
Found at i:65619339 original size:659 final size:660
Alignment explanation
Indices: 65618080--65619367 Score: 2312
Period size: 659 Copynumber: 2.0 Consensus size: 660
65618070 ATAAAACATC
*
65618080 ATTTGCATTTAATATCTTTCTACGATTTCATCATACCAAGTTCTCAACCCGAGGATTTAAGCACA
1 ATTTGCATTTAATATCTTTATACGATTTCATCATACCAAGTTCTCAACCCGAGGATTTAAGCACA
65618145 TACCTGTCAAATTTTCTCATTCATCACACTTACCAATATGTCACCTTCGTTTTAGGCATTCTTCT
66 TACCTGTCAAATTTTCTCATTCATCACACTTACCAATATGTCACCTTCGTTTTAGGCATTCTTCT
* *
65618210 CATTCACTTAAGATTCACCTGTTGAACACATCGGAATATAATTCGAATACGCGGATTTCATGAAT
131 CATTCACTTAAGATTCACCCGTTGAACACATCGGAATATAATTCGAATACGCGAATTTCATGAAT
*
65618275 GTAAGTGGCATACCCGCAGCTAGACAAACTCAATAGCCTGCGGAGCTTATGTAGCCAAGCTACCA
196 GTAAGTGGCATACCCGCAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCA
* * **
65618340 TGTAACCCGCCCATAAGTGAACTCGGACTCAACATAATGAGATCGGGTGTTCGCATCAATAAGTG
261 TGTAACCCGCCCATAAGTGAACTCAGACTCAACATAACGAGATCGGACGTTCGCATCAATAAGTG
** *
65618405 AACTTGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAA
326 AACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGAACTCAACTCAA
* *
65618470 CGAGTTCGGAACTCAAATATCCTAGTGACATGTCACTTGTATTCTAATCTATTTCTAAGGTTCAA
391 CGAGTTCAGAACTCAAATATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAA
* * * **
65618535 ACTGGCTTTTTCCTCGATCTCACATCTTTGCCATCTTCCATGGAATATCGGAACCGATACTCGGT
456 ACGGGCTTTTTCCTCAATCTCACATCTTTGCCATCTTCCACGGAATATCAAAACCGATACTCGGT
65618600 GATAGTTCATACTCATCAAGTAATTCACATAATTACATATTATTCAACAATAACCACAAAACATA
521 GATAGTTCATACTCATCAAGTAATTCACATAATTACATATTATTCAACAATAACCACAAAACATA
* *
65618665 ACATTTCATGATAATAATAAGCATCGTATCATATAAACATCATTTTCATAAACAACACCAAGACA
586 ACATTTCATGATAATAATAAGCATCATATCATATAAACAACATTTTCATAAACAACACCAAGACA
65618730 TTCATGTTTA
651 TTCATGTTTA
65618740 ATTTGCATTTAATATCTTTATACGATTTCATCATACCAAGTTCTCAACCCGAGGATTTAAGCACA
1 ATTTGCATTTAATATCTTTATACGATTTCATCATACCAAGTTCTCAACCCGAGGATTTAAGCACA
65618805 TACCTGTCAAATTTTCTCATTCATCACACTTACCAATATGTCACCTTCGTTTTAGGCATTCTTCT
66 TACCTGTCAAATTTTCTCATTCATCACACTTACCAATATGTCACCTTCGTTTTAGGCATTCTTCT
65618870 CATTCACTTAAGATTCACCCGTTGAACACATCGGAATATAATTCGAATACGCGAATTTCATGAAT
131 CATTCACTTAAGATTCACCCGTTGAACACATCGGAATATAATTCGAATACGCGAATTTCATGAAT
*
65618935 GTAATTGGCATACCCGCAGC-ATGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACC
196 GTAAGTGGCATACCCGCAGCTA-GACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACC
* **
65618999 ATGTAACCCG-CCATAAGTGAACTCAGACTCAAC-TCAACGAGCTCGGACGTTCGCATCCGTAAG
260 ATGTAACCCGCCCATAAGTGAACTCAGACTCAACAT-AACGAGATCGGACGTTCGCATCAATAAG
65619062 TGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGAACTCAACTC
324 TGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGAACTCAACTC
65619127 AACGAGTTCAGAACTCAAATATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTC
389 AACGAGTTCAGAACTCAAATATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTC
*
65619192 AAACGGGCTTTTTCCTCAATCTCACATCTTTGCCGTCTTCCACGGAATATCAAAACCGATACTCG
454 AAACGGGCTTTTTCCTCAATCTCACATCTTTGCCATCTTCCACGGAATATCAAAACCGATACTCG
65619257 GTGATAGTTCATACTCATCAAGTAATTCACATAATTACATATTATTCAACAATAACCACAAAACA
519 GTGATAGTTCATACTCATCAAGTAATTCACATAATTACATATTATTCAACAATAACCACAAAACA
65619322 TAACATTTCATGATAATAATAAGCATCATATCATATAAACAACATT
584 TAACATTTCATGATAATAATAAGCATCATATCATATAAACAACATT
65619368 AAATTGCTCA
Statistics
Matches: 601, Mismatches: 25, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
658 1 0.00
659 338 0.56
660 262 0.44
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (660 bp):
ATTTGCATTTAATATCTTTATACGATTTCATCATACCAAGTTCTCAACCCGAGGATTTAAGCACA
TACCTGTCAAATTTTCTCATTCATCACACTTACCAATATGTCACCTTCGTTTTAGGCATTCTTCT
CATTCACTTAAGATTCACCCGTTGAACACATCGGAATATAATTCGAATACGCGAATTTCATGAAT
GTAAGTGGCATACCCGCAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCA
TGTAACCCGCCCATAAGTGAACTCAGACTCAACATAACGAGATCGGACGTTCGCATCAATAAGTG
AACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGAACTCAACTCAA
CGAGTTCAGAACTCAAATATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAA
ACGGGCTTTTTCCTCAATCTCACATCTTTGCCATCTTCCACGGAATATCAAAACCGATACTCGGT
GATAGTTCATACTCATCAAGTAATTCACATAATTACATATTATTCAACAATAACCACAAAACATA
ACATTTCATGATAATAATAAGCATCATATCATATAAACAACATTTTCATAAACAACACCAAGACA
TTCATGTTTA
Found at i:65629695 original size:43 final size:43
Alignment explanation
Indices: 65629615--65629707 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
65629605 GATTACAATG
* *
65629615 TAAGACCATGTCTGGGACATTGCCATTGTATTGTGATTACGTA
1 TAAGACCATGTCAGGGACATTGCCATTGTAATGTGATTACGTA
** * *
65629658 TAAGACCATGTCAGGGACATTGGTATTGTTAAT-TGATTTCGTG
1 TAAGACCATGTCAGGGACATTGCCATTG-TAATGTGATTACGTA
65629701 TAAGACC
1 TAAGACC
65629708 CTGCCTAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 40 0.93
44 3 0.07
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TAAGACCATGTCAGGGACATTGCCATTGTAATGTGATTACGTA
Found at i:65631391 original size:16 final size:16
Alignment explanation
Indices: 65631367--65631397 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65631357 TGGTTCACTG
65631367 TAATAGAATAGAGCTA
1 TAATAGAATAGAGCTA
*
65631383 TAATTGAATAGAGCT
1 TAATAGAATAGAGCT
65631398 GTAACAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.29
Consensus pattern (16 bp):
TAATAGAATAGAGCTA
Found at i:65637763 original size:46 final size:46
Alignment explanation
Indices: 65637713--65637885 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
65637703 TGGTTGAGCA
65637713 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
65637759 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65637804 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65637852 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65637886 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65637869 original size:93 final size:93
Alignment explanation
Indices: 65637710--65637880 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
65637700 GGATGGTTGA
* *
65637710 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
65637775 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
65637803 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTCGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTGAG
*
65637867 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
65637881 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65638146 original size:19 final size:20
Alignment explanation
Indices: 65638109--65638146 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65638099 ATAAGGTGGT
65638109 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65638129 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65638147 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65639718 original size:44 final size:42
Alignment explanation
Indices: 65639668--65639816 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
65639658 TGTGTTATCA
65639668 TGTAAGACCACGTCTGGGACATCGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACATCGGCATCGTA-TT-TGATTTA-G
* * *
65639712 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTAG
1 TGTAAGACCACGTCTGGGACATCGGCATCGTATTTGATTTAG
* * * *
65639754 TGTAAGACC-CTTTTTGGGACAGT-GGCATCAATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACA-TCGGCATC-GTATTTGATTTA-G
*
65639797 TGTAAGACCACGTCTAGGAC
1 TGTAAGACCACGTCTGGGAC
65639817 GTTGGAATTG
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
42 28 0.31
43 30 0.34
44 30 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATCGGCATCGTATTTGATTTAG
Found at i:65639770 original size:42 final size:43
Alignment explanation
Indices: 65639668--65639806 Score: 158
Period size: 42 Copynumber: 3.2 Consensus size: 43
65639658 TGTGTTATCA
* * *
65639668 TGTAAGACCACGTCTGGGACATCGGCATCG-ACTTATGATTTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTA-TT-TGATTTACG
65639712 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTA-G
1 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTACG
* * * * *
65639754 TGTAAGACCCTTTTTGGGACAGTGGCATCAATATTTGA-TTACA
1 TGTAAGACCATGTTTGGGACATTGGCATC-GTATTTGATTTACG
65639797 TGTAAGACCA
1 TGTAAGACCA
65639807 CGTCTAGGAC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 30 0.36
43 23 0.28
44 29 0.35
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTACG
Found at i:65644123 original size:43 final size:43
Alignment explanation
Indices: 65643978--65644134 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
65643968 TGTGTTATCA
** * * *
65643978 TGTAAGACCATGTCCGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA-TTACG
* * *
65644022 TGTAAGACCACACCTAGGACGTTGGCATC-ATATTTGATTTCG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACG
* *
65644064 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTACG
65644107 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
65644135 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 40 0.43
44 24 0.26
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTACG
Found at i:65654364 original size:25 final size:25
Alignment explanation
Indices: 65654334--65654431 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
65654324 GCACTCTCTC
* *
65654334 GAGCCATATCACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* * * **
65654359 GAGCCATGTAACGAGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATGA
* * * *
65654384 GGGCTATATAACAGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
*
65654409 GAGCCATA-ATCGGGAAGCTCATG
1 GAGCCATATAACGGGAAGCTCATG
65654432 CGATCCAATA
Statistics
Matches: 54, Mismatches: 19, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
24 12 0.22
25 42 0.78
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:65661945 original size:40 final size:40
Alignment explanation
Indices: 65661856--65662119 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
65661846 TTGAATGCTG
* * *
65661856 TCCGGGCTAAGCCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
65661895 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
65661935 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65661974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65662014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65662054 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65662095 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65662120 AACGAGTAGC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 53 0.26
40 140 0.69
41 11 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65662126 original size:120 final size:118
Alignment explanation
Indices: 65661908--65662152 Score: 341
Period size: 120 Copynumber: 2.1 Consensus size: 118
65661898 GGACTAAGAT
*
65661908 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
* ** *
65661973 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
65662027 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
* * *
65662092 TAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
65662146 CCGAAGG
1 CCGAAGG
65662153 TACGTGATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
119 51 0.46
120 58 0.52
121 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:65669983 original size:39 final size:40
Alignment explanation
Indices: 65669888--65670146 Score: 324
Period size: 39 Copynumber: 6.7 Consensus size: 40
65669878 TTGAATGCTG
* *
65669888 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
65669927 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
65669967 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65670006 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65670046 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65670085 T-CGGGTTAA-T-CCGAA-GCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65670122 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65670147 AACGAGTAGC
Statistics
Matches: 197, Mismatches: 11, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
35 3 0.02
36 20 0.10
37 9 0.05
38 9 0.05
39 76 0.39
40 72 0.37
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65670023 original size:79 final size:78
Alignment explanation
Indices: 65669888--65670144 Score: 330
Period size: 79 Copynumber: 3.3 Consensus size: 78
65669878 TTGAATGCTG
* * **
65669888 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCGAAGGCATT
*
65669951 TGTGCGAGATACTAAT
63 TGTGCGAGTTACTAAT
65669967 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
*
65670031 GTGCGAGTTACTAAA
64 GTGCGAGTTACTAAT
*
65670046 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAT-CGGGTTAA-TCCGAA-GCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
65670108 GCGAGTTACT-AT
66 GCGAGTTACTAAT
* *
65670120 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
65670145 TGAACGAGTA
Statistics
Matches: 161, Mismatches: 11, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
74 1 0.01
75 39 0.24
76 5 0.03
77 1 0.01
78 18 0.11
79 79 0.49
80 18 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAT
Found at i:65670153 original size:115 final size:118
Alignment explanation
Indices: 65669940--65670179 Score: 312
Period size: 115 Copynumber: 2.1 Consensus size: 118
65669930 GGACTAAGAT
*
65669940 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
* ** *
65670005 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
65670059 CCGAAGGCA-TTGTGCGAGTTACTAAAT-CGGGTTAA-TCCGAA-GCATTTGTGCGAGTTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-
* * *
65670120 AA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
65670173 CCGAAGG
1 CCGAAGG
65670180 TACGTGATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
114 16 0.15
115 53 0.49
116 7 0.06
117 7 0.06
118 16 0.15
119 9 0.08
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:65670160 original size:40 final size:39
Alignment explanation
Indices: 65669940--65670146 Score: 289
Period size: 40 Copynumber: 5.3 Consensus size: 39
65669930 GGACTAAGAT
* * *
65669940 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAA-ACCGGGTTAAGTC
65669979 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAA-CCGGGTTAAGTC
65670019 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
65670059 CCGAAGGCA-TTGTGCGAGTTACTAAATCGGGTTAA-T-
1 CCGAAGGCATTTGTGCGAGTTACTAAACCGGGTTAAGTC
* *
65670095 CCGAA-GCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCGGGTTAAGTC
65670134 CCGAAGGCATTTG
1 CCGAAGGCATTTG
65670147 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
35 3 0.02
36 20 0.13
37 9 0.06
38 9 0.06
39 56 0.36
40 57 0.37
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:65674875 original size:39 final size:39
Alignment explanation
Indices: 65674832--65674957 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
65674822 GGACATTAGC
* * * *
65674832 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
65674871 CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
65674910 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
65674949 TCGAATATA
1 CCGGATATA
65674958 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:65674881 original size:78 final size:78
Alignment explanation
Indices: 65674794--65674957 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
65674784 GAATTTAAAC
* * * *
65674794 CCGG-TATAATACCAGCTCGA-AGCCTACAGGA-CATTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTACA-GACCATAAGCCCGGACATAATTCCAGCACATAGC
*
65674856 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * * * *
65674871 CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTACAGACCATAAGCCCGGACATAATTCCAGCACATAGCCT
65674936 GCGGACCCTAAGT
66 GCGGACCCTAAGT
* *
65674949 TCGAATATA
1 CCGGATATA
65674958 CATCACTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 7 0.10
78 65 0.90
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTACAGACCATAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:65682881 original size:57 final size:58
Alignment explanation
Indices: 65682744--65682882 Score: 165
Period size: 57 Copynumber: 2.4 Consensus size: 58
65682734 CATTACAGAA
* * *
65682744 AGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAGAAAT
** * * *
65682802 AGGATTTAGCCCAGACGGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGTTGGAAAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCT-TGAGCATATGTTAGAAAT
* *
65682859 AGGATTTAGCTTGGACAAGTAATC
1 AGGATTTAGCCTGGACAGGTAATC
65682883 TTGTTGTATG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 1 0.01
57 41 0.60
58 26 0.38
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (58 bp):
AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTAGAAAT
Found at i:65685083 original size:10 final size:10
Alignment explanation
Indices: 65685068--65685092 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65685058 ATGGCTTACT
65685068 AAGCTTTTGA
1 AAGCTTTTGA
65685078 AAGCTTTTGA
1 AAGCTTTTGA
65685088 AAGCT
1 AAGCT
65685093 ACCAGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (10 bp):
AAGCTTTTGA
Found at i:65698155 original size:41 final size:41
Alignment explanation
Indices: 65698109--65698203 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
65698099 TATTCGGGCT
* * *
65698109 TTATTGCCTAGCAGGCTTTGTGTCGGTGTATTATATC-AGGC
1 TTATTGCCTAGCAGGCTCTATGCCGGTGTATTAT-TCTAGGC
65698150 TTATTGCCTAGCAGGCTCTATGCCGGTGTATTATTCTAGGC
1 TTATTGCCTAGCAGGCTCTATGCCGGTGTATTATTCTAGGC
65698191 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
65698204 AATTTTATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 3 0.06
41 46 0.94
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTCTATGCCGGTGTATTATTCTAGGC
Found at i:65705332 original size:38 final size:38
Alignment explanation
Indices: 65705290--65705668 Score: 193
Period size: 38 Copynumber: 9.0 Consensus size: 38
65705280 TTTCAAATTA
*
65705290 ACATGTATAACCATGGAATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
*
65705328 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
** *
65705366 A-ATGAATCAATATATGTAATCGTAGCATATCCACTTAGCACCACGTT
1 ACATG--T--ATA-A--CCAT-G--GTATATCCACTTAGCACCACGTT
* * * *
65705413 ACATGTTTAACCGTGGTATAACCACTTAGCACGACGTTAAT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACG-T--T
* * *
65705454 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACATT
1 --A-C-ATGTA--TAACCATGGTATATCCACTTAGCACCACGTT
* * *
65705498 ACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACG-T--T
* * * *
65705539 GAATCAATATATGTAACCGTGGCAGATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGTATATCCACTTAGCACCACGTT
* *
65705583 ACATGTATCAATATGTGTAATCATGGTATATCGACTTAGCACCACGTT
1 ACATG------TA----TAACCATGGTATATCCACTTAGCACCACGTT
* * *
65705631 ACACGTATAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
65705669 TTTTTCATTC
Statistics
Matches: 264, Mismatches: 40, Indels: 74
0.70 0.11 0.20
Matches are distributed among these distances:
37 3 0.01
38 109 0.41
39 3 0.01
40 6 0.02
41 7 0.03
42 5 0.02
43 3 0.01
44 8 0.03
45 7 0.03
46 5 0.02
47 73 0.28
48 35 0.13
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGTATATCCACTTAGCACCACGTT
Found at i:65705403 original size:85 final size:85
Alignment explanation
Indices: 65705297--65705588 Score: 485
Period size: 85 Copynumber: 3.4 Consensus size: 85
65705287 TTAACATGTA
* * *
65705297 TAACCATGGAATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
65705362 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * * *
65705382 TAATCGTAGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATAACCACTTAGCACGA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
65705447 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
65705467 TAACCATGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
65705532 TGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
65705552 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
65705589 ATCAATATGT
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 190 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:65705485 original size:47 final size:47
Alignment explanation
Indices: 65705420--65705631 Score: 226
Period size: 47 Copynumber: 4.7 Consensus size: 47
65705410 GTTACATGTT
* *
65705420 TAACCGTGGTATAACCACTTAGCACGACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
65705467 TAACCATGGCATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
65705505 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
65705552 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* * *
65705600 TAATCATGGTATATCGACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
65705632 CACGTATAAT
Statistics
Matches: 134, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
38 25 0.19
39 1 0.01
40 3 0.02
41 1 0.01
42 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 53 0.40
48 40 0.30
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:65705620 original size:48 final size:48
Alignment explanation
Indices: 65705505--65705638 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
65705495 ATTACATGTT
* * *
65705505 TAACCGTGGTATATCCACTTAGCACCATGTTA-ATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * *
65705552 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
65705600 TAATCATGGTATATCGACTTAGCACCACGTTACACGTAT
1 TAACCATGGTATATCCACTTAGCACCACGTTACATGTAT
65705639 AATCGTGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 29 0.39
48 46 0.61
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (48 bp):
TAACCATGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:65705657 original size:133 final size:132
Alignment explanation
Indices: 65705420--65705664 Score: 364
Period size: 133 Copynumber: 1.8 Consensus size: 132
65705410 GTTACATGTT
* * *
65705420 TAACCGTGGTATAACCACTTAGCACGACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
1 TAACCGTGGCAGAACCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
* *
65705485 TTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
66 TTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
65705550 TG
131 TG
* * * * * *
65705552 TAACCGTGGCAGATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGGTATATCGA
1 TAACCGTGGCAGAACCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCATGGCATATCCA
* *
65705617 CTTAGCACCACGTTACACGTATAATCGTGGTATATCCACTTAGCACCA
65 CTTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCA
65705665 CGTTTTTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
132 28 0.28
133 71 0.72
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCAGAACCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGGCATATCCAC
TTAGCACCACATTACACGTATAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATA
TG
Found at i:65708195 original size:27 final size:28
Alignment explanation
Indices: 65708165--65708227 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
65708155 ATATTAAGTC
65708165 CGCACACTCAGTACTATATAATC-AACT
1 CGCACACTCAGTACTATATAATCAAACT
* *
65708192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTACTATATAATCAAACT
65708220 CGCACACT
1 CGCACACT
65708228 TAGTGCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (28 bp):
CGCACACTCAGTACTATATAATCAAACT
Found at i:65708227 original size:28 final size:28
Alignment explanation
Indices: 65708165--65708262 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
65708155 ATATTAAGTC
* *
65708165 CGCACACTCAGTACTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
65708192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65708220 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65708249 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65708263 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65716519 original size:28 final size:28
Alignment explanation
Indices: 65716456--65716553 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
65716446 ATATTAAGTC
*
65716456 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
65716483 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65716511 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65716540 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65716554 CAATCTTATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65722496 original size:23 final size:24
Alignment explanation
Indices: 65722470--65722565 Score: 112
Period size: 23 Copynumber: 4.2 Consensus size: 24
65722460 CTCCAATGAC
*
65722470 CTGAAATGGTAAGCTCTAT-CGAG
1 CTGAAATAGTAAGCTCTATACGAG
*
65722493 CTG-AACAGTAAGCTC-ATACGAG
1 CTGAAATAGTAAGCTCTATACGAG
*
65722515 CTGAAACAGTAAGCTCTAT-CGAG
1 CTGAAATAGTAAGCTCTATACGAG
*
65722538 CTAAAAATAGTAAGCTCT-TACGAG
1 CT-GAAATAGTAAGCTCTATACGAG
65722562 CTGA
1 CTGA
65722566 TATATTGGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 23 0.37
24 21 0.33
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
CTGAAATAGTAAGCTCTATACGAG
Found at i:65722502 original size:45 final size:45
Alignment explanation
Indices: 65722449--65722539 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
65722439 CCTGAGTTGA
* **
65722449 TGAACAGTAAACTCCA-ATGACCTGAAATGGTAAGCTCTATCGAGC
1 TGAACAGTAAACT-CATACGACCTGAAACAGTAAGCTCTATCGAGC
* *
65722494 TGAACAGTAAGCTCATACGAGCTGAAACAGTAAGCTCTATCGAGC
1 TGAACAGTAAACTCATACGACCTGAAACAGTAAGCTCTATCGAGC
65722539 T
1 T
65722540 AAAAATAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACAGTAAACTCATACGACCTGAAACAGTAAGCTCTATCGAGC
Found at i:65722504 original size:22 final size:23
Alignment explanation
Indices: 65722478--65722565 Score: 103
Period size: 24 Copynumber: 3.9 Consensus size: 23
65722468 ACCTGAAATG
65722478 GTAAGCTCTAT-CGAGCTGAACA
1 GTAAGCTCTATACGAGCTGAACA
65722500 GTAAGCTC-ATACGAGCTGAAACA
1 GTAAGCTCTATACGAGCTG-AACA
* *
65722523 GTAAGCTCTAT-CGAGCTAAAAATA
1 GTAAGCTCTATACGAGCT--GAACA
65722547 GTAAGCTCT-TACGAGCTGA
1 GTAAGCTCTATACGAGCTGA
65722566 TATATTGGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
21 2 0.04
22 16 0.28
23 19 0.33
24 20 0.35
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTATACGAGCTGAACA
Found at i:65722565 original size:47 final size:45
Alignment explanation
Indices: 65722478--65722565 Score: 131
Period size: 47 Copynumber: 1.9 Consensus size: 45
65722468 ACCTGAAATG
*
65722478 GTAAGCTCTATCGAGCTGAACAGTAAGCTCATACGAGCTGAAACA
1 GTAAGCTCTATCGAGCTAAACAGTAAGCTCATACGAGCTGAAACA
* *
65722523 GTAAGCTCTATCGAGCTAAAAATAGTAAGCTCTTACGAGCTGA
1 GTAAGCTCTATCGAGCT--AAACAGTAAGCTCATACGAGCTGA
65722566 TATATTGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 17 0.45
47 21 0.55
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (45 bp):
GTAAGCTCTATCGAGCTAAACAGTAAGCTCATACGAGCTGAAACA
Found at i:65730429 original size:29 final size:29
Alignment explanation
Indices: 65730304--65730427 Score: 169
Period size: 29 Copynumber: 4.3 Consensus size: 29
65730294 AAGTCTACAT
* *
65730304 ACATGCATATAGCCCACTAGGCCC-AATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
* *
65730332 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
* * *
65730361 ATATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
*
65730390 ACATTCATACAGCCCATTAGGCCCAAATC
1 ACATTCATATAGCCCATTAGGCCCAAATC
65730419 ACATTCATA
1 ACATTCATA
65730428 CACATGCTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 20 0.24
29 64 0.76
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATTCATATAGCCCATTAGGCCCAAATC
Done.