Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 39 of 135
Found at i:15472036 original size:37 final size:37
Alignment explanation
Indices: 15471929--15472958 Score: 941
Period size: 37 Copynumber: 28.1 Consensus size: 37
15471919 AATGGAATAT
* *
15471929 TGATTCTACT-AAAGTGCTC-AACGAGTAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15471964 TGATACTACTGAAAGTGCTC-AACGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15472000 TGATCCTACTGAATGTGCTCAAACGAGAAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15472037 TGATTATACTAAAAGTGCTCAAACAAACAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472074 TGATACTACTGAAAGTGCT-TAACGAGTC-ATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAG-CAATATCTAC
* * *
15472110 TGATCCTACT-AAATGTGCTCATACGAGCAATGTCTAC
1 TGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTAC
* * * *
15472147 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15472184 TGATACTAATGAAAGTGCTC-AACAATCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * ** * *
15472220 TGATCCTATTGAATTTGCTCAAACGAGTAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472257 TGGTTCTACTGAAAGTGCTTAAACGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
** * *
15472294 AAATTCTACTG-AAGTGCTC-AATGAGCAATATTTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * * * *
15472329 TGATCCTACTGAATGTACTCAAACGAGAAATGTCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472366 TGATTCTACTG-AAGTGCTC-AATGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15472401 TGGTTCTACTGAAAGTGCTCAAACGAGAAATGTCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472438 TGATTCTACT-TAAGTGCTC-AACGAACAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15472473 T-AGTTCTACTGAAAGTGCTC-AACAAGAAATATCTAT
1 TGA-TTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * *
15472509 TGATCCTATTGAATGTGCTCAAACGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472546 TGATCCTACT-AAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTAC
* * *
15472583 TGGTTCTACTAAAAGTGCTC-AACGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15472619 TGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * *
15472656 TGGTTCTACTG-AAGTGCTCAAGCGAGCAATATCTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15472692 TG-TGTCTACTGAAAGTGCTC-AACGATCAATATCTAC
1 TGAT-TCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* * * * * *
15472728 TGATCCTACTGAATGTGCTTAAACGAGCAATGTTTAT
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
*
15472765 TGATTCTACTG-AAGTGCTCAATCGAGCAATATCTAC
1 TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
* *
15472801 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATCCAC
1 TGATTCTACTGAA-AG-TGCTCAAACGAGCAATATCTAC
* * * * * * *
15472840 TGATTATACAGAATGTTTTCTCAAATGAGCAATACCCAC
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
* * * * * *
15472879 TGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAA
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
* * * *
15472918 TGATTATACTGAATGCATGCTCAAACGAGCCATATCCAC
1 TGATTCTACTGAAAG--TGCTCAAACGAGCAATATCTAC
15472957 TG
1 TG
15472959 GTTACGTTAA
Statistics
Matches: 814, Mismatches: 154, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.00
35 78 0.10
36 287 0.35
37 321 0.39
38 9 0.01
39 118 0.14
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (37 bp):
TGATTCTACTGAAAGTGCTCAAACGAGCAATATCTAC
Found at i:15472052 original size:73 final size:73
Alignment explanation
Indices: 15471929--15472958 Score: 915
Period size: 73 Copynumber: 14.0 Consensus size: 73
15471919 AATGGAATAT
* * *
15471929 TGATTCTACT-AAAGTGCTC-AACGAGTAATATCTATTGATACTACTGAAAGTGCTCAACGAGCA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
15471992 ATATCTAC
66 ATATCTAC
* * * * * * * *
15472000 TGATCCTACTGAATGTGCTCAAACGAGAAATGTCTACTGATTATACTAAAAGTGCTCAAACAAAC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
15472065 AATATCTAC
65 AATATCTAC
* * * * *
15472074 TGATACTACTGAAAGTGCT-TAACGAGTC-ATATCTACTGATCCTACT-AAATGTGCTCATACGA
1 TGATTCTACTGAATGTGCTCAAACGAG-CAATATCTATTGATTCTACTGAAA-GTGCTCA-ACGA
*
15472136 GCAATGTCTAC
63 GCAATATCTAC
* * * * * * * *
15472147 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTATTGATACTAATGAAAGTGCTCAACAATCA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
15472212 ATATCTAC
66 ATATCTAC
* * * * * * * *
15472220 TGATCCTATTGAATTTGCTCAAACGAGTAATGTCTACTGGTTCTACTGAAAGTGCTTAAACGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGC-TCAACGAGC
15472285 AATATCTAC
65 AATATCTAC
** * * * * * * *
15472294 AAATTCTACTGAA-GTGCTC-AATGAGCAATATTTACTGATCCTACTGAATGTACTCAAACGAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
* *
15472357 AATGTCTAT
65 AATATCTAC
* * *
15472366 TGATTCTACTGAA-GTGCTC-AATGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAACGAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
* *
15472429 AATGTCTAT
65 AATATCTAC
* * * * *
15472438 TGATTCTACTTAA-GTGCTC-AACGAACAATATCTACT-AGTTCTACTGAAAGTGCTCAACAAGA
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGA-TTCTACTGAAAGTGCTCAACGAGC
*
15472500 AATATCTAT
65 AATATCTAC
* * *
15472509 TGATCCTATTGAATGTGCTCAAACGAGCAATATCTATTGATCCTACT-AAATGTGCTCAAACGAG
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAA-GTGCTC-AACGAG
*
15472573 CAATGTCTAC
64 CAATATCTAC
* * * * *
15472583 TGGTTCTACTAAAAGTGCTC-AACGAGCAATATCTATTGATCCTACTGAATGTGCTCAAACGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACGAGC
*
15472647 AATGTCTAC
65 AATATCTAC
* * *
15472656 TGGTTCTACTGAA-GTGCTCAAGCGAGCAATATCTATTG-TGTCTACTGAAAGTGCTCAACGATC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGAT-TCTACTGAAAGTGCTCAACGAGC
15472719 AATATCTAC
65 AATATCTAC
* * * *
15472728 TGATCCTACTGAATGTGCTTAAACGAGCAATGTTTATTGATTCTACTG-AAGTGCTCAATCGAGC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAA-CGAGC
15472792 AATATCTAC
65 AATATCTAC
* * * * * * * *
15472801 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATCCACTGATTATACAGAATGTTTTCTCAAAT
1 TGATTCTACTGAAT-G-TGCTCAAACGAGCAATATCTATTGATTCTACTGAAAG--TGCTC-AAC
* *
15472866 GAGCAATACCCAC
61 GAGCAATATCTAC
* * * * * * *
15472879 TGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAATGATTATACTGAATGCATGCTCAAAC
1 TGATTCTACTGAATG--TGCTCAAACGAGCAATATCTATTGATTCTACTGAAAG--TGCTC-AAC
* *
15472944 GAGCCATATCCAC
61 GAGCAATATCTAC
15472957 TG
1 TG
15472959 GTTACGTTAA
Statistics
Matches: 795, Mismatches: 134, Indels: 53
0.81 0.14 0.05
Matches are distributed among these distances:
71 34 0.04
72 215 0.27
73 318 0.40
74 113 0.14
75 29 0.04
76 2 0.00
77 1 0.00
78 81 0.10
79 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
TGATTCTACTGAATGTGCTCAAACGAGCAATATCTATTGATTCTACTGAAAGTGCTCAACGAGCA
ATATCTAC
Found at i:15472110 original size:110 final size:109
Alignment explanation
Indices: 15471929--15472836 Score: 990
Period size: 110 Copynumber: 8.3 Consensus size: 109
15471919 AATGGAATAT
* *
15471929 TGATTCTACT-AAAGTGCTCAACGAGTAATATCTATTGATACTACTGAAAGTGCTCAACGAGCAA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCAA
*
15471993 TATCTACTGATCCTACTGAATGTGCTCAAACGAGAAATGTCTAC
66 TATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * * *
15472037 TGATTATACTAAAAGTGCTCAAACAAACAATATCTACTGATACTACTGAAAGTGCTTAACGAGTC
1 TGATTCTACTGAAAGTGCTC-AACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAG-C
* *
15472102 -ATATCTACTGATCCTACTAAATGTGCTCATACGAGCAATGTCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * * * *
15472147 TGATTCTACTGAAAGTTCTCAAACAAACAATATCTATTGATACTAATGAAAGTGCTCAACAATCA
1 TGATTCTACTGAAAGTGCTC-AACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCA
* * *
15472212 ATATCTACTGATCCTATTGAATTTGCTCAAACGAGTAATGTCTAC
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * *** * * *
15472257 TGGTTCTACTGAAAGTGCTTAAACGAGCAATATCTACAAATTCTACTG-AAGTGCTCAATGAGCA
1 TGATTCTACTGAAAGTGC-TCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCA
* * * *
15472321 ATATTTACTGATCCTACTGAATGTACTCAAACGAGAAATGTCTAT
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15472366 TGATTCTACTG-AAGTGCTCAATGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAACGAGAA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGCA
* * * * * *
15472430 ATGTCTATTGATTCTACTTAA-GTGCTC-AACGAACAATATCTAC
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * * *
15472473 T-AGTTCTACTGAAAGTGCTCAACAAGAAATATCTATTGATCCTATTGAATGTGCTCAAACGAGC
1 TGA-TTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGC
* *
15472537 AATATCTATTGATCCTACTAAATGTGCTCAAACGAGCAATGTCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15472583 TGGTTCTACTAAAAGTGCTCAACGAGCAATATCTATTGATCCTACTGAATGTGCTCAAACGAGCA
1 TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCT-AAACGAGCA
* * * * * *
15472648 ATGTCTACTGGTTCTACTGAA-GTGCTCAAGCGAGCAATATCTAT
65 ATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
* * * *
15472692 TG-TGTCTACTGAAAGTGCTCAACGATCAATATCTACTGATCCTACTGAATGTGCTTAAACGAGC
1 TGAT-TCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGC-TAAACGAGC
* * * * * *
15472756 AATGTTTATTGATTCTACTGAA-GTGCTCAATCGAGCAATATCTAC
64 AATATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
*
15472801 TGGTTCTACTGAATAGTTGCTCAAACGAGCAATATC
1 TGATTCTACTGAA-AG-TGCTC-AACGAGCAATATC
15472837 CACTGATTAT
Statistics
Matches: 686, Mismatches: 96, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.00
107 44 0.06
108 91 0.13
109 228 0.33
110 303 0.44
111 7 0.01
112 12 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (109 bp):
TGATTCTACTGAAAGTGCTCAACGAGCAATATCTATTGATACTACTGAAAGTGCTAAACGAGCAA
TATCTACTGATCCTACTGAATGTGCTCAAACGAGCAATGTCTAC
Found at i:15472889 original size:78 final size:78
Alignment explanation
Indices: 15472788--15472932 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 78
15472778 GTGCTCAATC
* * * * *
15472788 GAGCAATATCTACTGGTTCTACTGAATAG-TTGCTCAAACGAGCAATATCCACTGATTATACAGA
1 GAGCAATACCCACTGATTATACTGAAT-GTTTGCTCAAACGAGCAATATCCAATGATTATACAGA
15472852 ATGTTTTCTCAAAT
65 ATGTTTTCTCAAAT
* * *
15472866 GAGCAATACCCACTGATTATACTGAATGTTTGCTGAAACGAGCGATATCCAATGATTATACTGAA
1 GAGCAATACCCACTGATTATACTGAATGTTTGCTCAAACGAGCAATATCCAATGATTATACAGAA
15472931 TG
66 TG
15472933 CATGCTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.02
78 57 0.98
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (78 bp):
GAGCAATACCCACTGATTATACTGAATGTTTGCTCAAACGAGCAATATCCAATGATTATACAGAA
TGTTTTCTCAAAT
Found at i:15484271 original size:27 final size:28
Alignment explanation
Indices: 15484227--15484305 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
15484217 GAATATTGGG
*
15484227 TTTCATTTAATTTCTAAAAGTATTTTTTA-T
1 TTTCATTT--TTT-TAAAAGTATTTTCTATT
*
15484257 TTTCATTTTTTTAAAA-TAGTTTCTATT
1 TTTCATTTTTTTAAAAGTATTTTCTATT
*
15484284 TTTTATTTTTTTAAAAGTATTT
1 TTTCATTTTTTTAAAAGTATTT
15484306 AATAAATAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 7 0.16
27 21 0.49
28 7 0.16
30 8 0.19
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTCATTTTTTTAAAAGTATTTTCTATT
Found at i:15485272 original size:24 final size:24
Alignment explanation
Indices: 15485257--15485307 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15485247 AATCAATGTC
15485257 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
15485281 AAATATATTATATTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
15485305 AAA
1 AAA
15485308 CCTTCTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:15487678 original size:17 final size:17
Alignment explanation
Indices: 15487634--15487685 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
15487624 TTTTACATTA
15487634 TTTTTTATTAATATTGT
1 TTTTTTATTAATATTGT
* *
15487651 TAAATTGTTATTATTATTGT
1 T---TTTTTATTAATATTGT
*
15487671 TTTTTTATTAGTATT
1 TTTTTTATTAATATT
15487686 ATTTATTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 13 0.46
20 15 0.54
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTTTATTAATATTGT
Found at i:15487890 original size:2 final size:2
Alignment explanation
Indices: 15487883--15487917 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15487873 ATGACTTTTG
15487883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15487918 GCATTGACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15494615 original size:12 final size:12
Alignment explanation
Indices: 15494598--15494649 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
15494588 ATATCAATCG
15494598 AACTTTATTTAT
1 AACTTTATTTAT
15494610 AACTTTATATATAT
1 AACTTTAT-T-TAT
* *
15494624 AATTTTTCTTTAT
1 AA-CTTTATTTAT
*
15494637 AACTTTATATAT
1 AACTTTATTTAT
15494649 A
1 A
15494650 TGATTTCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 16 0.50
13 6 0.19
14 6 0.19
15 4 0.12
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AACTTTATTTAT
Found at i:15494656 original size:25 final size:26
Alignment explanation
Indices: 15494605--15494655 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
15494595 TCGAACTTTA
15494605 TTTATAACTTTATATATATAATTTTTC
1 TTTATAACTTTATATATATAA-TTTTC
*
15494632 TTTATAACTTTATATATATGATTT
1 TTTATAACTTTATATATATAATTT
15494656 CCGAATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATAACTTTATATATATAATTTTC
Found at i:15494664 original size:27 final size:27
Alignment explanation
Indices: 15494607--15494664 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
15494597 GAACTTTATT
* **
15494607 TATAACTTTATATATATAATTTTTCTT
1 TATAACTTTATATATATAATTTTCCAA
*
15494634 TATAACTTTATATATATGA-TTTCCGAA
1 TATAACTTTATATATATAATTTTCC-AA
15494661 TATA
1 TATA
15494665 GATAGGACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (27 bp):
TATAACTTTATATATATAATTTTCCAA
Found at i:15497826 original size:49 final size:49
Alignment explanation
Indices: 15497754--15497854 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
15497744 GTTTGAAAGT
15497754 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
1 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
15497803 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
1 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
15497852 GTT
1 GTT
15497855 CTCTCAATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (49 bp):
GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
Found at i:15499560 original size:22 final size:22
Alignment explanation
Indices: 15499534--15499587 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
15499524 ATATCCAAAC
*
15499534 AATAATAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAACAA
* * **
15499556 TATAAAAATGAAATAGTAACAA
1 AATAATAACAAAATAGTAACAA
*
15499578 AACAATAACA
1 AATAATAACA
15499588 TAACAACAAC
Statistics
Matches: 22, Mismatches: 10, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
AATAATAACAAAATAGTAACAA
Found at i:15505590 original size:12 final size:12
Alignment explanation
Indices: 15505573--15505597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15505563 GAATAAGTAA
15505573 AAACGATGTATT
1 AAACGATGTATT
15505585 AAACGATGTATT
1 AAACGATGTATT
15505597 A
1 A
15505598 TTTACATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAACGATGTATT
Found at i:15510753 original size:25 final size:25
Alignment explanation
Indices: 15510725--15510783 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
15510715 GCTAATTGAT
*
15510725 GAGCACTAACATGCTAATAATCAGA
1 GAGCACCAACATGCTAATAATCAGA
*
15510750 GAGCACCAACGTGCTAATAATCAGA
1 GAGCACCAACATGCTAATAATCAGA
15510775 GAGCACCAA
1 GAGCACCAA
15510784 ACACAAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (25 bp):
GAGCACCAACATGCTAATAATCAGA
Found at i:15510888 original size:131 final size:131
Alignment explanation
Indices: 15510653--15510914 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 131
15510643 TTAATAGAAC
*
15510653 ACACAAGATATACGGAACATAACAGAACACCATCGAAACGGATGAACAGAGAGCACAAATGTGCT
1 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
15510718 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
66 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
15510783 A
131 A
15510784 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
1 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
*
15510849 AATTGATGAGCACTAACATGCTAATAATCAGAGATCACCAACGTGCTAATAATCAGAGAGCACCA
66 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
15510914 A
131 A
15510915 TGTGCTAATA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (131 bp):
ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
A
Found at i:15510895 original size:25 final size:25
Alignment explanation
Indices: 15510856--15510934 Score: 122
Period size: 25 Copynumber: 3.2 Consensus size: 25
15510846 GCTAATTGAT
* *
15510856 GAGCACTAACATGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
*
15510881 GATCACCAACGTGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
*
15510906 GAGCACCAATGTGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
15510931 GAGC
1 GAGC
15510935 GCGCTAAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (25 bp):
GAGCACCAACGTGCTAATAATCAGA
Found at i:15525632 original size:17 final size:17
Alignment explanation
Indices: 15525610--15525642 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15525600 TAGAATTGAG
15525610 TTGAGAACATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
15525627 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
15525643 GTTTAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:15527764 original size:13 final size:14
Alignment explanation
Indices: 15527744--15527784 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15527734 ATATGAAGAA
15527744 TATTATTTAAAATT
1 TATTATTTAAAATT
15527758 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
15527773 TATTA-TTAAAAT
1 TATTATTTAAAAT
15527785 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:15527769 original size:15 final size:17
Alignment explanation
Indices: 15527744--15527780 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
15527734 ATATGAAGAA
15527744 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
15527760 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
15527776 TATTA
1 TATTA
15527781 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:15528326 original size:15 final size:16
Alignment explanation
Indices: 15528306--15528338 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
15528296 TGAAGAATAT
15528306 TTTTTAAAA-TTATTA
1 TTTTTAAAATTTATTA
15528321 TTTTTAAAATTTATTA
1 TTTTTAAAATTTATTA
15528337 TT
1 TT
15528339 AACATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAATTTATTA
Found at i:15528365 original size:33 final size:33
Alignment explanation
Indices: 15528328--15528424 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 33
15528318 TTATTTTTAA
15528328 AATTTATTATTAACATAAAATTAAATATTAAAT
1 AATTTATTATTAACATAAAATTAAATATTAAAT
15528361 AATTTATTA--AA-ATAATAAATT--ATATT-AAT
1 AATTTATTATTAACAT-A-AAATTAAATATTAAAT
*
15528390 AATTTATTATATGAC-T-AAATATAAATAATTAAAT
1 AATTTATTAT-TAACATAAAAT-TAAAT-ATTAAAT
15528424 A
1 A
15528425 TGTATTTTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 21
0.70 0.01 0.28
Matches are distributed among these distances:
29 16 0.31
30 8 0.15
31 3 0.06
32 9 0.17
33 12 0.23
34 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
AATTTATTATTAACATAAAATTAAATATTAAAT
Found at i:15528398 original size:16 final size:16
Alignment explanation
Indices: 15528352--15528401 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15528342 ATAAAATTAA
15528352 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
15528369 A-A--AATAATAAATT
1 ATATTAATAATTTATT
15528382 ATATTAATAATTTATT
1 ATATTAATAATTTATT
15528398 ATAT
1 ATAT
15528402 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:15535026 original size:26 final size:26
Alignment explanation
Indices: 15534988--15535047 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15534978 ATCCACTCAT
* * *
15534988 GGTCATTCGACCAACTCAAACTCAAG
1 GGTCCTTCCACCAACTCAAACTAAAG
*
15535014 GGTCCTTCCACCAACTCAAGCTAAAG
1 GGTCCTTCCACCAACTCAAACTAAAG
*
15535040 GGACCTTC
1 GGTCCTTC
15535048 GATCCATCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (26 bp):
GGTCCTTCCACCAACTCAAACTAAAG
Found at i:15535549 original size:44 final size:44
Alignment explanation
Indices: 15535486--15535572 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
15535476 TTGCCCCAAG
15535486 GTTAACACAGAACGTCAATAGTCGTACACCCGAAAAAGGAAGGA
1 GTTAACACAGAACGTCAATAGTCGTACACCCGAAAAAGGAAGGA
15535530 GTTAACACAGAACGTCAATAGTCGTACACCCGAAAAAGGAAGG
1 GTTAACACAGAACGTCAATAGTCGTACACCCGAAAAAGGAAGG
15535573 TGGGACACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.14
Consensus pattern (44 bp):
GTTAACACAGAACGTCAATAGTCGTACACCCGAAAAAGGAAGGA
Found at i:15538431 original size:13 final size:14
Alignment explanation
Indices: 15538408--15538439 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15538398 AAAATTTAAA
15538408 AATATTAAAATATT
1 AATATTAAAATATT
15538422 AATA-TAAAATATT
1 AATATTAAAATATT
15538435 -ATATT
1 AATATT
15538440 TTCATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAAATATT
Found at i:15538529 original size:13 final size:14
Alignment explanation
Indices: 15538513--15538554 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15538503 TTTTAATTTT
15538513 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15538526 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
15538541 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15538555 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15538606 original size:15 final size:16
Alignment explanation
Indices: 15538585--15538630 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
15538575 TATTCAATAT
15538585 TAATATTTTAATAACA
1 TAATATTTTAATAACA
* *
15538601 -AATA-TTTATTAAAA
1 TAATATTTTAATAACA
15538615 TAATATTTTAATAACA
1 TAATATTTTAATAACA
15538631 CGCTAGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATTTTAATAACA
Found at i:15541315 original size:61 final size:61
Alignment explanation
Indices: 15541205--15541322 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
15541195 ATCTTAAATA
* ** * *
15541205 TAATAAATTTAACTTTCAATATTTATAAAATTTATCATTTTAGTACTAATTCTAAAATTTT
1 TAATAAATTTAACTCTCAATATTTATAAAATCCATCAATTTAATACTAATTCTAAAATTTT
* *
15541266 TAATAAATTTAA-TACTCAACT-TTTATAAAATCCATCAATTTAATCCTAATTTTAAAA
1 TAATAAATTTAACT-CTCAA-TATTTATAAAATCCATCAATTTAATACTAATTCTAAAA
15541323 ATTAAAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 1 0.02
61 46 0.96
62 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (61 bp):
TAATAAATTTAACTCTCAATATTTATAAAATCCATCAATTTAATACTAATTCTAAAATTTT
Found at i:15543990 original size:9 final size:9
Alignment explanation
Indices: 15543976--15544019 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
15543966 AGTTTTGAAT
15543976 ATTTTTATAA
1 ATTTTTAT-A
15543986 ATTTTTATA
1 ATTTTTATA
*
15543995 ATTTTTGTA
1 ATTTTTATA
15544004 ATTTTCTATA
1 ATTTT-TATA
15544014 AGTTTT
1 A-TTTT
15544020 CGTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 14 0.47
10 12 0.40
11 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15543998 original size:19 final size:19
Alignment explanation
Indices: 15543976--15544019 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15543966 AGTTTTGAAT
15543976 ATTTTTATAAATTTT-TATA
1 ATTTTTAT-AATTTTCTATA
*
15543995 ATTTTTGTAATTTTCTATA
1 ATTTTTATAATTTTCTATA
15544014 AGTTTT
1 A-TTTT
15544020 CGTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTCTATA
Found at i:15544026 original size:19 final size:18
Alignment explanation
Indices: 15543985--15544028 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15543975 TATTTTTATA
*
15543985 AATTTTTATAATTTTTGT
1 AATTTTTATAATTTTCGT
15544003 AATTTTCTATAAGTTTTCGT
1 AATTTT-TATAA-TTTTCGT
15544023 -ATTTTT
1 AATTTTT
15544029 TTGTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
AATTTTTATAATTTTCGT
Found at i:15546539 original size:18 final size:17
Alignment explanation
Indices: 15546500--15546534 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
15546490 TTTTCTACAA
15546500 ATTTTAATATTTTTTAT
1 ATTTTAATATTTTTTAT
15546517 ATTTTAA-ATTTTTTAT
1 ATTTTAATATTTTTTAT
15546533 AT
1 AT
15546535 ATTTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTAATATTTTTTAT
Found at i:15546564 original size:23 final size:22
Alignment explanation
Indices: 15546521--15546564 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
15546511 TTTTATATTT
**
15546521 TAAATTTTTTATATATTTTTTG
1 TAAATTTTTTATATAGATTTTG
*
15546543 TAAAGTTTTTTTTATAGATTTT
1 TAAA-TTTTTTATATAGATTTT
15546565 CAATGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
TAAATTTTTTATATAGATTTTG
Found at i:15547935 original size:2 final size:2
Alignment explanation
Indices: 15547924--15547953 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15547914 CAAATCAGTG
15547924 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15547954 GTGGTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15548881 original size:20 final size:20
Alignment explanation
Indices: 15548858--15548904 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15548848 AACTACAATA
*
15548858 ATAATGAGAATA-CTAATTTT
1 ATAATAAGAATATC-AATTTT
*
15548878 ATAATAATAATATCAATTTT
1 ATAATAAGAATATCAATTTT
15548898 ATAATAA
1 ATAATAA
15548905 TGGTACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAATAAGAATATCAATTTT
Found at i:15549506 original size:16 final size:16
Alignment explanation
Indices: 15549487--15549526 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15549477 GGCTAAACTG
*
15549487 TAAATAAATAAATGAA
1 TAAATAAATAAAGGAA
* *
15549503 TAAATAAATAGAGGAC
1 TAAATAAATAAAGGAA
15549519 TAAATAAA
1 TAAATAAA
15549527 AATTTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAATAAATAAAGGAA
Found at i:15550482 original size:2 final size:2
Alignment explanation
Indices: 15550475--15550500 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15550465 ACTTTCGTAT
15550475 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15550501 ATACTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15552419 original size:25 final size:25
Alignment explanation
Indices: 15552382--15552455 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
15552372 AGCTTTCTCT
* * *
15552382 TGAGCCATATAACGGGAAGCTTATG
1 TGAGCCTTGTAACGGGAAGCTCATG
* *
15552407 TGAGTCTTGTAACGGGAAACTCATG
1 TGAGCCTTGTAACGGGAAGCTCATG
*
15552432 TGAGCCTTGTAACCGGAAGCTCAT
1 TGAGCCTTGTAACGGGAAGCTCAT
15552456 TCGAGCTGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (25 bp):
TGAGCCTTGTAACGGGAAGCTCATG
Found at i:15554066 original size:44 final size:44
Alignment explanation
Indices: 15553963--15554256 Score: 257
Period size: 44 Copynumber: 6.6 Consensus size: 44
15553953 TCATTCTAAC
* * ** *
15553963 CCACTGCAACTTCAGAGG-TATAGGATTTGTAATTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * *
15554007 CCGCTACAACCTCAGGGAGATTAGATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * *
15554051 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * *
15554096 CCACTACAACTTTAGGGAAATAAGATTTGTAGCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
15554140 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * * * ** * *
15554185 TCATTGCAATTTCAGAGAAATAAGATTTGTAATTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* **
15554229 ACACTGCAACTTCAATGAGATAAGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
15554257 ATGGTTAACT
Statistics
Matches: 200, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
43 2 0.01
44 124 0.62
45 74 0.37
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:15554125 original size:89 final size:88
Alignment explanation
Indices: 15553963--15554256 Score: 315
Period size: 89 Copynumber: 3.3 Consensus size: 88
15553953 TCATTCTAAC
* * * * * * * *
15553963 CCACTGCAACTTCAGAGGTATAGGATTTGTAAT-TTCAATCTACTCCGCTACAACCTCAGGGAGA
1 CCACTGCAACTTCAGAAG-ATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
* *
15554027 TTAGATTTGTAGCTTTAATCTGCT
65 TAAGATTTGTAGCTTTAATATGCT
*
15554051 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
1 CCACTGCAACTTCA-GAAGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
*
15554116 TAAGATTTGTAGCTTCAATATGCT
65 TAAGATTTGTAGCTTTAATATGCT
* * * * * * *
15554140 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTTCATTGCAA-TTTCAGAGAA
1 CCACTGCAACTTCAGA-AGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTT-AGGGAA
**
15554204 ATAAGATTTGTAATTTTAATATGCT
64 ATAAGATTTGTAGCTTTAATATGCT
*
15554229 ACACTGCAACTTCA-ATGAGATAAGATTT
1 CCACTGCAACTTCAGA--AGATAAGATTT
15554257 ATGGTTAACT
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
88 31 0.18
89 145 0.82
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (88 bp):
CCACTGCAACTTCAGAAGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAAT
AAGATTTGTAGCTTTAATATGCT
Found at i:15555108 original size:21 final size:22
Alignment explanation
Indices: 15555065--15555110 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
15555055 AAAAATGATA
*
15555065 AAAATTATTTAAATTTAATTAT
1 AAAATTATATAAATTTAATTAT
15555087 AAAA-TATATAAATATTAA-TAT
1 AAAATTATATAAAT-TTAATTAT
15555108 AAA
1 AAA
15555111 TTTACTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTATATAAATTTAATTAT
Found at i:15557015 original size:109 final size:108
Alignment explanation
Indices: 15556842--15557038 Score: 288
Period size: 108 Copynumber: 1.8 Consensus size: 108
15556832 GGTGCCGGCC
* * *
15556842 ATTGACAGGCCAACACAAAAAAAATTTGCTTTTTTTGGGTACTTGTGGTGCCATTGACATGCCAA
1 ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTTGTGGTGCCATTGACAGGCCAA
* *
15556907 CACCAAAAATATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
66 CACAAAAAAAATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
* * *
15556950 ATTGACAGGCTAGCACAAAAAAAAATTGATTTTTTT-TGTACTTGGTGGTGGCCATTGACAGGCC
1 ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTT-GTGGT-GCCATTGACAGGCC
*
15557014 AATACAAAAAAAATTTGATTTTTTT
64 AACACAAAAAAAATTTGATTTTTTT
15557039 ACGTGGTGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 6 0.08
108 37 0.47
109 35 0.45
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (108 bp):
ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTTGTGGTGCCATTGACAGGCCAA
CACAAAAAAAATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
Found at i:15557050 original size:53 final size:53
Alignment explanation
Indices: 15556823--15557038 Score: 256
Period size: 53 Copynumber: 4.0 Consensus size: 53
15556813 TTTCTAAAAC
** *
15556823 TTGTACTTTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAATTTGCTTTTTT
1 TTGTAC-TTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
* * * *
15556877 TGGGTACTT-GTGGT-GCCATTGACATGCCAACACCAAAAATATTTGATTTTTTTTT
1 T-TGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGA---TTTTTT
** * * *
15556932 TTGTACTTGGTGGTGGAGATTGACAGGCTAGCACAAAAAAAAATTGATTTTTT
1 TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
*
15556985 TTGTACTTGGTGGTGGCCATTGACAGGCCAATACAAAAAAAATTTGATTTTTT
1 TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
15557038 T
1 T
15557039 ACGTGGTGGT
Statistics
Matches: 134, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
52 28 0.21
53 57 0.43
54 9 0.07
55 16 0.12
56 24 0.18
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (53 bp):
TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
Found at i:15573552 original size:109 final size:109
Alignment explanation
Indices: 15573412--15573631 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
15573402 TTTGAAAAAG
15573412 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
1 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
15573477 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
66 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
15573521 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
1 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
15573586 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
66 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
15573630 GA
1 GA
15573632 TTTTCCATCG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (109 bp):
GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
Found at i:15575628 original size:26 final size:27
Alignment explanation
Indices: 15575592--15575653 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
15575582 CCCGAAGCCC
* * *
15575592 ATTTTTAAAATAAACATTAAAAAA-GT
1 ATTTTAAAAATAAAAAATAAAAAATGT
*
15575618 ATTTTAAAAATAAAAAATAAAAAATTT
1 ATTTTAAAAATAAAAAATAAAAAATGT
15575645 ATTTTAAAA
1 ATTTTAAAA
15575654 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAATGT
Found at i:15575660 original size:11 final size:11
Alignment explanation
Indices: 15575644--15575675 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
15575634 ATAAAAAATT
15575644 TATTTTAAAAG
1 TATTTTAAAAG
15575655 TATTTTAAAAG
1 TATTTTAAAAG
15575666 TATTTTAAAA
1 TATTTTAAAA
15575676 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (11 bp):
TATTTTAAAAG
Found at i:15578594 original size:18 final size:17
Alignment explanation
Indices: 15578566--15578602 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
15578556 AAATATTATC
*
15578566 TATTTAATTAATTAAAT
1 TATTTAATTAACTAAAT
15578583 TATTTAAATTAACTAAAT
1 TATTT-AATTAACTAAAT
15578601 TA
1 TA
15578603 ATTTTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTAATTAACTAAAT
Found at i:15578622 original size:9 final size:9
Alignment explanation
Indices: 15578571--15578605 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15578561 TTATCTATTT
15578571 AATTAATTA
1 AATTAATTA
*
15578580 AATTATTTA
1 AATTAATTA
*
15578589 AATTAACTA
1 AATTAATTA
15578598 AATTAATT
1 AATTAATT
15578606 TTCCAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:15582458 original size:25 final size:25
Alignment explanation
Indices: 15582430--15582536 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
15582420 TGCTCTCACG
15582430 AGCTGTGAATTGAGAAGCTCATACA
1 AGCTGTGAATTGAGAAGCTCATACA
*** * *
15582455 AGCTACAAATTGGGAACCTCATA-A
1 AGCTGTGAATTGAGAAGCTCATACA
* * **
15582479 TAGCTGTAAATTGAAAAGCTCATATG
1 -AGCTGTGAATTGAGAAGCTCATACA
*
15582505 AGCTG-GAAATCGAGAAGCTCATACA
1 AGCTGTG-AATTGAGAAGCTCATACA
*
15582530 AGTTGTG
1 AGCTGTG
15582537 GTGTGTCCAC
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 1 0.02
25 59 0.97
26 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (25 bp):
AGCTGTGAATTGAGAAGCTCATACA
Found at i:15582526 original size:50 final size:50
Alignment explanation
Indices: 15582430--15582527 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
15582420 TGCTCTCACG
* * * *
15582430 AGCTGTGAATTGAGAAGCTCATACAAGCTACAAATTGGGAACCTCATAAT
1 AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATAAT
** ** *
15582480 AGCTGTAAATTGAAAAGCTCATATGAGCTGGAAATCGAGAAGCTCATA
1 AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATA
15582528 CAAGTTGTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (50 bp):
AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATAAT
Found at i:15587942 original size:27 final size:27
Alignment explanation
Indices: 15587901--15587989 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
15587891 TACATGTCAG
15587901 GAAAGAAAAGCCTTTGCGGCATAAAAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
* * *
15587928 GAAAGAAAAGTCTTTGTGGCATAATAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
* * * * *
15587955 GAAGGAAAAACCTTTGTGGTAGAAAAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
*
15587982 AAAAGAAA
1 GAAAGAAA
15587990 TTCATTTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.21
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGCGGCATAAAAT
Found at i:15605412 original size:30 final size:30
Alignment explanation
Indices: 15605376--15605436 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15605366 CTTGATTATA
15605376 ATCAAGTACAGATTTCCATGTGACCCTTCT
1 ATCAAGTACAGATTTCCATGTGACCCTTCT
*
15605406 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGACCCTTCT
15605436 A
1 A
15605437 ACTGTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (30 bp):
ATCAAGTACAGATTTCCATGTGACCCTTCT
Found at i:15621139 original size:23 final size:24
Alignment explanation
Indices: 15621113--15621165 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
15621103 AATAAGAAAA
15621113 CAAGAAT-ACAAAAAACGTGCTAC
1 CAAGAATAACAAAAAACGTGCTAC
* *
15621136 CAAGAATAGACAAAGAATGTGCTAC
1 CAAGAATA-ACAAAAAACGTGCTAC
15621161 CAAGA
1 CAAGA
15621166 GCATACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
25 19 0.73
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.13
Consensus pattern (24 bp):
CAAGAATAACAAAAAACGTGCTAC
Found at i:15621541 original size:24 final size:24
Alignment explanation
Indices: 15621514--15621567 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
15621504 AATCAAAGTC
* *
15621514 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
15621538 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15621562 AAATAT
1 AAATAT
15621568 TCTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15625967 original size:24 final size:24
Alignment explanation
Indices: 15625940--15625991 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15625930 AATCAAAGTC
*
15625940 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
15625964 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15625988 AAAT
1 AAAT
15625992 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15630778 original size:18 final size:18
Alignment explanation
Indices: 15630743--15630782 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
15630733 GAAATATTTA
*
15630743 TTTTGATGTTTCTAATAT
1 TTTTGATGTTTATAATAT
15630761 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
15630781 TT
1 TT
15630783 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:15640016 original size:29 final size:29
Alignment explanation
Indices: 15639963--15640031 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
15639953 TGGGAATGAT
*
15639963 TTAATCTTTATAAAAGTATTTAAATAAAAA
1 TTAATATTT-TAAAAGTATTTAAATAAAAA
* *
15639993 TTAAATATTTTAAAA-TATTTAAATAAGAG
1 TT-AATATTTTAAAAGTATTTAAATAAAAA
15640022 TTAATATTTT
1 TTAATATTTT
15640032 TGAAAGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.23
29 14 0.40
30 7 0.20
31 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAATATTTTAAAAGTATTTAAATAAAAA
Found at i:15641738 original size:24 final size:25
Alignment explanation
Indices: 15641705--15641755 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
15641695 AAATTTTAAT
*
15641705 ATACCATGT-AATTTTTTTTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
*
15641729 ATACCCTGTAAATTTTTTGTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
15641754 AT
1 AT
15641756 GCTCTATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (25 bp):
ATACCATGTAAATTTTTTGTTCAAA
Found at i:15644829 original size:823 final size:823
Alignment explanation
Indices: 15643244--15644889 Score: 3292
Period size: 823 Copynumber: 2.0 Consensus size: 823
15643234 ACTCCCCCCA
15643244 AACTTAATTCATTGCTCGTCCCGAGTAATGACACTTTATAAAGGAAAAAACACATAATTGCAATA
1 AACTTAATTCATTGCTCGTCCCGAGTAATGACACTTTATAAAGGAAAAAACACATAATTGCAATA
15643309 TATTAAGCATAATTAATTCTTCGTCTAGTCATGTCTTAGTGAAATTATACTCACTTTAAAATTTG
66 TATTAAGCATAATTAATTCTTCGTCTAGTCATGTCTTAGTGAAATTATACTCACTTTAAAATTTG
15643374 CAAATACGTAACTCAAGTATATACATCTTCCAAATTTCCTTGAGCATTAGAGGGCTATAAAAATT
131 CAAATACGTAACTCAAGTATATACATCTTCCAAATTTCCTTGAGCATTAGAGGGCTATAAAAATT
15643439 ATGAATTGAATGTTTTCTCCTTATGAGTGTGGACTATGGGTCCGTTTGTTTGTCAGGAAAACATT
196 ATGAATTGAATGTTTTCTCCTTATGAGTGTGGACTATGGGTCCGTTTGTTTGTCAGGAAAACATT
15643504 TTCCGAAAAATGTTTTCTTGGTTTTACGGTGTTTGGTTGCCTGAAAACCATTACATGGGGAAAAT
261 TTCCGAAAAATGTTTTCTTGGTTTTACGGTGTTTGGTTGCCTGAAAACCATTACATGGGGAAAAT
15643569 ATTTTCCAAAACACAGTAAATGAGATATTTTTTTAGGGAAAATGTCTTACAGATTTTTAATCGGT
326 ATTTTCCAAAACACAGTAAATGAGATATTTTTTTAGGGAAAATGTCTTACAGATTTTTAATCGGT
15643634 AAGACATTTTCCGGAAAATCTTCCTCCACTCTCACCATATTCTTTCTCCTTCTGTTCTTCATCTT
391 AAGACATTTTCCGGAAAATCTTCCTCCACTCTCACCATATTCTTTCTCCTTCTGTTCTTCATCTT
15643699 CCTTCTCCTTGTTCGTCCAATTCCCTTCTTCATCTGTTCTGTAAGTTTTTTTATGCTTTTTATTT
456 CCTTCTCCTTGTTCGTCCAATTCCCTTCTTCATCTGTTCTGTAAGTTTTTTTATGCTTTTTATTT
15643764 TCTGTATTTCATCTGTCTGTTGAAGAATCTTCTTCTTCTTCCTTTTTTATGCTTTTTATGATTGC
521 TCTGTATTTCATCTGTCTGTTGAAGAATCTTCTTCTTCTTCCTTTTTTATGCTTTTTATGATTGC
15643829 AGATTAGTTCATCCAGGAGGACTTTTAACAACTAATAAAGCTACTATTTTGGCTAAATTCCTCGA
586 AGATTAGTTCATCCAGGAGGACTTTTAACAACTAATAAAGCTACTATTTTGGCTAAATTCCTCGA
15643894 AAGGAAACTCCAAGATCCCAACGACGTGTTTTCCATTAATATTCAACTCCTTGAATTGGCTTTCA
651 AAGGAAACTCCAAGATCCCAACGACGTGTTTTCCATTAATATTCAACTCCTTGAATTGGCTTTCA
15643959 ATAACGCTAAAGCTACCATCTTTCAAAGTACTCTTTTTTTTTTCATTTCTTTTTCTTCTTTAATA
716 ATAACGCTAAAGCTACCATCTTTCAAAGTACTCTTTTTTTTTTCATTTCTTTTTCTTCTTTAATA
15644024 TGATTTTTTTGTGGAATTTTTGCTTAATTTTTCATCACAGATC
781 TGATTTTTTTGTGGAATTTTTGCTTAATTTTTCATCACAGATC
15644067 AACTTAATTCATTGCTCGTCCCGAGTAATGACACTTTATAAAGGAAAAAACACATAATTGCAATA
1 AACTTAATTCATTGCTCGTCCCGAGTAATGACACTTTATAAAGGAAAAAACACATAATTGCAATA
15644132 TATTAAGCATAATTAATTCTTCGTCTAGTCATGTCTTAGTGAAATTATACTCACTTTAAAATTTG
66 TATTAAGCATAATTAATTCTTCGTCTAGTCATGTCTTAGTGAAATTATACTCACTTTAAAATTTG
15644197 CAAATACGTAACTCAAGTATATACATCTTCCAAATTTCCTTGAGCATTAGAGGGCTATAAAAATT
131 CAAATACGTAACTCAAGTATATACATCTTCCAAATTTCCTTGAGCATTAGAGGGCTATAAAAATT
15644262 ATGAATTGAATGTTTTCTCCTTATGAGTGTGGACTATGGGTCCGTTTGTTTGTCAGGAAAACATT
196 ATGAATTGAATGTTTTCTCCTTATGAGTGTGGACTATGGGTCCGTTTGTTTGTCAGGAAAACATT
15644327 TTCCGAAAAATGTTTTCTTGGTTTTACGGTGTTTGGTTGCCTGAAAACCATTACATGGGGAAAAT
261 TTCCGAAAAATGTTTTCTTGGTTTTACGGTGTTTGGTTGCCTGAAAACCATTACATGGGGAAAAT
15644392 ATTTTCCAAAACACAGTAAATGAGATATTTTTTTAGGGAAAATGTCTTACAGATTTTTAATCGGT
326 ATTTTCCAAAACACAGTAAATGAGATATTTTTTTAGGGAAAATGTCTTACAGATTTTTAATCGGT
15644457 AAGACATTTTCCGGAAAATCTTCCTCCACTCTCACCATATTCTTTCTCCTTCTGTTCTTCATCTT
391 AAGACATTTTCCGGAAAATCTTCCTCCACTCTCACCATATTCTTTCTCCTTCTGTTCTTCATCTT
15644522 CCTTCTCCTTGTTCGTCCAATTCCCTTCTTCATCTGTTCTGTAAGTTTTTTTATGCTTTTTATTT
456 CCTTCTCCTTGTTCGTCCAATTCCCTTCTTCATCTGTTCTGTAAGTTTTTTTATGCTTTTTATTT
15644587 TCTGTATTTCATCTGTCTGTTGAAGAATCTTCTTCTTCTTCCTTTTTTATGCTTTTTATGATTGC
521 TCTGTATTTCATCTGTCTGTTGAAGAATCTTCTTCTTCTTCCTTTTTTATGCTTTTTATGATTGC
15644652 AGATTAGTTCATCCAGGAGGACTTTTAACAACTAATAAAGCTACTATTTTGGCTAAATTCCTCGA
586 AGATTAGTTCATCCAGGAGGACTTTTAACAACTAATAAAGCTACTATTTTGGCTAAATTCCTCGA
15644717 AAGGAAACTCCAAGATCCCAACGACGTGTTTTCCATTAATATTCAACTCCTTGAATTGGCTTTCA
651 AAGGAAACTCCAAGATCCCAACGACGTGTTTTCCATTAATATTCAACTCCTTGAATTGGCTTTCA
15644782 ATAACGCTAAAGCTACCATCTTTCAAAGTACTCTTTTTTTTTTCATTTCTTTTTCTTCTTTAATA
716 ATAACGCTAAAGCTACCATCTTTCAAAGTACTCTTTTTTTTTTCATTTCTTTTTCTTCTTTAATA
15644847 TGATTTTTTTGTGGAATTTTTGCTTAATTTTTCATCACAGATC
781 TGATTTTTTTGTGGAATTTTTGCTTAATTTTTCATCACAGATC
15644890 TGATCTAGTT
Statistics
Matches: 823, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
823 823 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (823 bp):
AACTTAATTCATTGCTCGTCCCGAGTAATGACACTTTATAAAGGAAAAAACACATAATTGCAATA
TATTAAGCATAATTAATTCTTCGTCTAGTCATGTCTTAGTGAAATTATACTCACTTTAAAATTTG
CAAATACGTAACTCAAGTATATACATCTTCCAAATTTCCTTGAGCATTAGAGGGCTATAAAAATT
ATGAATTGAATGTTTTCTCCTTATGAGTGTGGACTATGGGTCCGTTTGTTTGTCAGGAAAACATT
TTCCGAAAAATGTTTTCTTGGTTTTACGGTGTTTGGTTGCCTGAAAACCATTACATGGGGAAAAT
ATTTTCCAAAACACAGTAAATGAGATATTTTTTTAGGGAAAATGTCTTACAGATTTTTAATCGGT
AAGACATTTTCCGGAAAATCTTCCTCCACTCTCACCATATTCTTTCTCCTTCTGTTCTTCATCTT
CCTTCTCCTTGTTCGTCCAATTCCCTTCTTCATCTGTTCTGTAAGTTTTTTTATGCTTTTTATTT
TCTGTATTTCATCTGTCTGTTGAAGAATCTTCTTCTTCTTCCTTTTTTATGCTTTTTATGATTGC
AGATTAGTTCATCCAGGAGGACTTTTAACAACTAATAAAGCTACTATTTTGGCTAAATTCCTCGA
AAGGAAACTCCAAGATCCCAACGACGTGTTTTCCATTAATATTCAACTCCTTGAATTGGCTTTCA
ATAACGCTAAAGCTACCATCTTTCAAAGTACTCTTTTTTTTTTCATTTCTTTTTCTTCTTTAATA
TGATTTTTTTGTGGAATTTTTGCTTAATTTTTCATCACAGATC
Found at i:15647770 original size:45 final size:45
Alignment explanation
Indices: 15647719--15647806 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
15647709 GAAGTAAGAG
* * *
15647719 AATGGTCTGCTAATAGGGACGAAATTGCACAAACTATGTGGACAA
1 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACAA
*
15647764 AATGGTCTACTAAGAGAGACGAAATTTCACAAACTATGTGGAC
1 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGAC
15647807 TAATTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (45 bp):
AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACAA
Found at i:15655555 original size:27 final size:27
Alignment explanation
Indices: 15655517--15655571 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15655507 TTTTGAAATT
*
15655517 ATTATGTCTTAAATTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
* *
15655544 ATTATGTTTTAAGCTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
15655571 A
1 A
15655572 ATTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
ATTATGTCTTAAACTTGTTAGATATTG
Found at i:15655583 original size:32 final size:32
Alignment explanation
Indices: 15655544--15655604 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
15655534 TTAGATATTG
15655544 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
15655576 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
15655605 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:15656826 original size:28 final size:28
Alignment explanation
Indices: 15656794--15656848 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
15656784 ATCTCAAATG
15656794 TATGTTTGTTTCATTGAAAACAACTTTA
1 TATGTTTGTTTCATTGAAAACAACTTTA
15656822 TATGTTTGTTTCATTGAAAACAACTTT
1 TATGTTTGTTTCATTGAAAACAACTTT
15656849 TAGAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (28 bp):
TATGTTTGTTTCATTGAAAACAACTTTA
Found at i:15665810 original size:25 final size:25
Alignment explanation
Indices: 15665768--15665848 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
15665758 GGACACACCA
* *
15665768 CAGCTCTTATGAGTTTCCCGATACT
1 CAGCTCGTATGAGCTTCCCGATACT
* * *
15665793 CATCTCGTATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGATACT
* * * *
15665818 CAGCTCGCATGAGCTTTCCGTTATT
1 CAGCTCGTATGAGCTTCCCGATACT
15665843 CAGCTC
1 CAGCTC
15665849 AAAAGAGCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCGATACT
Found at i:15665856 original size:25 final size:25
Alignment explanation
Indices: 15665803--15665858 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
15665793 CATCTCGTAT
** *
15665803 GAGCTTCCCGTTATTCAGCTCGCAT
1 GAGCTTCCCGTTATTCAGCTCAAAA
*
15665828 GAGCTTTCCGTTATTCAGCTCAAAA
1 GAGCTTCCCGTTATTCAGCTCAAAA
15665853 GAGCTT
1 GAGCTT
15665859 GCTGTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATTCAGCTCAAAA
Found at i:15668299 original size:16 final size:16
Alignment explanation
Indices: 15668274--15668321 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
15668264 TGAGCAATTT
*
15668274 AATAGATAAAATAAAA
1 AATATATAAAATAAAA
* **
15668290 AATATTTAAAATTCAA
1 AATATATAAAATAAAA
*
15668306 AATATATAAACTAAAA
1 AATATATAAAATAAAA
15668322 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AATATATAAAATAAAA
Found at i:15675069 original size:27 final size:29
Alignment explanation
Indices: 15675012--15675074 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
15675002 TATTAATAAG
**
15675012 AATAATAGTGTTAAATACTTTTCCTTCAAA
1 AATAATAACGTTAAATACTTTT-CTTCAAA
*
15675042 AATAATAACGTTAAATA-TTTT-TTTAAA
1 AATAATAACGTTAAATACTTTTCTTCAAA
15675069 AATAAT
1 AATAAT
15675075 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
29 4 0.13
30 15 0.50
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
AATAATAACGTTAAATACTTTTCTTCAAA
Found at i:15684470 original size:23 final size:24
Alignment explanation
Indices: 15684443--15684487 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15684433 TATATGTTAA
15684443 AAATGA-AATTAAAA-ATAAAAATT
1 AAATGATAA-TAAAACATAAAAATT
15684466 AAATGATAATAAAACATAAAAA
1 AAATGATAATAAAACATAAAAA
15684488 CAAAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATGATAATAAAACATAAAAATT
Found at i:15695672 original size:50 final size:50
Alignment explanation
Indices: 15695606--15695799 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 50
15695596 AGTGACAGTG
* *
15695606 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAAATGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAAATGA
* * * * * *
15695656 AAGGTCGCATGTGTAGTACTATTTGCAGGCTATTACGTGTATCAGATATTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCA-AAATGA
* * * * *
15695707 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCGAAAA-GT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AAAATGA
* * * *
15695757 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC
15695800 GAATGATAAT
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
50 74 0.64
51 41 0.35
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAAATGA
Found at i:15695787 original size:101 final size:101
Alignment explanation
Indices: 15695606--15695799 Score: 246
Period size: 101 Copynumber: 1.9 Consensus size: 101
15695596 AGTGACAGTG
* * * * * * *
15695606 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAAATGAAAGGTCGCATGTGTA
1 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCAAAATGAAAGATCACATGTGTA
* * *
15695671 GTACTATTTGCAGGCTATTACGTGTATCAGATATTA
66 GTACTATGTGAAGGCTACTACGTGTATCAGATATTA
*** *
15695707 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCGAAAA-GTTTGATCACGTGTGT
1 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACC-AAAATGAAAGATCACATGTGT
15695771 AGTACTATGTGAAGGCTACTACGTGTATC
65 AGTACTATGTGAAGGCTACTACGTGTATC
15695800 GAATGATAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 74 0.95
102 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (101 bp):
ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCAAAATGAAAGATCACATGTGTA
GTACTATGTGAAGGCTACTACGTGTATCAGATATTA
Found at i:15696997 original size:40 final size:40
Alignment explanation
Indices: 15696898--15697013 Score: 99
Period size: 40 Copynumber: 2.9 Consensus size: 40
15696888 AAAAACTCCG
* * **
15696898 CTAAAAATCGAACATTAGCGGCG-CTTTATGAAAATCGCCA
1 CTAAAAAT-GAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
* * * **
15696938 CTAAAGATTTAGCAATAGCGGCGTTTTTAAAAAAATTTCCA
1 CTAAA-AATGAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
* **
15696979 CTAAAAATGAGCATTAGCGGCATTTTCCAAAAAAT
1 CTAAAAATGAGCATTAGCGGCGTTTTTAAAAAAAT
15697014 GCCGCAAAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
40 40 0.68
41 19 0.32
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (40 bp):
CTAAAAATGAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
Found at i:15697116 original size:41 final size:41
Alignment explanation
Indices: 15697059--15697440 Score: 575
Period size: 41 Copynumber: 9.3 Consensus size: 41
15697049 GGGCCTTTCG
*
15697059 TGGTCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
15697100 TGGTCTTTAGCGGCGTTTTTAGAAAAGCACCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
15697141 TAGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
15697182 TGGTCTTTAGCGGCGTTTTTAGAAAAGCACCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
15697223 TAGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
15697264 TGGTCTTTAGCGTCATTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * *
15697305 TGGTCTTTAGCGTCATTTTTGGAAAAGCGCCACGAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * *
15697346 TGGTCTTTGGCGGCATTTTTGGCAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * * *
15697387 TGGCCTTTATCGGCATTTTTGGAAAAGCGCTGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
15697428 TGGCCTTTAGCGG
1 TGGTCTTTAGCGG
15697441 AATTTTTAAA
Statistics
Matches: 313, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 313 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.32
Consensus pattern (41 bp):
TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:15697978 original size:50 final size:50
Alignment explanation
Indices: 15697903--15698009 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
15697893 TATGGTTTGT
* * *
15697903 TCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
15697953 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
15698003 TCTCATA
1 TCTCATA
15698010 ACCTCAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
Found at i:15698523 original size:18 final size:18
Alignment explanation
Indices: 15698477--15698528 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
15698467 AGGACCAAAT
* *
15698477 TATAAGAAATAAAATTAA
1 TATAAAAAATAAAAATAA
* *
15698495 AATACAAAAATAAAAATGA
1 TATA-AAAAATAAAAATAA
15698514 TATAAAAAATAAAAA
1 TATAAAAAATAAAAA
15698529 ATATAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (18 bp):
TATAAAAAATAAAAATAA
Found at i:15702732 original size:43 final size:43
Alignment explanation
Indices: 15702683--15702821 Score: 174
Period size: 43 Copynumber: 3.2 Consensus size: 43
15702673 GTTCTATAGT
15702683 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGAG-CTTTAGC
1 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATG-GTCTTTAGC
* * ** *
15702726 GGCGTTTGTGATAAAAGTGCCGTTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGGTCTTTAGC
* * *
15702769 GGCGTTTGTTACAAAAGCGA-AGCTAAAGGTCGTGGTCTTTAGC
1 GGCGTTTGTAACAAAAGC-ACCGCTAAAGGTCATGGTCTTTAGC
15702812 GGCGTTTGTA
1 GGCGTTTGTA
15702822 GGTAAAAACG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.99
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGGTCTTTAGC
Found at i:15702794 original size:86 final size:85
Alignment explanation
Indices: 15702659--15702820 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
15702649 TGCGAGAAGC
* * * *
15702659 GCCGTTAAAGGTTTGTTCTATAGTGGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGAG-CTTT
1 GCCGTTAAAGGTATGGTCTATAGCGGCGTTTGTAACAAAAGCACAGCTAAAGGTCATG-GTCTTT
15702723 AGCGGCGTTTGTGATAAAAGT
65 AGCGGCGTTTGTGATAAAAGT
* * *
15702744 GCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGCGA-AGCTAAAGGTCGTGGTCTT
1 GCCGTTAAAGGT-ATGGTCTATAGCGGCGTTTGTAACAAAAGC-ACAGCTAAAGGTCATGGTCTT
15702808 TAGCGGCGTTTGT
64 TAGCGGCGTTTGT
15702821 AGGTAAAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 13 0.19
86 53 0.79
87 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (85 bp):
GCCGTTAAAGGTATGGTCTATAGCGGCGTTTGTAACAAAAGCACAGCTAAAGGTCATGGTCTTTA
GCGGCGTTTGTGATAAAAGT
Found at i:15706218 original size:13 final size:13
Alignment explanation
Indices: 15706202--15706226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15706192 GAAAGATTTC
15706202 TTGAAAATTTCGT
1 TTGAAAATTTCGT
15706215 TTGAAAATTTCG
1 TTGAAAATTTCG
15706227 ACGTTTGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGAAAATTTCGT
Found at i:15707315 original size:51 final size:48
Alignment explanation
Indices: 15707196--15707431 Score: 197
Period size: 51 Copynumber: 4.7 Consensus size: 48
15707186 AAAGTGATGG
* * *** *
15707196 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAC--GTACCAGATA-GTTCGA
* * *
15707246 TCGCATGTGTAGTACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA--CGTACCAGATAG-TTCGA
* * * *
15707297 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCAGTTA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAC--GTACCAGATAGTT--CGA
* * *
15707348 TCACGTGTGTAGTACTATGTGCAGACTACTACGTAAACCGGAAAGTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGT--ACCAGATAGTTCGA
*
15707398 TCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGT
15707432 GTATCGAATG
Statistics
Matches: 150, Mismatches: 25, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
49 5 0.03
50 68 0.45
51 74 0.49
52 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (48 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTACCAGATAGTTCGA
Found at i:15707464 original size:101 final size:101
Alignment explanation
Indices: 15707196--15707471 Score: 328
Period size: 101 Copynumber: 2.7 Consensus size: 101
15707186 AAAGTGATGG
* *
15707196 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
* * *
15707259 ACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGACTACTA-GCGTACCAGAAAGCTTCGA
* * * * *
15707297 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATC-AGTTATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGA-TAATGGTCACATGTGTAGT
*
15707361 ACTATGTGCAGACTACTA-CGTAAACCGGAAAG-TTCGA
65 ACTATGTGCAGACTACTAGCGT--ACCAGAAAGCTTCGA
* * * * *
15707398 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
15707463 CTATGTGCA
66 CTATGTGCA
15707472 AACCACCGAA
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 104 0.70
102 39 0.26
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGACTACTAGCGTACCAGAAAGCTTCGA
Found at i:15724339 original size:16 final size:17
Alignment explanation
Indices: 15724299--15724340 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
15724289 GTAGTAGATT
*
15724299 GATTACGTTGGTAAGGC
1 GATTATGTTGGTAAGGC
15724316 GTATTATGTTGGTAAGGC
1 G-ATTATGTTGGTAAGGC
15724334 -ATTATGT
1 GATTATGT
15724341 GATTTAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 1 0.04
18 15 0.65
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (17 bp):
GATTATGTTGGTAAGGC
Found at i:15726415 original size:16 final size:16
Alignment explanation
Indices: 15726394--15726429 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15726384 CTGCACTACT
15726394 TTTGTTGAAACGAACC
1 TTTGTTGAAACGAACC
*
15726410 TTTGTTGAAACGATCC
1 TTTGTTGAAACGAACC
15726426 TTTG
1 TTTG
15726430 ACATCCGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (16 bp):
TTTGTTGAAACGAACC
Found at i:15732338 original size:45 final size:45
Alignment explanation
Indices: 15732282--15732376 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
15732272 TACTATGTGA
* * *
15732282 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
*
15732327 ACCGGACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
15732372 ACCGA
1 ACCGA
15732377 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
Found at i:15736983 original size:29 final size:29
Alignment explanation
Indices: 15736951--15737078 Score: 168
Period size: 29 Copynumber: 4.4 Consensus size: 29
15736941 GATGCCTTTA
* *
15736951 TGGCTATCTTTATTAAAAGGAAGTTTTTG
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
*
15736980 TGGCTATCTCTATTAAAAGGAAGCGTTT-
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
* * *
15737008 TGGCTATCTCTGTGAAAAGGAAGCTTTTA
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
* *
15737037 TGGCTATCTCTACTAAAAGGAAGCCTTTG
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
*
15737066 TGGCAATCTCTAT
1 TGGCTATCTCTAT
15737079 CAAAGGATTC
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 25 0.29
29 60 0.71
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (29 bp):
TGGCTATCTCTATTAAAAGGAAGCTTTTG
Found at i:15737029 original size:57 final size:58
Alignment explanation
Indices: 15736907--15737078 Score: 186
Period size: 57 Copynumber: 3.0 Consensus size: 58
15736897 TAGCTTCCAT
* * * * * * * *
15736907 AAAAGGACA-TTTTTGTAGTTATATCTATTCAATGGATGCCTTTATGGCTATCTTTATT
1 AAAAGGA-AGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
* *
15736965 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCGTTT-TGGCTATCTCTGTG
1 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
* * * * *
15737022 AAAAGGAAGCTTTTATGGCTATCTCTACTAAAAGGAAGCCTTTGTGGCAATCTCTAT
1 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTAT
15737079 CAAAGGATTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 51 0.53
58 45 0.47
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (58 bp):
AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
Found at i:15737092 original size:28 final size:29
Alignment explanation
Indices: 15736944--15737097 Score: 125
Period size: 29 Copynumber: 5.4 Consensus size: 29
15736934 TTCAATGGAT
* * * *
15736944 GCCTTTATGGCTATCTTTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
** * *
15736973 GTTTTTGTGGCTATCTCTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
* * *
15737002 GCGTTT-TGGCTATCTCT-GTGAAAAGGAA
1 GCCTTTGTGGCAATCTCTACT-AAAAGGAA
* * *
15737030 GCTTTTATGGCTATCTCTACTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
* *
15737059 GCCTTTGTGGCAATCTCTA-TCAAAGGAT
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
*
15737087 TCCTTTGTGGC
1 GCCTTTGTGGC
15737098 GAGACTCTAA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 41 0.38
29 64 0.60
30 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (29 bp):
GCCTTTGTGGCAATCTCTACTAAAAGGAA
Found at i:15738953 original size:61 final size:58
Alignment explanation
Indices: 15738877--15739027 Score: 162
Period size: 56 Copynumber: 2.6 Consensus size: 58
15738867 ATACAACATG
* * * * * *
15738877 CAGTTACAGTTTGGGCCTGAGCCCTAATCAGTAATAGCACAGTGTGGGCCTTAGCACGATA
1 CAGTAACAGTGTGGGCCTTAGCCC-AATCAGTAATA--ACAGTATGGGCCATAGCACAATA
* *
15738938 CAGTAACAGTGTGGGCCTTAGCCCAAT-A-CAATAACAGTATGGGCCATAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATCAGTAATAACAGTATGGGCCATAGCACAATA
* *
15738994 CAATAACAGTGTGGGTCTTAGCCCAATGCAGTAA
1 CAGTAACAGTGTGGGCCTTAGCCCAAT-CAGTAA
15739028 CAGTATAGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 44 0.58
58 5 0.07
59 3 0.04
60 3 0.04
61 21 0.28
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (58 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATCAGTAATAACAGTATGGGCCATAGCACAATA
Found at i:15738955 original size:28 final size:28
Alignment explanation
Indices: 15738915--15739031 Score: 162
Period size: 28 Copynumber: 4.2 Consensus size: 28
15738905 CAGTAATAGC
* * *
15738915 ACAGTGTGGGCCTTAGCACGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
15738943 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* *
15738971 ACAGTATGGGCCATAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* * *
15738999 ACAGTGTGGGTCTTAGCCCAATGCAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
15739027 ACAGT
1 ACAGT
15739032 ATAGTGCAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:15739171 original size:26 final size:26
Alignment explanation
Indices: 15739140--15739241 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
15739130 CCAATATCGT
* *
15739140 AGCAAACCTGCCAGTAACAGTATAGT
1 AGCAAAGCTGCCAGTAACAGTATAGC
* *
15739166 AACAAAGCTGCCAGTAACAATATCA-C
1 AGCAAAGCTGCCAGTAACAGTAT-AGC
* * *
15739192 AGCAAAGTTGCCAATAACAGTATCGC
1 AGCAAAGCTGCCAGTAACAGTATAGC
15739218 AGCAAAGCTGCCAGTAACAGTATA
1 AGCAAAGCTGCCAGTAACAGTATA
15739242 CTTCCTCTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 61 0.98
27 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTATAGC
Found at i:15739573 original size:27 final size:26
Alignment explanation
Indices: 15739393--15739586 Score: 165
Period size: 27 Copynumber: 7.2 Consensus size: 26
15739383 TATAACAGTT
* *
15739393 ATTTTACCCTATGGGGGTATTTCAGG-C
1 ATTTTACCCT-TCGGGGTAATTC-GGTC
* * * *
15739420 ATTCTACCCTTAGGGTGTATTTCAGTC
1 ATTTTACCCTTCGGG-GTAATTCGGTC
* *
15739447 ATTTTACCCTTCGGAGGTAACTCGATC
1 ATTTTACCCTTCGG-GGTAATTCGGTC
*
15739474 ATTTTACCCTTCTGGGGTAATTCGATC
1 ATTTTACCCTTC-GGGGTAATTCGGTC
* * *
15739501 ATTTTTACCCTTCAAGGGTAATTCAGTT
1 A-TTTTACCCTTC-GGGGTAATTCGGTC
15739529 ATTTTACCCTTCGGGGGTAATTCGGTC
1 ATTTTACCCTTC-GGGGTAATTCGGTC
* * *
15739556 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCTTCG-GGGTAATTCGGTC
15739583 ATTT
1 ATTT
15739587 GCCCATAATT
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.04
27 108 0.78
28 25 0.18
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTACCCTTCGGGGTAATTCGGTC
Found at i:15739585 original size:82 final size:81
Alignment explanation
Indices: 15739393--15739586 Score: 223
Period size: 82 Copynumber: 2.4 Consensus size: 81
15739383 TATAACAGTT
* * * *
15739393 ATTTTACCCTATGGGGGTATTTCAGGCA-TTCTACCCTTAGGGTGTATTTCAGTCATTTTACCCT
1 ATTTTACCC-ATCGGGGTATTTCAGTCATTTCTACCCTTAAGGTGTAATTCAGTCATTTTACCCT
15739457 TCGGAGGTAACTCGATC
65 TCGGAGGTAACTCGATC
* * * *
15739474 ATTTTACCCTTCTGGGGTAATTC-GATCATTTTTACCCTTCAAGG-GTAATTCAGTTATTTTACC
1 ATTTTACCCATC-GGGGTATTTCAG-TCATTTCTACCCTT-AAGGTGTAATTCAGTCATTTTACC
* * *
15739537 CTTCGGGGGTAATTCGGTC
63 CTTCGGAGGTAACTCGATC
15739556 ATTTTACCCATCGAGGGTATTTCAGTCATTT
1 ATTTTACCCATCG-GGGTATTTCAGTCATTT
15739587 GCCCATAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
80 2 0.02
81 21 0.22
82 67 0.71
83 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (81 bp):
ATTTTACCCATCGGGGTATTTCAGTCATTTCTACCCTTAAGGTGTAATTCAGTCATTTTACCCTT
CGGAGGTAACTCGATC
Found at i:15741995 original size:18 final size:18
Alignment explanation
Indices: 15741972--15742006 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15741962 TGGTTGGTTC
15741972 TAATGAGAATAATAATGT
1 TAATGAGAATAATAATGT
*
15741990 TAATGAGCATAATAATG
1 TAATGAGAATAATAATG
15742007 CACAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
TAATGAGAATAATAATGT
Found at i:15743699 original size:34 final size:34
Alignment explanation
Indices: 15743656--15743725 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
15743646 TTTTCAACAG
*
15743656 TAAGTTTTCTACAAAACCCTATTTTTAACTCTTA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
15743690 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
15743724 TA
1 TA
15743726 CTTTGTTTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (34 bp):
TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
Found at i:15743943 original size:31 final size:31
Alignment explanation
Indices: 15743902--15743962 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
15743892 TTGCGAGCAT
* * *
15743902 AGCTCCCTATGCTAGTTCTCTGTGATAAGTA
1 AGCTCCCTATGCGAGCTCTCTATGATAAGTA
* *
15743933 AGCTCTCTATGCGAGCTCTCTATGCTAAGT
1 AGCTCCCTATGCGAGCTCTCTATGATAAGT
15743963 CTCTGTGTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (31 bp):
AGCTCCCTATGCGAGCTCTCTATGATAAGTA
Found at i:15743951 original size:13 final size:13
Alignment explanation
Indices: 15743933--15743957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15743923 GTGATAAGTA
15743933 AGCTCTCTATGCG
1 AGCTCTCTATGCG
15743946 AGCTCTCTATGC
1 AGCTCTCTATGC
15743958 TAAGTCTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (13 bp):
AGCTCTCTATGCG
Found at i:15748814 original size:18 final size:18
Alignment explanation
Indices: 15748793--15748830 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15748783 CTAATAATTT
**
15748793 AAAAAGTATATTTATTCA
1 AAAAAGTATAAATATTCA
15748811 AAAAAGTATAAATATTCA
1 AAAAAGTATAAATATTCA
15748829 AA
1 AA
15748831 TTATTGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAAGTATAAATATTCA
Found at i:15753343 original size:16 final size:16
Alignment explanation
Indices: 15753322--15753353 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15753312 TGACATGTGG
*
15753322 CAATTTTTTGTTCAAC
1 CAATTTTTTGTCCAAC
15753338 CAATTTTTTGTCCAAC
1 CAATTTTTTGTCCAAC
15753354 ATCAAATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
CAATTTTTTGTCCAAC
Found at i:15757709 original size:27 final size:27
Alignment explanation
Indices: 15757660--15757758 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
15757650 GACAAACCCT
* * * *
15757660 AAAGGAACTCATTTATGGTGCAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
** *
15757687 AAAGGAATTCCTTTGTGGGGCAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
*
15757714 AAAGGAACGCCTTTGTGGCACAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
* *
15757741 AAAGGAATGCCTCTGTGG
1 AAAGGAACGCCTTTGTGG
15757759 AAAAATATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (27 bp):
AAAGGAACGCCTTTGTGGCGCAATATG
Found at i:15757765 original size:27 final size:27
Alignment explanation
Indices: 15757680--15757771 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
15757670 ATTTATGGTG
* **
15757680 CAATATGAAAGGAATTCCTTTGTGGGG
1 CAATATGAAAGGAATGCCTTTGTGGAA
* *
15757707 CAATATGAAAGGAACGCCTTTGTGGCA
1 CAATATGAAAGGAATGCCTTTGTGGAA
*
15757734 CAATATGAAAGGAATGCCTCTGTGGAA
1 CAATATGAAAGGAATGCCTTTGTGGAA
* *
15757761 AAATATTAAAG
1 CAATATGAAAG
15757772 AGTAGTCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (27 bp):
CAATATGAAAGGAATGCCTTTGTGGAA
Found at i:15760482 original size:20 final size:20
Alignment explanation
Indices: 15760457--15760495 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15760447 TTACTTTTTC
15760457 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
15760477 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
15760496 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:15760825 original size:50 final size:50
Alignment explanation
Indices: 15760697--15760938 Score: 193
Period size: 50 Copynumber: 4.7 Consensus size: 50
15760687 AATAATAACA
* * * *
15760697 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAG
* * * *
15760746 TGCCAATGCCATATCTCAAATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* ** * *
15760796 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATATCAG
* ** ** *
15760846 TGCCAAAGCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAAACTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT--A-TC---AG
** *
15760902 TGCCAATTTCATGTCCCACACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15760939 TCTCATCCCC
Statistics
Matches: 153, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
48 3 0.02
49 36 0.24
50 80 0.52
51 1 0.01
53 2 0.01
56 31 0.20
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
Found at i:15761088 original size:22 final size:21
Alignment explanation
Indices: 15761044--15761088 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
15761034 TCGACATCAA
**
15761044 ATAATTTCATAAAATAAGTAC
1 ATAATTTCATAAAATAACAAC
*
15761065 ATAATTTCTTGAAAATAACAAC
1 ATAATTTCAT-AAAATAACAAC
15761087 AT
1 AT
15761089 TAATAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATTTCATAAAATAACAAC
Found at i:15765695 original size:22 final size:22
Alignment explanation
Indices: 15765653--15765696 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15765643 GCAAAAAATT
15765653 CTGCCAGTAAAAATGTAGACAAG
1 CTGCCAGTAAAAA-GTAGACAAG
15765676 CTGCCAGTAAAAA-TACGACAA
1 CTGCCAGTAAAAAGTA-GACAA
15765697 ATCGCCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 5 0.25
23 13 0.65
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (22 bp):
CTGCCAGTAAAAAGTAGACAAG
Found at i:15772872 original size:27 final size:27
Alignment explanation
Indices: 15772839--15772978 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
15772829 CGGTGAACCC
15772839 TGAAAGGAACACCTTTGTGGCATAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* * *
15772866 TTAAAGGAACACCTTTATGGCGTAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* * *
15772893 TAAAAGGAACGCCTTTGTGGCACAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* *
15772920 TGAAAGGACCGCCTTTGT-G-ATGCAATA
1 TGAAAGGAACACCTTTGTGGCAT--AATA
*
15772947 TGAAGGGAACACCTTTGTGGCGA-AATA
1 TGAAAGGAACACCTTTGTGGC-ATAATA
15772974 TGAAA
1 TGAAA
15772979 AGTAGCTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 89 0.96
28 1 0.01
30 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (27 bp):
TGAAAGGAACACCTTTGTGGCATAATA
Found at i:15772993 original size:26 final size:27
Alignment explanation
Indices: 15772959--15773038 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
15772949 AAGGGAACAC
15772959 CTTTGTGGCGAAATATGAAA-AGTAG-
1 CTTTGTGGCGAAATATGAAAGAGTAGT
15772984 CTTTTGTGGCGAAATATGAAAGAGTAGT
1 C-TTTGTGGCGAAATATGAAAGAGTAGT
* * *
15773012 CTTTATGGAGAAATATGAAATAGTAGT
1 CTTTGTGGCGAAATATGAAAGAGTAGT
15773039 GTAGCATCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 19 0.39
27 28 0.57
28 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCGAAATATGAAAGAGTAGT
Found at i:15774535 original size:27 final size:27
Alignment explanation
Indices: 15774492--15774559 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
15774482 TATGAAATAG
*
15774492 AAGCCTTT-TCGGTGTATTTGTAAAGAA
1 AAGCCTTTGT-GGCGTATTTGTAAAGAA
15774519 AAGCCTTTGTGGCGTATTTGTAAAGAA
1 AAGCCTTTGTGGCGTATTTGTAAAGAA
*
15774546 AAACCTTTGTGGCG
1 AAGCCTTTGTGGCG
15774560 AGCCTATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
AAGCCTTTGTGGCGTATTTGTAAAGAA
Found at i:15774585 original size:30 final size:28
Alignment explanation
Indices: 15774540--15774613 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 28
15774530 GCGTATTTGT
* * *
15774540 AAAGAAAAACCTTTGTGGCGAGCCTATGA
1 AAAGGAAAGCCTTTGTGGCAAGCCTAT-A
* *
15774569 AATGGAAAGGCCTTTGTGGCAAGCCTCTA
1 AAAGGAAA-GCCTTTGTGGCAAGCCTATA
15774598 AAAGGAAAGCCTTTGT
1 AAAGGAAAGCCTTTGT
15774614 AGAGAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 8 0.21
29 14 0.37
30 16 0.42
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (28 bp):
AAAGGAAAGCCTTTGTGGCAAGCCTATA
Found at i:15774701 original size:29 final size:30
Alignment explanation
Indices: 15774629--15774703 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
15774619 AATTTTGTAC
* * * *
15774629 AAAAAGCCTTTATGGCAAATCTCTGTAAAGG
1 AAAAAGCCCTTGTGGCAAACCTCTCTAAA-G
*
15774660 AAAAAGCCGTTGTGGCAAACCTCTCTAAA-
1 AAAAAGCCCTTGTGGCAAACCTCTCTAAAG
15774689 AAAAAGCCCTTGTGG
1 AAAAAGCCCTTGTGG
15774704 TGACTTCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 14 0.36
31 25 0.64
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (30 bp):
AAAAAGCCCTTGTGGCAAACCTCTCTAAAG
Found at i:15776159 original size:26 final size:26
Alignment explanation
Indices: 15776121--15776170 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15776111 GCTTTACAAT
15776121 TAGCCTCTATGGAGAAATATGAAAAG
1 TAGCCTCTATGGAGAAATATGAAAAG
* * *
15776147 TAGCCTTTTTGGATAAATATGAAA
1 TAGCCTCTATGGAGAAATATGAAA
15776171 TGTAACACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (26 bp):
TAGCCTCTATGGAGAAATATGAAAAG
Found at i:15777451 original size:21 final size:21
Alignment explanation
Indices: 15777392--15777456 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
15777382 GGCTGTACAG
* *
15777392 AAGCACATAAGTGCTAAATCGA
1 AAGCACATAAGAGCTGAAT-GA
* * *
15777414 AA-CCCATAAGGGTTGAATGA
1 AAGCACATAAGAGCTGAATGA
* *
15777434 AAGCTCATAAGAGCTGAACGA
1 AAGCACATAAGAGCTGAATGA
15777455 AA
1 AA
15777457 ACCCAGAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 4 0.12
21 28 0.82
22 2 0.06
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AAGCACATAAGAGCTGAATGA
Found at i:15777459 original size:42 final size:43
Alignment explanation
Indices: 15777412--15777526 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 43
15777402 GTGCTAAATC
* *
15777412 GAAACCCATAAGGGTTGAA-TGAAAGCTCATAAGAGCTGAAC-
1 GAAACCCATAAGGGTTAAACTGAAAGCTCATAACAGCTGAACT
*
15777453 GAAAACCCAGAAGGGTTAAACT-AAAGCTCGA-AACAGCTGAACT
1 G-AAACCCATAAGGGTTAAACTGAAAGCTC-ATAACAGCTGAACT
15777496 GAAACCCATTAA-GGTTAAACTGAAA-CTCATA
1 GAAACCCA-TAAGGGTTAAACTGAAAGCTCATA
15777527 TGAGTTAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
41 2 0.03
42 53 0.84
43 8 0.13
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (43 bp):
GAAACCCATAAGGGTTAAACTGAAAGCTCATAACAGCTGAACT
Found at i:15778977 original size:26 final size:27
Alignment explanation
Indices: 15778941--15779094 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
15778931 GGGCTGTTAC
15778941 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* * **
15778967 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
15778993 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
*
15779020 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
15779046 ATGAAAGAGTAGCCTTTGAGGCAAAAC
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
15779073 ATGAAAGA-TAAGCCTTTGTGGC
1 ATGAAAGAGT-AGCCTTTGTGGC
15779095 GACTTTAAAG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 53 0.49
27 56 0.51
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTTGTGGCAAAAT
Found at i:15779019 original size:27 final size:27
Alignment explanation
Indices: 15778941--15779094 Score: 172
Period size: 26 Copynumber: 5.8 Consensus size: 27
15778931 GGGCTGTTAC
*
15778941 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* * * **
15778967 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
15778993 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
15779020 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* * *
15779046 ATGAAAGAGTAGCCTTTGAGGCAAAAC
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
15779073 ATGAAAGA-TAAGCCTTTGTGGC
1 ATGAAAGAGTAA-CCTTTGTGGC
15779095 GACTTTAAAG
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 54 0.50
27 54 0.50
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGAAAGAGTAACCTTTGTGGCAAAAT
Found at i:15779020 original size:53 final size:53
Alignment explanation
Indices: 15778952--15779094 Score: 177
Period size: 53 Copynumber: 2.7 Consensus size: 53
15778942 TGAAAAGTAG
15778952 CCTTTGTGGCAAAATATGAAA-AGTAGCCC-TTGTAGTG-AAATATGAAAGAATAA
1 CCTTTGTGGCAAAATATGAAAGAGTA-CCCTTTGT-G-GCAAATATGAAAGAATAA
* *
15779005 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAGTAG
1 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
* * *
15779058 CCTTTGAGGCAAAACATGAAAGA-TAAGCCTTTGTGGC
1 CCTTTGTGGCAAAATATGAAAGAGT-ACCCTTTGTGGC
15779095 GACTTTAAAG
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
52 2 0.02
53 71 0.88
54 8 0.10
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (53 bp):
CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
Found at i:15783026 original size:16 final size:16
Alignment explanation
Indices: 15783005--15783035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15782995 TCCCAACCCC
*
15783005 ATGCAGTATGTCATGA
1 ATGCAGTATGCCATGA
15783021 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
15783036 CTCAGAATCA
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:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGTATGCCATGA
Found at i:15783160 original size:27 final size:27
Alignment explanation
Indices: 15783117--15783176 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
15783107 GGGCAAAATA
* *
15783117 GTCA-TTTACCCTCCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCACTACG
*
15783143 GTCATTTTACCTTACAGGGGCACTACG
1 GTCATTTTACCCTACAGGGGCACTACG
15783170 GTCATTT
1 GTCATTT
15783177 AACAACCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCACTACG
Found at i:15786109 original size:20 final size:20
Alignment explanation
Indices: 15786059--15786118 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
15786049 TTTAATTTAA
* *
15786059 TGATTATCTTAATAGT-ATT
1 TGATTATCTTAATACTAAAT
*
15786078 TTATTAAT-TTAATACTAAAT
1 TGATT-ATCTTAATACTAAAT
*
15786098 TGATTATCTTAATATTAAAT
1 TGATTATCTTAATACTAAAT
15786118 T
1 T
15786119 TAATTTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TGATTATCTTAATACTAAAT
Found at i:15786181 original size:12 final size:12
Alignment explanation
Indices: 15786161--15786194 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15786151 TATTATTTTA
*
15786161 ATAAGATTTAAT
1 ATAATATTTAAT
15786173 ATAATATTTAAT
1 ATAATATTTAAT
*
15786185 CTAATATTTA
1 ATAATATTTA
15786195 TCTTGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (12 bp):
ATAATATTTAAT
Found at i:15791036 original size:20 final size:20
Alignment explanation
Indices: 15791011--15791063 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
15791001 TGTACGGGTT
15791011 TGCACTTTGGTTCCTCTATG
1 TGCACTTTGGTTCCTCTATG
* * * *
15791031 TGCACTTCGGTGCCTCTTTT
1 TGCACTTTGGTTCCTCTATG
15791051 TGCACTTTGGTTC
1 TGCACTTTGGTTC
15791064 TTCTGTATAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (20 bp):
TGCACTTTGGTTCCTCTATG
Found at i:15794337 original size:20 final size:20
Alignment explanation
Indices: 15794301--15794343 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15794291 TTATGCTAAA
*
15794301 TAAATGGAATGGAAAGTAAG
1 TAAATGGAATAGAAAGTAAG
*
15794321 TAAATGGAA-AGACAAGTATG
1 TAAATGGAATAGA-AAGTAAG
15794341 TAA
1 TAA
15794344 GTAAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAATGGAATAGAAAGTAAG
Done.