Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 50 of 310
Found at i:15039925 original size:15 final size:15
Alignment explanation
Indices: 15039905--15039948 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
15039895 TTTAAAATTG
15039905 ATTTAAAATTTAAAA
1 ATTTAAAATTTAAAA
15039920 ATTTAAAAATTT-AAA
1 ATTT-AAAATTTAAAA
15039935 ATTTAAAA-TTAAAA
1 ATTTAAAATTTAAAA
15039949 GTATTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 11 0.41
16 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAAATTTAAAA
Found at i:15039948 original size:6 final size:7
Alignment explanation
Indices: 15039905--15039948 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
15039895 TTTAAAATTG
15039905 ATTTAAA
1 ATTTAAA
15039912 ATTTAAAA
1 ATTT-AAA
15039920 ATTTAAAA
1 ATTT-AAA
15039928 ATTTAAA
1 ATTTAAA
15039935 ATTTAAA
1 ATTTAAA
15039942 A-TTAAA
1 ATTTAAA
15039948 A
1 A
15039949 GTATTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.17
7 15 0.42
8 15 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATTTAAA
Found at i:15040401 original size:6 final size:6
Alignment explanation
Indices: 15040390--15040562 Score: 346
Period size: 6 Copynumber: 28.8 Consensus size: 6
15040380 TAATTCTATC
15040390 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
15040438 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
15040486 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
15040534 TATAAA TATAAA TATAAA TATAAA TATAA
1 TATAAA TATAAA TATAAA TATAAA TATAA
15040563 TCACAATTAT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 167 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TATAAA
Found at i:15044448 original size:54 final size:54
Alignment explanation
Indices: 15044333--15044450 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
15044323 GGTCACACGA
* * * * * * *
15044333 CCATGTAACTTTTTATGACCGTGTGGCTCAAGGTTACACGATCGTGTCGCTAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
** * *
15044387 TTATGTAACTTTTTGTGACTGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
1 CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
*
15044441 CCGTGTAACT
1 CCATGTAACT
15044451 CTATACCCGT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (54 bp):
CCATGTAACTTTTTATGACCGTGTAGCTCAAGGTCACACAAGCATGTCACCAGG
Found at i:15058133 original size:35 final size:35
Alignment explanation
Indices: 15058087--15058158 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
15058077 AACATAAGAA
15058087 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
1 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
15058122 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
1 AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
15058157 AG
1 AG
15058159 CTATTGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (35 bp):
AGGAAATTGACTCACATTCTCAAGCAGCACAAACG
Found at i:15066250 original size:47 final size:46
Alignment explanation
Indices: 15066178--15066545 Score: 193
Period size: 47 Copynumber: 7.8 Consensus size: 46
15066168 CGAATTGTGC
* * *
15066178 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
*
15066224 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---TATTGAAAT-AAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATT---ATGAA-A
* * * **
15066272 GCTAGTGTAAGACAGGTCTGGGACATGCATCAGCCATATTATGATT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
* * * * **
15066318 GCCAGTATAAGACCATGTCTGGGACATGGCATTGGCACAGA-GATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CATATTATGAAA
* * *
15066366 GCTAGTGTAAGACATGTCTGGGACATACATCGGCC-TCGA-CA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGA-A-A
* * * * * * *
15066413 GCCAGTGTAAGACGTGTCTGGTACACGCATCGGCTAAGAGT-TG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CATATTATGAAA
* * * * *
15066457 GCTAGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTA-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-CATATTATGAAA
* *
15066505 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT
15066546 ATCCCATGTT
Statistics
Matches: 244, Mismatches: 49, Indels: 56
0.70 0.14 0.16
Matches are distributed among these distances:
44 28 0.11
45 8 0.03
46 42 0.17
47 88 0.36
48 53 0.22
49 20 0.08
50 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAA
Found at i:15066342 original size:94 final size:94
Alignment explanation
Indices: 15066181--15066541 Score: 331
Period size: 94 Copynumber: 3.9 Consensus size: 94
15066171 ATTGTGCGCC
* * * *
15066181 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAAAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
* **
15066246 GACATGGCATCGGTATTGAAATAAGGGCT
66 GACATGGCATCGGCACAGAAATAAGGGCT
* * **
15066275 AGTGTAAGACAGGTCTGGGACATGCATCAGCCATATTATGATTGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
* * * *
15066340 GACATGGCATTGGCACAGAGATGAGTGCT
66 GACATGGCATCGGCACAGAAATAAGGGCT
* * * * * *
15066369 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGACA-GA-GATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAAAGCCAGTATAAGACCATGTC
* * * * *
15066431 TGGTACA-CGCATCGGCTA-AG-AGT-TGTGCT
63 TGGGACATGGCATCGGC-ACAGAAATAAGGGCT
* * * * * *
15066460 AGTGTAAGACGTGTCTGGGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAAAGCCAGTATAAGACCATGTCT
15066525 GGGACATGGCATCGGCA
64 GGGACATGGCATCGGCA
15066542 ATATATCCCA
Statistics
Matches: 217, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
89 1 0.00
90 2 0.01
91 33 0.15
92 16 0.07
93 20 0.09
94 126 0.58
95 15 0.07
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTATAAGACCATGTCTGG
GACATGGCATCGGCACAGAAATAAGGGCT
Found at i:15076806 original size:40 final size:40
Alignment explanation
Indices: 15076723--15076985 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
15076713 TTGAATGCTG
* * * * * *
15076723 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
15076763 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
15076803 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
15076843 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
15076883 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15076923 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15076962 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15076986 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:15077005 original size:79 final size:80
Alignment explanation
Indices: 15076762--15077020 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
15076752 AAGTGAATAT
* * * * * *
15076762 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
15076826 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
15076842 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
15076907 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
15076922 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
15076986 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
15077001 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
15077021 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:15079796 original size:47 final size:47
Alignment explanation
Indices: 15079729--15079941 Score: 188
Period size: 47 Copynumber: 4.6 Consensus size: 47
15079719 AAAATTGTGC
*
15079729 GCCAGTGTAA-ACATGTCTGGGACAT-GCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
* *
15079774 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCA-AATGA-A
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA--CATTATGAGA
* * * * * **
15079821 GGCTAGTATATGACATGTCTGGGACAT-GCATCAGCCATATTATGATT
1 -GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
* ** *
15079868 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACA-TTATGAGA
*
15079916 GCCTGTGTAAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCTGGGACAT
15079942 ACACCGGCCT
Statistics
Matches: 136, Mismatches: 20, Indels: 22
0.76 0.11 0.12
Matches are distributed among these distances:
45 11 0.08
46 19 0.14
47 65 0.48
48 39 0.29
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:15079930 original size:94 final size:93
Alignment explanation
Indices: 15079732--15080088 Score: 277
Period size: 94 Copynumber: 3.8 Consensus size: 93
15079722 ATTGTGCGCC
* *
15079732 AGTGTAA-ACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
15079796 GACATGGCATCGACATCCAAATGAAGGCT
66 GACATGGCATCGACA-CCAAATGAAGGCT
* * * **
15079825 AGTATATGACATGTCTGGGACATGCATCAGCCATATTATGATTGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
15079890 GACATGGCATCGGTACA-GAGATG-AGTGCCT
66 GACATGGCATC-G-ACACCAAATGAAG-G-CT
* * * * * **
15079920 -GTGTAAGACATGTCTGGGACATACACCGGCCTTGACA-GA-GATAGCCAGTGTAAGA-TGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC---ACATTATGAGAGCCAGTGTAAGACCATGTC
* ** ** *
15079981 TGGGACA-CGCATC-AGCTAGGAGTTG--TGCT
63 TGGGACATGGCATCGA-C-ACCAAATGAAGGCT
* * * * * *
15080010 AGGGTAAGACGTGTCTGAGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAAGACCATGCCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCT
15080075 GGGACATGGCATCG
64 GGGACATGGCATCG
15080089 GCAATATATC
Statistics
Matches: 209, Mismatches: 36, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 27 0.13
92 17 0.08
93 27 0.13
94 110 0.53
95 18 0.09
96 4 0.02
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACACCAAATGAAGGCT
Found at i:15079971 original size:47 final size:46
Alignment explanation
Indices: 15079868--15079987 Score: 120
Period size: 47 Copynumber: 2.5 Consensus size: 46
15079858 TATTATGATT
* *
15079868 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGAGATGAG
1 GCCAGTGTAAGA-CATGTCTGGGACATGACACCGGTACAGAGATGAG
*
15079915 TGCCTGTGTAAGACATGTCTGGGACAT-ACACCGGCCTTGACAGAGAT-A-
1 -GCCAGTGTAAGACATGTCTGGGACATGACACCGG---T-ACAGAGATGAG
**
15079963 GCCAGTGTAAGATGTGTCTGGGACA
1 GCCAGTGTAAGACATGTCTGGGACA
15079988 CGCATCAGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
46 5 0.08
47 36 0.58
48 11 0.18
49 2 0.03
50 8 0.13
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGACACCGGTACAGAGATGAG
Found at i:15087496 original size:17 final size:16
Alignment explanation
Indices: 15087474--15087507 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15087464 GGGGATGGAG
15087474 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
15087491 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
15087507 T
1 T
15087508 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:15090108 original size:63 final size:63
Alignment explanation
Indices: 15090032--15090220 Score: 369
Period size: 63 Copynumber: 3.0 Consensus size: 63
15090022 AAGAAGAATG
*
15090032 ACATACTATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
15090095 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
15090158 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
1 ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
15090221 TTCTGAGGAG
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 125 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (63 bp):
ACATACCATCGATGTGCTAGATGATCTAATTGCAAAAGAATTCAATGATCAAAGTACAGTACT
Found at i:15103442 original size:9 final size:10
Alignment explanation
Indices: 15103418--15103468 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
15103408 CACAATAGTC
15103418 CTCTCACAATT
1 CTCTCA-AATT
15103429 CTCTCTAAATT
1 CTCTC-AAATT
15103440 CTCTCCAAATT
1 CTCT-CAAATT
15103451 CTCTCAAATTT
1 CTCTCAAA-TT
15103462 CTCTCAA
1 CTCTCAA
15103469 TTTTTGTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 31 0.84
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:15103478 original size:21 final size:22
Alignment explanation
Indices: 15103461--15103500 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15103451 CTCTCAAATT
15103461 TCTCTC-AATTTTTGTCAAAGC
1 TCTCTCTAATTTTTGTCAAAGC
15103482 TCTCTCTAATTTTTG-CAAA
1 TCTCTCTAATTTTTGTCAAA
15103501 AAAAGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (22 bp):
TCTCTCTAATTTTTGTCAAAGC
Found at i:15104655 original size:7 final size:7
Alignment explanation
Indices: 15104643--15104710 Score: 127
Period size: 7 Copynumber: 9.7 Consensus size: 7
15104633 TAGTCGTTTC
15104643 GTATTTA
1 GTATTTA
15104650 GTATTTA
1 GTATTTA
15104657 GTATTTA
1 GTATTTA
15104664 GTATTTA
1 GTATTTA
15104671 GTATTTA
1 GTATTTA
15104678 GTATTTA
1 GTATTTA
15104685 GTATTTA
1 GTATTTA
*
15104692 GTATTAA
1 GTATTTA
15104699 GTATTTA
1 GTATTTA
15104706 GTATT
1 GTATT
15104711 ACCTATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 59 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:15105351 original size:18 final size:18
Alignment explanation
Indices: 15105328--15105370 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15105318 TGCCAGGTGC
*
15105328 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
15105346 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
15105364 GTTTCCT
1 GTATCCT
15105371 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:15105988 original size:117 final size:118
Alignment explanation
Indices: 15105777--15106139 Score: 525
Period size: 129 Copynumber: 3.0 Consensus size: 118
15105767 GTAGAAACTT
* *
15105777 TTTTTTATATAG-TTTCATATAATAAAAT-AAAGTTGTTTTTAATATTTTAACTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* * * *
15105840 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTA
65 TTTTTAATTTTAATACAACAAATGTTATTTTAAATTAGACAATATTTTTTATTA
15105894 -TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
15105958 TTTTAATTTTAATACAACAAATGTTATTTTAAATTAGCCAATATTTTTATTATTTTTATATTCA
66 TTTTAATTTTAATACAACAAATGTTATTTTAAATTAG---ACA-----A-TATTTTT-TATT-A
15106022 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
15106087 TTTTAATTTTAATACAACAAATGTTATTTTAAATTAGCCAATATTTTTTATTA
66 TTTTAATTTTAATACAACAAATGTTATTTTAAATTAGACAATATTTTTTATTA
15106140 AAATAAATGT
Statistics
Matches: 223, Mismatches: 9, Indels: 27
0.86 0.03 0.10
Matches are distributed among these distances:
116 20 0.09
117 73 0.33
118 1 0.00
119 4 0.02
120 9 0.04
121 1 0.00
125 1 0.00
126 8 0.04
127 4 0.02
128 1 0.00
129 101 0.45
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (118 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTAATACAACAAATGTTATTTTAAATTAGACAATATTTTTTATTA
Found at i:15107532 original size:30 final size:30
Alignment explanation
Indices: 15107497--15107555 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
15107487 CGCTAGGACC
* *
15107497 AAAAACGCCACTATAGATTGAGCATTAGCA
1 AAAAACACCACTATAGATCGAGCATTAGCA
*
15107527 AAAAACACCGCTATAGATCGAGCATTAGC
1 AAAAACACCACTATAGATCGAGCATTAGC
15107556 GACGCTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (30 bp):
AAAAACACCACTATAGATCGAGCATTAGCA
Found at i:15107663 original size:40 final size:39
Alignment explanation
Indices: 15107619--15107719 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 39
15107609 TAGTGACATT
15107619 AGCGGCGCTTTTTGAAAAACGCCACTATAGATCGAGC-ATC
1 AGCGGCGCTTTTT-AAAAACGCCACTATAGATCGA-CTATC
** * * * *
15107659 AGCGGCG-TTTTTTCAAACGCCGCTATAGGTTGACTATT
1 AGCGGCGCTTTTTAAAAACGCCACTATAGATCGACTATC
*
15107697 AGCGGCGCTTTCTAAAAAACGCC
1 AGCGGCGCTTT-TTAAAAACGCC
15107720 GCAAAAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.02
38 25 0.51
39 8 0.16
40 15 0.31
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
AGCGGCGCTTTTTAAAAACGCCACTATAGATCGACTATC
Found at i:15107848 original size:40 final size:40
Alignment explanation
Indices: 15107778--15107873 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
15107768 ATTAGTAGTC
15107778 CTTTTTGAAAAACG-CGCTATAGATCAAGCATTAGCGGCA
1 CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
* * *
15107817 CTTTCTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCG
1 CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
*
15107857 CTTTTTGAAAAATGCCG
1 CTTTTTGAAAAACGCCG
15107874 TAAAAATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.25
40 38 0.75
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGCA
Found at i:15108559 original size:43 final size:43
Alignment explanation
Indices: 15108391--15108560 Score: 100
Period size: 43 Copynumber: 4.0 Consensus size: 43
15108381 TTAAGGGTTG
* *
15108391 GGGTTAAGGGTTTATGGT-TTATG-TT-TTATGGTTTAGAGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTAT--TTTAG-GTTTAA
* * *
15108434 GGGATAAGGG-TTATGATATAATATTTATTATTTTGGGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTT-AGGTTTAA
* * * * * * * * **
15108477 -AGTTTATGATTTAAGATTTAAGGTTTAATA-TCCATGGTTTAA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTA-GGTTTAA
* *
15108519 GGGTTTAGGGTTTATGGTATAATGTTTATTATTTTAGGTTTA
1 GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTA
15108561 GAGTTTTTAA
Statistics
Matches: 91, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
42 18 0.20
43 64 0.70
44 5 0.05
45 4 0.04
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (43 bp):
GGGTTAAGGGTTTATGATATAATGTTTATTATTTTAGGTTTAA
Found at i:15110507 original size:56 final size:56
Alignment explanation
Indices: 15110441--15110553 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
15110431 GCATTTATTG
15110441 CAGACAATTGAGATTCTTTTCAGCAAAATGATATTCTTAGATATGGAGGTTAGTTC
1 CAGACAATTGAGATTCTTTTCAGCAAAATGATATTCTTAGATATGGAGGTTAGTTC
*
15110497 CAGACAATTGAGATTCTTTTTAGCAAAATGATATTCTTAGATATGGAGGTTAGTTC
1 CAGACAATTGAGATTCTTTTCAGCAAAATGATATTCTTAGATATGGAGGTTAGTTC
15110553 C
1 C
15110554 TTTAATTCCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (56 bp):
CAGACAATTGAGATTCTTTTCAGCAAAATGATATTCTTAGATATGGAGGTTAGTTC
Found at i:15113617 original size:43 final size:41
Alignment explanation
Indices: 15113457--15113641 Score: 156
Period size: 43 Copynumber: 4.3 Consensus size: 41
15113447 AAAGAACAAC
**
15113457 TTTTAGCGGCG-TTGTGGAGAAAGCGCCACTAAAGACCATGT
1 TTTTAGCGGCGTTTGTGGA-AAAGCGCCACTAAAGGTCATGT
* * *
15113498 TCTTTAGCAGCGTTTGTGAGAGAAGTGCCACTAAAGGTCATGT
1 T-TTTAGCGGCGTTTGTG-GAAAAGCGCCACTAAAGGTCATGT
* * * ***
15113541 TCTTTAGCGGTGTTTGTGGGAGAAGTGTTGCTAAAGGTCATGCT
1 T-TTTAGCGGCGTTTGT-GGAAAAGCGCCACTAAAGGTCATG-T
* *
15113585 TTTTAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCATGCT
1 TTTTAGCGGCGTTTGTGG-AAAAGCGCCACTAAAGGTCATG-T
* *
15113628 CTTTAGCGGTGTTT
1 TTTTAGCGGCGTTT
15113642 TTTTTTAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 11 0.09
43 105 0.86
44 5 0.04
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTGTGGAAAAGCGCCACTAAAGGTCATGT
Found at i:15115774 original size:126 final size:126
Alignment explanation
Indices: 15115547--15115980 Score: 615
Period size: 126 Copynumber: 3.5 Consensus size: 126
15115537 AGTCTAAGGC
* * ** *
15115547 TTTTTCAAATACTACTGTAGCAAAAGAGCGTTTACGT-AAGAGCTTTTTTCCGTAATTTTGCTGA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGA-AGCTTTTTTCCGTAATTTTGCTGA
* ** *
15115611 CAGTGTATCATTCTTGAAGTGTTTTTGACA-TTATTTGTTCAGAAACATCTTCTCAAATTTAT
65 CAGTGCATCATTCTTGAAGCATTTTTGACACTT-TTTGTTCAGAAACATCTTCTCAAAATTAT
*
15115673 TTTTTCAGATACCACTGTAGCAAAAGAGCATCCACGTAGG-AGCTTTTTTCCGTAATTTTGCTGA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGT-GGAAGCTTTTTTCCGTAATTTTGCTGA
*
15115737 CAGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATCAT
65 CAGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
*
15115799 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGTAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
* * * * * * **
15115864 CGTGCATCCTTGTTAAAGCATTTTTGATACTATTCATTCAGAAACATCTTCTCAAAATTA-
66 AGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
* *
15115924 TTTTTCAGATAGTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATT
15115981 AATAGTTAAT
Statistics
Matches: 280, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
125 56 0.20
126 222 0.79
127 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCATTCTTGAAGCATTTTTGACACTTTTTGTTCAGAAACATCTTCTCAAAATTAT
Found at i:15120194 original size:15 final size:15
Alignment explanation
Indices: 15120174--15120203 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15120164 CAAACTATGT
*
15120174 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
15120189 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
15120204 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:15122044 original size:892 final size:892
Alignment explanation
Indices: 15120321--15122108 Score: 3576
Period size: 892 Copynumber: 2.0 Consensus size: 892
15120311 AATTCCTACA
15120321 ATCCCCCTCAAGCTAGAGCATATACATTGTATAATACGAATTTATTGAAAACAGGCTTTGGCAAA
1 ATCCCCCTCAAGCTAGAGCATATACATTGTATAATACGAATTTATTGAAAACAGGCTTTGGCAAA
15120386 GCCTTAGTAAGAATGTCTGCAATCTGTCCTTCTGAAGGAATGTATGAAAGGATGGCTATCTTTTT
66 GCCTTAGTAAGAATGTCTGCAATCTGTCCTTCTGAAGGAATGTATGAAAGGATGGCTATCTTTTT
15120451 GTTGACTTGGTCAGCAATAAAATGCCTATCAATCTCAACATGCTTTGTTCGGTCATGTTGAACTG
131 GTTGACTTGGTCAGCAATAAAATGCCTATCAATCTCAACATGCTTTGTTCGGTCATGTTGAACTG
15120516 GGTTCTTGGCAATCTGAATGGCAGATTGATTATCACACAAAACTTCAAAGTAATCCTCCTGATTA
196 GGTTCTTGGCAATCTGAATGGCAGATTGATTATCACACAAAACTTCAAAGTAATCCTCCTGATTA
15120581 GTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATATTCCCAAAGCTAGTGCTCT
261 GTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATATTCCCAAAGCTAGTGCTCT
15120646 AAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTACTTCTCCAAGTTGTAAGGT
326 AAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTACTTCTCCAAGTTGTAAGGT
15120711 TACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAGAGTCTGTAAAAATCTTAA
391 TACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAGAGTCTGTAAAAATCTTAA
15120776 CAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTTTTCTTCAAGTACTTGAGA
456 CAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTTTTCTTCAAGTACTTGAGA
15120841 ATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTGTTGACTTATCACATTTAC
521 ATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTGTTGACTTATCACATTTAC
15120906 GGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCTCAACTAATCTTTGAAATT
586 GGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCTCAACTAATCTTTGAAATT
15120971 TCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTTGCGTCCATTGGTGTATCA
651 TCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTTGCGTCCATTGGTGTATCA
15121036 GCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTCCTTTTGATCTTGCTATCT
716 GCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTCCTTTTGATCTTGCTATCT
15121101 CCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAATTCCCTATTTAATAACTTC
781 CCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAATTCCCTATTTAATAACTTC
15121166 TTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
846 TTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
15121213 ATCCCCCTCAAGCTAGAGCATATACATTGTATAATACGAATTTATTGAAAACAGGCTTTGGCAAA
1 ATCCCCCTCAAGCTAGAGCATATACATTGTATAATACGAATTTATTGAAAACAGGCTTTGGCAAA
15121278 GCCTTAGTAAGAATGTCTGCAATCTGTCCTTCTGAAGGAATGTATGAAAGGATGGCTATCTTTTT
66 GCCTTAGTAAGAATGTCTGCAATCTGTCCTTCTGAAGGAATGTATGAAAGGATGGCTATCTTTTT
15121343 GTTGACTTGGTCAGCAATAAAATGCCTATCAATCTCAACATGCTTTGTTCGGTCATGTTGAACTG
131 GTTGACTTGGTCAGCAATAAAATGCCTATCAATCTCAACATGCTTTGTTCGGTCATGTTGAACTG
15121408 GGTTCTTGGCAATCTGAATGGCAGATTGATTATCACACAAAACTTCAAAGTAATCCTCCTGATTA
196 GGTTCTTGGCAATCTGAATGGCAGATTGATTATCACACAAAACTTCAAAGTAATCCTCCTGATTA
15121473 GTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATATTCCCAAAGCTAGTGCTCT
261 GTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATATTCCCAAAGCTAGTGCTCT
15121538 AAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTACTTCTCCAAGTTGTAAGGT
326 AAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTACTTCTCCAAGTTGTAAGGT
15121603 TACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAGAGTCTGTAAAAATCTTAA
391 TACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAGAGTCTGTAAAAATCTTAA
15121668 CAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTTTTCTTCAAGTACTTGAGA
456 CAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTTTTCTTCAAGTACTTGAGA
15121733 ATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTGTTGACTTATCACATTTAC
521 ATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTGTTGACTTATCACATTTAC
15121798 GGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCTCAACTAATCTTTGAAATT
586 GGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCTCAACTAATCTTTGAAATT
15121863 TCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTTGCGTCCATTGGTGTATCA
651 TCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTTGCGTCCATTGGTGTATCA
15121928 GCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTCCTTTTGATCTTGCTATCT
716 GCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTCCTTTTGATCTTGCTATCT
15121993 CCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAATTCCCTATTTAATAACTTC
781 CCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAATTCCCTATTTAATAACTTC
15122058 TTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
846 TTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
15122105 ATCC
1 ATCC
15122109 ACGTACACAA
Statistics
Matches: 896, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
892 896 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (892 bp):
ATCCCCCTCAAGCTAGAGCATATACATTGTATAATACGAATTTATTGAAAACAGGCTTTGGCAAA
GCCTTAGTAAGAATGTCTGCAATCTGTCCTTCTGAAGGAATGTATGAAAGGATGGCTATCTTTTT
GTTGACTTGGTCAGCAATAAAATGCCTATCAATCTCAACATGCTTTGTTCGGTCATGTTGAACTG
GGTTCTTGGCAATCTGAATGGCAGATTGATTATCACACAAAACTTCAAAGTAATCCTCCTGATTA
GTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATATTCCCAAAGCTAGTGCTCT
AAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTACTTCTCCAAGTTGTAAGGT
TACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAGAGTCTGTAAAAATCTTAA
CAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTTTTCTTCAAGTACTTGAGA
ATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTGTTGACTTATCACATTTAC
GGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCTCAACTAATCTTTGAAATT
TCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTTGCGTCCATTGGTGTATCA
GCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTCCTTTTGATCTTGCTATCT
CCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAATTCCCTATTTAATAACTTC
TTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
Found at i:15123092 original size:849 final size:849
Alignment explanation
Indices: 15121455--15123155 Score: 3402
Period size: 849 Copynumber: 2.0 Consensus size: 849
15121445 CAAAACTTCA
15121455 AAGTAATCCTCCTGATTAGTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATAT
1 AAGTAATCCTCCTGATTAGTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATAT
15121520 TCCCAAAGCTAGTGCTCTAAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTAC
66 TCCCAAAGCTAGTGCTCTAAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTAC
15121585 TTCTCCAAGTTGTAAGGTTACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAG
131 TTCTCCAAGTTGTAAGGTTACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAG
15121650 AGTCTGTAAAAATCTTAACAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTT
196 AGTCTGTAAAAATCTTAACAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTT
15121715 TTCTTCAAGTACTTGAGAATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTG
261 TTCTTCAAGTACTTGAGAATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTG
15121780 TTGACTTATCACATTTACGGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCT
326 TTGACTTATCACATTTACGGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCT
15121845 CAACTAATCTTTGAAATTTCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTT
391 CAACTAATCTTTGAAATTTCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTT
15121910 GCGTCCATTGGTGTATCAGCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTC
456 GCGTCCATTGGTGTATCAGCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTC
15121975 CTTTTGATCTTGCTATCTCCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAAT
521 CTTTTGATCTTGCTATCTCCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAAT
15122040 TCCCTATTTAATAACTTCTTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
586 TCCCTATTTAATAACTTCTTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
15122105 ATCCACGTACACAATTAGGATAGCTTTCTTATTTGTAGAAGTTACCTTGATGAAAAGAGTATGAT
651 ATCCACGTACACAATTAGGATAGCTTTCTTATTTGTAGAAGTTACCTTGATGAAAAGAGTATGAT
15122170 TGGCAAGAGACTGCTTGTAGCTGTTTTTAAGAATGACTTTAGTGAACCTCTCGGACCAAGCTCTG
716 TGGCAAGAGACTGCTTGTAGCTGTTTTTAAGAATGACTTTAGTGAACCTCTCGGACCAAGCTCTG
15122235 AGTGATTGTTTTAACCCTTATAGAGACTTGTTGAGCTTGCAAACCTTGTTGCTACCTTCAACAGA
781 AGTGATTGTTTTAACCCTTATAGAGACTTGTTGAGCTTGCAAACCTTGTTGCTACCTTCAACAGA
15122300 CTTT
846 CTTT
15122304 AAGTAATCCTCCTGATTAGTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATAT
1 AAGTAATCCTCCTGATTAGTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATAT
15122369 TCCCAAAGCTAGTGCTCTAAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTAC
66 TCCCAAAGCTAGTGCTCTAAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTAC
15122434 TTCTCCAAGTTGTAAGGTTACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAG
131 TTCTCCAAGTTGTAAGGTTACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAG
15122499 AGTCTGTAAAAATCTTAACAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTT
196 AGTCTGTAAAAATCTTAACAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTT
15122564 TTCTTCAAGTACTTGAGAATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTG
261 TTCTTCAAGTACTTGAGAATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTG
15122629 TTGACTTATCACATTTACGGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCT
326 TTGACTTATCACATTTACGGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCT
15122694 CAACTAATCTTTGAAATTTCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTT
391 CAACTAATCTTTGAAATTTCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTT
15122759 GCGTCCATTGGTGTATCAGCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTC
456 GCGTCCATTGGTGTATCAGCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTC
15122824 CTTTTGATCTTGCTATCTCCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAAT
521 CTTTTGATCTTGCTATCTCCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAAT
15122889 TCCCTATTTAATAACTTCTTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
586 TCCCTATTTAATAACTTCTTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
15122954 ATCCACGTACACAATTAGGATAGCTTTCTTATTTGTAGAAGTTACCTTGATGAAAAGAGTATGAT
651 ATCCACGTACACAATTAGGATAGCTTTCTTATTTGTAGAAGTTACCTTGATGAAAAGAGTATGAT
15123019 TGGCAAGAGACTGCTTGTAGCTGTTTTTAAGAATGACTTTAGTGAACCTCTCGGACCAAGCTCTG
716 TGGCAAGAGACTGCTTGTAGCTGTTTTTAAGAATGACTTTAGTGAACCTCTCGGACCAAGCTCTG
15123084 AGTGATTGTTTTAACCCTTATAGAGACTTGTTGAGCTTGCAAACCTTGTTGCTACCTTCAACAGA
781 AGTGATTGTTTTAACCCTTATAGAGACTTGTTGAGCTTGCAAACCTTGTTGCTACCTTCAACAGA
15123149 CTTT
846 CTTT
15123153 AAG
1 AAG
15123156 CCAGGTAGCA
Statistics
Matches: 852, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
849 852 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (849 bp):
AAGTAATCCTCCTGATTAGTGCCAAGTTCTTTTAGTAATTTAAGTAGCCAAATTCCTTTGCATAT
TCCCAAAGCTAGTGCTCTAAATTCAGCTTCAGCACTACTTCTTGAAACGACAGATTGTTTTTTAC
TTCTCCAAGTTGTAAGGTTACCCCAAACAAAAATCTTCTTTCAGTGAGATCTCCGGCCCAACTAG
AGTCTGTAAAAATCTTAACAGTTCTGTCTTGTGTCTTCTTAAACATTAAGCCGTGTCCTGGAGTT
TTCTTCAAGTACTTGAGAATTCTATTTGCTGCTGCCATATGCTCTTCAGTAGGATTAGTCATGTG
TTGACTTATCACATTTACGGGAAAGGCTATATCTGGCCTTGTTAAGGATAAGTAAATTAGTTTCT
CAACTAATCTTTGAAATTTCTCTCTATCTACTAAGGTCACATCTTTTTTGTTGAATCTCAAGTTT
GCGTCCATTGGTGTATCAGCTGGCTTACAACCAAGAAAACCAGTTTCTTTGGTTGATCACAAGTC
CTTTTGATCTTGCTATCTCCATTCCTAGGAAATACCTTAGCTTTCCCAAATCCTTGGTTTCGAAT
TCCCTATTTAATAACTTCTTCAAATTGCTAATCTCTTCCTCATCATCTCCAGTAAGAATTATGTC
ATCCACGTACACAATTAGGATAGCTTTCTTATTTGTAGAAGTTACCTTGATGAAAAGAGTATGAT
TGGCAAGAGACTGCTTGTAGCTGTTTTTAAGAATGACTTTAGTGAACCTCTCGGACCAAGCTCTG
AGTGATTGTTTTAACCCTTATAGAGACTTGTTGAGCTTGCAAACCTTGTTGCTACCTTCAACAGA
CTTT
Found at i:15133389 original size:44 final size:44
Alignment explanation
Indices: 15133261--15133702 Score: 154
Period size: 44 Copynumber: 9.7 Consensus size: 44
15133251 TTGCGACTTC
* *
15133261 AATCTGCTCCACTGCAATTTCAGAGAGATAAGATTCATCATGGTAACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT--T-ATGG--ATTT
* * * **
15133310 GAT-TCGAC-CTACTGCAACTTCAGAG-GTATAGGATTTATGGCCTT
1 AATCT-G-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
* * ***
15133354 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATGGATTT
* ** *
15133399 AGTCTATTCCACTGCAACTTCA-AGGAGATAAGA-CT-TGGTAATTT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTATGG--ATTT
** * * * * *
15133443 CAAAGTACTCCACTGCATCTTCAGGGAGATAATG-TTAATGGCTTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAA-GATTTATGGATTT
* *
15133488 AATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCCATGGTAAATTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT---ATGG---ATTT
* * * * * **
15133538 GATCCGAC-CCACTGCAACTTCAGA-AGTATATGACTTATAGCCTT
1 AATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTATGGATTT
** *
15133582 AATCTGCTTTACTGCAACTTCAGAGAGATAAGA-TT-TGCTATCTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATG-GAT-TT
** * * *
15133626 CAATCTATTCCACTGCAACTTCAGGGAAATAAGACTTGTAT--TTTT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TATGGATTT
* * * *
15133671 AACCTGCTCCACCGCAACCTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAG
15133703 GTTTGCTATT
Statistics
Matches: 291, Mismatches: 69, Indels: 71
0.68 0.16 0.16
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 116 0.40
45 90 0.31
46 6 0.02
47 12 0.04
48 3 0.01
49 28 0.10
50 29 0.10
51 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTATGGATTT
Found at i:15133621 original size:228 final size:227
Alignment explanation
Indices: 15133225--15133708 Score: 650
Period size: 228 Copynumber: 2.1 Consensus size: 227
15133215 TCGTTCTATC
* *
15133225 CCACTGCATCTTCAGGGGGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAATTTCAGAGAGAT
1 CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * * * * *
15133290 AAGATTCATCATGGTAACTTGATTCGACCTACTGCAACTTCAGAGGTATAGGATTTATGGCCTTA
66 AAGATTCACCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
* * *
15133355 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTTAGTCTATTCCACTGCAACTTC
131 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
*
15133420 AAGGAGATAAGACTTGGTAATTTCAAAGTACT
196 AAGGAAATAAGACTTGGTAATTTCAAAGTACT
* * *
15133452 CCACTGCATCTTCAGGGAGATAATGTTAATG-G-CTTTAATCTGCTCTACTGCAACTTCAGAGAG
1 CCACTGCATCTTCAGGGAGATAAGGTT--TGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAG
* ** * *
15133515 ATAATATTTGCCATGGTAAATTTGATCCGACCCACTGCAACTTCAGAAGTATATGACTTATAGCC
64 ATAAGATTCACCATGGT-AACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCC
*
15133580 TTAATCTGCTTTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
128 TTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAAC
* * * ** *
15133645 TTCAGGGAAATAAGACTT-GTATTTTTAACCTGCT
193 TTCAAGGAAATAAGACTTGGTAATTTCAAAGTACT
* * *
15133679 CCACCGCAACCTCAGGGAGATAAGGTTTGC
1 CCACTGCATCTTCAGGGAGATAAGGTTTGC
15133709 TATTCTTCGA
Statistics
Matches: 222, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
225 2 0.01
227 100 0.45
228 118 0.53
229 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (227 bp):
CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAGATTCACCATGGTAACTTGATCCGACCCACTGCAACTTCAGAAGTATAGGACTTATAGCCTTA
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTATTCCACTGCAACTTC
AAGGAAATAAGACTTGGTAATTTCAAAGTACT
Found at i:15133805 original size:44 final size:44
Alignment explanation
Indices: 15133591--15133839 Score: 124
Period size: 44 Copynumber: 5.6 Consensus size: 44
15133581 TAATCTGCTT
* * *
15133591 TACTGCAACTTC-AGAGAGATAAGATTTGCTATCTTCAATCTATTC
1 TACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAATATACTC
* * * * ** * ** *
15133636 CACTGCAACTTCAGGGAAATAAGACTTGTATTTTTAACCTGCTC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
* * * * * * * * *
15133680 CACCGCAACCTCAGGGAGATAAGGTTTGCTATTCTTCGATCTATTC
1 TACTGCAACTTCAAGGAGATAAGATTTG-TA-ACTTCAATATACTC
** * * * * *
15133726 CGCTGCCACTTTAGGGAGATGAGATCTGTAACTTCAATATACTCC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACT-C
* * * *
15133771 T-CTGTAACTTCAAGGAGATAAGATTTGTGACTTCAATTTGCTC
1 TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
* *
15133814 TACTGCAACTTCAGGGAGACAAGATT
1 TACTGCAACTTCAAGGAGATAAGATT
15133840 CGCCATGGTG
Statistics
Matches: 154, Mismatches: 45, Indels: 11
0.73 0.21 0.05
Matches are distributed among these distances:
43 2 0.01
44 96 0.62
45 27 0.18
46 29 0.19
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
TACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATACTC
Found at i:15141967 original size:19 final size:20
Alignment explanation
Indices: 15141930--15141972 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
15141920 GGTCTTTTCG
* * *
15141930 TGAAATTTAATGCATATG-A
1 TGAAATGTAATACAAATGAA
15141949 TGAAATGTAATACAAATGAA
1 TGAAATGTAATACAAATGAA
15141969 TGAA
1 TGAA
15141973 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATACAAATGAA
Found at i:15153466 original size:12 final size:12
Alignment explanation
Indices: 15153447--15153496 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
15153437 TGATTTTCTC
15153447 AAAATGGAAATG
1 AAAATGGAAATG
**
15153459 GGAATGGAAATG
1 AAAATGGAAATG
15153471 AAAATGGAAATG
1 AAAATGGAAATG
15153483 AAAAATGAGAAATG
1 -AAAATG-GAAATG
15153497 CAATGATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 20 0.62
13 6 0.19
14 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:15153495 original size:7 final size:6
Alignment explanation
Indices: 15153448--15153496 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
15153438 GATTTTCTCA
* * *
15153448 AAATGG AAATGG GAATGG AAATGA AAATGG AAATGAA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG-G AAATG
15153497 CAATGATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:15161737 original size:153 final size:153
Alignment explanation
Indices: 15161459--15161764 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
15161449 TCATAATGGA
15161459 CTGATAATAAGGAATATGGTAAACCATGAAACTGTGTGGAATGACTAAAAGATAAGGTTGTGTGA
1 CTGATAATAAGGAATATGGTAAACCATGAAACTGTGTGGAATGACTAAAAGATAAGGTTGTGTGA
15161524 ATACTAAGGGACTAGTATGAAAAGGGGTCATAATGATGCTATAATCTTGCATGTTTAAGTGTCCA
66 ATACTAAGGGACTAGTATGAAAAGGGGTCATAATGATGCTATAATCTTGCATGTTTAAGTGTCCA
15161589 AATATATCATGGGATATGCCATT
131 AATATATCATGGGATATGCCATT
15161612 CTGATAATAAGGAATATGGTAAACCATGAAACTGTGTGGAATGACTAAAAGATAAGGTTGTGTGA
1 CTGATAATAAGGAATATGGTAAACCATGAAACTGTGTGGAATGACTAAAAGATAAGGTTGTGTGA
15161677 ATACTAAGGGACTAGTATGAAAAGGGGTCATAATGATGCTATAATCTTGCATGTTTAAGTGTCCA
66 ATACTAAGGGACTAGTATGAAAAGGGGTCATAATGATGCTATAATCTTGCATGTTTAAGTGTCCA
15161742 AATATATCATGGGATATGCCATT
131 AATATATCATGGGATATGCCATT
15161765 GAACATATGG
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (153 bp):
CTGATAATAAGGAATATGGTAAACCATGAAACTGTGTGGAATGACTAAAAGATAAGGTTGTGTGA
ATACTAAGGGACTAGTATGAAAAGGGGTCATAATGATGCTATAATCTTGCATGTTTAAGTGTCCA
AATATATCATGGGATATGCCATT
Found at i:15171905 original size:79 final size:82
Alignment explanation
Indices: 15171794--15171978 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
15171784 GCTACTCGTT
* *
15171794 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
15171857 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
15171874 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
15171937 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
15171954 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15171979 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:15171978 original size:40 final size:40
Alignment explanation
Indices: 15171775--15171978 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
15171765 CGGAATTTAA
** *
15171775 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15171815 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
15171855 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15171894 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
15171934 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
15171974 CCGGA
1 CCGGA
15171979 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15179846 original size:79 final size:78
Alignment explanation
Indices: 15179744--15179966 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
15179734 GCTCCTCGTT
* *
15179744 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
15179809 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
15179824 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
15179888 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
15179902 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
15179965 GA
63 GA
15179967 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:15179861 original size:39 final size:40
Alignment explanation
Indices: 15179744--15179966 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
15179734 GCTCCTCGTT
* *
15179744 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
15179784 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
15179824 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
15179863 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
15179902 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
15179943 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15179967 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:15185494 original size:39 final size:39
Alignment explanation
Indices: 15185440--15185517 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15185430 TACTTAAAGC
15185440 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
15185479 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
1 ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
15185518 CACTAATTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCGACGACCACATTCGCCTTTCCTGGAAGGTAGTCAAT
Found at i:15185856 original size:14 final size:14
Alignment explanation
Indices: 15185837--15185866 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15185827 AGGTTGTACT
15185837 AAAATCCTTTAACA
1 AAAATCCTTTAACA
15185851 AAAATCCTTTAACA
1 AAAATCCTTTAACA
15185865 AA
1 AA
15185867 CCATCGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATCCTTTAACA
Found at i:15190041 original size:28 final size:28
Alignment explanation
Indices: 15189999--15190110 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
15189989 CATGACTGTA
*
15189999 AATGTGATTTAGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* ** *
15190027 AATGTGATTTGGGCCTAATGGGCCACGTA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* **
15190056 AATGTGAATGGGCCTAAAGGGCCATATG
1 AATGTGATTGGGCCTAGTGGGCCATATG
* *
15190084 AAAGAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAGTGGGCCATAT
15190111 ATATATAGGT
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 55 0.81
29 13 0.19
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:15203015 original size:63 final size:61
Alignment explanation
Indices: 15202939--15203081 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 61
15202929 TAAAGTAGGC
* *
15202939 TATATATTATTATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTATTATTTTTATTAAATTC-TA-TTTAATAATAATTATATTAA-AATATGATTAAAT
*
15203002 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
1 TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
* *
15203063 TATTTGTTATTATTATTTA
1 TATATATTATTATT-TTTA
15203082 ATTATATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
61 22 0.31
62 24 0.33
63 21 0.29
64 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (61 bp):
TATATATTATTATTTTTATTAAATTCTATTTAATAATAATTATATTAAAATATGATTAAAT
Found at i:15203095 original size:58 final size:62
Alignment explanation
Indices: 15202939--15203095 Score: 198
Period size: 58 Copynumber: 2.6 Consensus size: 62
15202929 TAAAGTAGGC
* * *
15202939 TATATATTATTATTTTTA-TTAATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTGTTATTTTTATTTAATT-ATA-TTTAATAATAATTATATTAAGAATATGATTAAAT
* * *
15203002 TATATATTTTTATTTTTATTAAATTCTATTTAATAATAATTATATTAA-AATATGATTAAA-
1 TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
*
15203062 T-TAT-TTGTTATTATTATTTAATTATATTTAATAA
1 TATATATTGTTATTTTTATTTAATTATATTTAATAA
15203096 CAATAATCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 26 0.31
59 3 0.04
60 1 0.01
61 10 0.12
62 20 0.24
63 19 0.23
64 5 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (62 bp):
TATATATTGTTATTTTTATTTAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
Found at i:15214857 original size:49 final size:50
Alignment explanation
Indices: 15214800--15214899 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
15214790 AATAAAAATA
* *
15214800 AATCATTCAAATTGGAGTG-ATAAAAGGAAAATAAGAAGCAATTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
15214849 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
1 AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
15214899 A
1 A
15214900 CTTTTCAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 19 0.40
50 29 0.60
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (50 bp):
AATCATTCAAATTGGAGTGAAAAAAAGGAAAATAAGAAGCAACTCCTCTT
Found at i:15224166 original size:210 final size:210
Alignment explanation
Indices: 15223799--15224219 Score: 797
Period size: 210 Copynumber: 2.0 Consensus size: 210
15223789 CTAGGATGAT
*
15223799 AAGCATTCAACAAGCTCCTATGCTTTATGAAGTTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
15223864 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
15223929 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
15223994 ATGATGGATCAATTG
196 ATGATGGATCAATTG
15224009 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
1 AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
**
15224074 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTTGAAATTTCATTG
66 CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
* *
15224139 CCTCAAAGGAGAATCTGATAGAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
131 CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
15224204 ATGATGGATCAATTG
196 ATGATGGATCAATTG
15224219 A
1 A
15224220 GCACTTGTTT
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 206 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (210 bp):
AAGCATTCAACAAGCTCCTATGCTTTATGAAATTTTCAAGATAATCAAGTAGTTTGCAAGAATAT
CTAAAAGCTCAAATGTCTACCAAAATTATAAATATTCATTTGGAGATGTTGTCAAAATTTCATTG
CCTCAAAGGAGAATCTCATAAAAAGACATAAAAATAGGATGGACAAATGCCATAGATGCAAGAAT
ATGATGGATCAATTG
Found at i:15228064 original size:43 final size:43
Alignment explanation
Indices: 15227993--15228127 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
15227983 GGCTCGTACA
* * *
15227993 ATGCCAATGTCCTAGAC-GTGGTCATACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
*
15228036 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * *
15228078 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCC-ACTGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
15228122 ATGCCA
1 ATGCCA
15228128 ACGTCCTAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
42 26 0.33
43 42 0.54
44 10 0.13
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:15233342 original size:25 final size:25
Alignment explanation
Indices: 15233305--15233364 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
15233295 TTCTGTATAT
15233305 AGGCTTTCCAGAGGACTTGCCACAA
1 AGGCTTTCCAGAGGACTTGCCACAA
* *
15233330 AGGCTTTCTAGAGGACTTGCCATAA
1 AGGCTTTCCAGAGGACTTGCCACAA
*
15233355 ATGCTTTCCA
1 AGGCTTTCCA
15233365 AATAATGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGAGGACTTGCCACAA
Found at i:15233440 original size:23 final size:25
Alignment explanation
Indices: 15233414--15233461 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
15233404 AAATGCTTCC
15233414 CAAATAATACG-C-CATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
*
15233437 CAAATAATATGCCACATAGGCTTTT
1 CAAATAATACGCCACATAGGCTTTT
15233462 TAGATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
CAAATAATACGCCACATAGGCTTTT
Found at i:15233538 original size:76 final size:75
Alignment explanation
Indices: 15233362--15233576 Score: 258
Period size: 76 Copynumber: 2.9 Consensus size: 75
15233352 TAAATGCTTT
* * * *
15233362 CCAAATAATGCACCACATATGCTTTTTGAGATAACTAGCTAGAAATGCTTCCCAAATAATAC-GC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATGCTTCCCAAATAATACACC
* * *
15233426 CATAGGCTTT
66 CATAAGATTC
* ** *
15233436 TCAAATAATATGCCACATAGGCTTTTT-AGATAACAAGCTACAAA-GCACTTCCCAAATAATACA
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATG--CTTCCCAAATAATACA
15233499 CCCAATAAGATTC
64 CCC-ATAAGATTC
*
15233512 CCAAACAATACACCACATAGGCTTTTTGAGATAACTAGAC-ACAAATGCTTCCCAAATAATACAC
1 CCAAATAATACACCACATAGGCTTTTTGAGATAACTAG-CTACAAATGCTTCCCAAATAATACAC
15233576 C
65 C
15233577 ATAGGCTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.01
73 15 0.13
74 37 0.31
75 2 0.02
76 47 0.40
77 14 0.12
78 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.25
Consensus pattern (75 bp):
CCAAATAATACACCACATAGGCTTTTTGAGATAACTAGCTACAAATGCTTCCCAAATAATACACC
CATAAGATTC
Found at i:15233605 original size:48 final size:51
Alignment explanation
Indices: 15233509--15233609 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 51
15233499 CCCAATAAGA
*
15233509 TTCCCAAACAATACACCACATAGGCTTTTTGAGATAACTAGACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
* *
15233560 TTCCCAAATAATACA-C-CATAGGC-TTTTCAGATAACTATACACAAATGC
1 TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
15233608 TT
1 TT
15233610 GTTTGGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
48 25 0.53
49 7 0.15
50 1 0.02
51 14 0.30
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.27
Consensus pattern (51 bp):
TTCCCAAACAATACACCACATAGGCTTTTTCAGATAACTAGACACAAATGC
Found at i:15238827 original size:6 final size:6
Alignment explanation
Indices: 15238816--15238854 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15238806 GGAATACACT
* * *
15238816 GTAATA GTAATA GTAACA GTAACA GCAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
15238855 GTAGTAGCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:15239367 original size:3 final size:3
Alignment explanation
Indices: 15239349--15239397 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
15239339 TTTACTTTTA
* *
15239349 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT TTT AGTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
15239392 ATT ATT
1 ATT ATT
15239398 TACTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 30 0.79
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:15242694 original size:46 final size:46
Alignment explanation
Indices: 15242638--15242760 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
15242628 GATATTTGGG
*
15242638 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
* * *
15242684 CATCCGAACTCGTTGAGCTGAGTCCGAGTTCAGTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
* * *
15242730 CGTCCGAACTAGTTGAGTTGAGTCCTAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
15242761 GTGAAATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA
Found at i:15245496 original size:15 final size:15
Alignment explanation
Indices: 15245473--15245532 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
15245463 GTATCGTATC
*
15245473 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
15245488 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
15245503 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
15245518 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
15245533 CAGTTTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:15245510 original size:30 final size:30
Alignment explanation
Indices: 15245474--15245533 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
15245464 TATCGTATCT
* *
15245474 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
15245504 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
15245534 AGTTTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.13, G:0.17, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:15247523 original size:46 final size:46
Alignment explanation
Indices: 15247468--15247578 Score: 195
Period size: 46 Copynumber: 2.4 Consensus size: 46
15247458 CCAAACTCAT
15247468 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
* * *
15247514 TGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
15247560 TGAGTTGAGTCCGAGTTCA
1 TGAGTTGAGTCCGAGTTCA
15247579 TGAAATGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (46 bp):
TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGC
Found at i:15251651 original size:39 final size:39
Alignment explanation
Indices: 15251597--15252024 Score: 775
Period size: 39 Copynumber: 11.0 Consensus size: 39
15251587 ATTATATTAT
* *
15251597 CAGCACAAAGCCTGCGGGACTTTAGCCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251636 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251675 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251714 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251753 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251792 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
15251831 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTG
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
15251870 CAGCACGAAGTCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
15251909 TAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251948 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
15251987 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
15252025 TCAGTGTCTT
Statistics
Matches: 373, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 373 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:15256955 original size:47 final size:46
Alignment explanation
Indices: 15256880--15257097 Score: 159
Period size: 47 Copynumber: 4.7 Consensus size: 46
15256870 AATTTCTTGT
* * *
15256880 GTGCCAGTGGAAGACATGTCAGGGACATGCATC-A-GCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACG-CACA-GATGA
* *
15256926 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGCACAGATGA
* *
15256974 GTGCCAATGTAAGACATGTCTGGGACATGCATTGGCATCG-ACGAAGAT-A
1 GTGCCAGTGTAAGACATGTCTGGGACATGCA-TCG-A-CGCAC--AGATGA
* *
15257023 -T-CCAGTGTAAGACGTGTCTGGGACATGCATCG--GCTA-AGA-GTT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGC-ACAGATG-A
* **
15257065 GTGCTAGTGTAAGACATGTCCAGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
15257098 AGCACGTATA
Statistics
Matches: 141, Mismatches: 16, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 1 0.01
44 27 0.19
46 18 0.13
47 55 0.39
48 25 0.18
49 6 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACGCACAGATGA
Found at i:15259615 original size:25 final size:25
Alignment explanation
Indices: 15259540--15259615 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
15259530 TCATGTACAT
* * *
15259540 GTATGCTCATACGAGCTTTGAATCG
1 GTATGCTCACACGAGCTGTGGATCG
* *
15259565 GTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTGGATCG
*
15259590 GTATGCTCACACGAGCTGTGGGTCG
1 GTATGCTCACACGAGCTGTGGATCG
15259615 G
1 G
15259616 AACATAGCTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGGATCG
Found at i:15261860 original size:18 final size:18
Alignment explanation
Indices: 15261839--15261882 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
15261829 TTAATTTAGC
15261839 AATTTTTATTTTTA-TTAT
1 AATTTTTATTTTTAGTT-T
*
15261857 AATTTTTGTTTTTAGTTT
1 AATTTTTATTTTTAGTTT
15261875 AATTTTTA
1 AATTTTTA
15261883 CATTCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
AATTTTTATTTTTAGTTT
Found at i:15265418 original size:10 final size:10
Alignment explanation
Indices: 15265380--15265453 Score: 73
Period size: 10 Copynumber: 7.4 Consensus size: 10
15265370 CCCTTTTACC
*
15265380 TTTTTCTTTA
1 TTTTTATTTA
15265390 -TTTTATTTA
1 TTTTTATTTA
*
15265399 GTTTCT-TTTA
1 -TTTTTATTTA
15265409 TTTTTATTTA
1 TTTTTATTTA
*
15265419 TTTTAATTTA
1 TTTTTATTTA
15265429 TTTATTATTTA
1 TTT-TTATTTA
15265440 TTTATTA-TTA
1 TTT-TTATTTA
15265450 TTTT
1 TTTT
15265454 ACTGATCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 13 0.24
10 26 0.47
11 16 0.29
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:15265423 original size:25 final size:25
Alignment explanation
Indices: 15265405--15265454 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
15265395 TTTAGTTTCT
15265405 TTTATT-TTTATTTATTTTAATTTA
1 TTTATTATTTATTTATTTTAATTTA
*
15265429 TTTATTATTTATTTATTATTATTTTA
1 TTTATTATTTATTTATT-TTAATTTA
15265455 CTGATCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTATTATTTATTTATTTTAATTTA
Found at i:15265428 original size:14 final size:14
Alignment explanation
Indices: 15265386--15265445 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
15265376 TACCTTTTTC
15265386 TTTATTTT-ATTTA
1 TTTATTTTAATTTA
* *
15265399 GTTTCTTTTATTTTTA
1 -TTTATTTTA-ATTTA
15265415 TTTATTTTAATTTA
1 TTTATTTTAATTTA
*
15265429 TTTATTATTTATTTA
1 TTTATT-TTAATTTA
15265444 TT
1 TT
15265446 ATTATTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 17 0.45
15 17 0.45
16 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTATTTTAATTTA
Found at i:15265452 original size:14 final size:14
Alignment explanation
Indices: 15265386--15265452 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
15265376 TACCTTTTTC
15265386 TTTATT-TTATTTA
1 TTTATTATTATTTA
*
15265399 GTTTCTT-TTA-TT-
1 -TTTATTATTATTTA
*
15265411 TTTATTTATT-TTAA
1 TTTA-TTATTATTTA
15265425 TTTATTTATTATTTA
1 TTTA-TTATTATTTA
15265440 TTTATTATTATTT
1 TTTATTATTATTT
15265453 TACTGATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 3 0.07
12 2 0.05
13 5 0.11
14 27 0.61
15 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:15265657 original size:6 final size:6
Alignment explanation
Indices: 15265616--15265695 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
15265606 TATCATTGAG
* * * *
15265616 TTTA-T TTTATT TCT-TT TTCATT TTCA-T TTTATT TTTATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
15265661 TATATT TTTATT TTTAGCTGC TTTATT TTTATT TT
1 TTTATT TTTATT TTTA--T-T TTTATT TTTATT TT
15265696 CTTTTACTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 11 0.19
6 42 0.71
7 1 0.02
8 1 0.02
9 4 0.07
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:15265657 original size:18 final size:18
Alignment explanation
Indices: 15265645--15265695 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
15265635 ATTTTCATTT
15265645 TATTTTTATTTTTATCTA
1 TATTTTTATTTTTATCTA
*
15265663 TATTTTTATTTTTAGCTGCTT
1 TATTTTTATTTTTA--T-CTA
15265684 TATTTTTATTTT
1 TATTTTTATTTT
15265696 CTTTTACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.48
20 1 0.03
21 14 0.48
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (18 bp):
TATTTTTATTTTTATCTA
Found at i:15271978 original size:40 final size:40
Alignment explanation
Indices: 15271878--15272142 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
15271868 GCTCCTCGTT
* * * *
15271878 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
15271918 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15271957 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15271997 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
15272037 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
15272077 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15272118 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15272143 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15272102 original size:80 final size:80
Alignment explanation
Indices: 15271845--15272142 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
15271835 AAATCACGTA
* ** * * *
15271845 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
15271907 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
15271923 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
15271986 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
15272003 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
15272067 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
15272083 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
15272143 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:15272151 original size:41 final size:41
Alignment explanation
Indices: 15272074--15272151 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15272064 TTTGTATCTC
* * *
15272074 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15272115 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15272152 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15279930 original size:79 final size:82
Alignment explanation
Indices: 15279819--15280003 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
15279809 GCTACTCGTT
* *
15279819 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
15279882 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
15279899 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
15279962 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
15279979 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15280004 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:15280003 original size:40 final size:40
Alignment explanation
Indices: 15279800--15280003 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
15279790 CGGAATTTAA
** *
15279800 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15279840 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
15279880 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15279919 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
15279959 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
15279999 CCGGA
1 CCGGA
15280004 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15287830 original size:39 final size:40
Alignment explanation
Indices: 15287785--15287952 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
15287775 CGGGGTTTAG
* * *
15287785 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
15287824 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
15287864 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
15287904 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
15287945 CCGGATAT
1 CCGGATAT
15287953 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:15287935 original size:41 final size:40
Alignment explanation
Indices: 15287808--15287952 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
15287798 CTCGCACAAG
* * * * *
15287808 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
15287848 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
15287888 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
15287929 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
15287953 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:15303786 original size:27 final size:27
Alignment explanation
Indices: 15303755--15304228 Score: 441
Period size: 27 Copynumber: 17.7 Consensus size: 27
15303745 TAATAAAGAG
*
15303755 AAATTACTGAAATAACCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
15303782 AAATTACCGAAATACCCCCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
15303809 AAATTACTGAAATACCCTCTATTATG--
1 AAATTACTGAAATACCCTCGATT-TGTA
* * *
15303835 AAATTATTGAAATACCATTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
15303862 AAACTA-TCGAAATACCCTC-AATTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
15303888 AAATTA-TCGAAATACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
15303915 AAATTACCGAAATACCCCCAATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
15303942 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
15303969 AAATTA-TCGAAATACCC-CTAATTTGTA
1 AAATTACT-GAAATACCCTC-GATTTGTA
* * *
15303996 AAATTATTGAAATATCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
15304023 AAATTA-TCGATATACCC-CAATTTTTG
1 AAATTACT-GAAATACCCTCGATTTGTA
** *
15304049 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
15304076 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
15304103 AAATTA-TCAAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
15304130 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
15304157 AAATTA-TCAAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
15304184 AAATTACAGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* *
15304211 AAATGACTGACATACCCT
1 AAATTACTGAAATACCCT
15304229 TATAGGGTAA
Statistics
Matches: 365, Mismatches: 64, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.01
26 64 0.18
27 296 0.81
28 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:15303965 original size:54 final size:54
Alignment explanation
Indices: 15303755--15304201 Score: 490
Period size: 54 Copynumber: 8.3 Consensus size: 54
15303745 TAATAAAGAG
* * * * * *
15303755 AAATTACTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * *
15303809 AAATTACTGAAATACCCTCTATTATG--AAATTATTGAAATACCATTGATTTGTA
1 AAATTACCGAAATACCCTCAATT-TGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
15303862 AAACTATCGAAATACCCTCAA-TTGTGAAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
15303915 AAATTACCGAAATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
15303969 AAATTATCGAAATACCC-CTAATTTGTAAAATTATTGAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCTC-AATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * * * *
15304023 AAATTATCGATATACCC-CAATTTTTGAAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
15304076 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
15304130 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
*
15304184 AAATTACAGAAATACCCT
1 AAATTACCGAAATACCCT
15304202 TGTAGTGTAA
Statistics
Matches: 340, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
51 2 0.01
52 1 0.00
53 122 0.36
54 213 0.63
55 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:15304074 original size:161 final size:159
Alignment explanation
Indices: 15303755--15304201 Score: 562
Period size: 161 Copynumber: 2.8 Consensus size: 159
15303745 TAATAAAGAG
* * *
15303755 AAATTACTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
*
15303820 ATACCCTCTATTATG--AAATTATTGAAATACCATTGATTTGTAAAACTATCGAAATACCCTCAA
66 ATACCC-CTATT-TGTAAAATTATTGAAATACC-TTGATTTGTAAAATTATCGAAATACCCTCAA
* * * *
15303883 TTGTGAAATTATCGAAATACCCTTGATTTGTA
128 TTGTGAAATTACCAAAACACCCTCGATTTGTA
* * * * *
15303915 AAATTACCGAAATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTGTAAAATTA-TCGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACT-GA
*
15303979 AATACCCCTAATTTGTAAAATTATTGAAATATCCTTGATTTGTAAAATTATCGATATACCC-CAA
65 AATACCCCT-ATTTGTAAAATTATTGAAATA-CCTTGATTTGTAAAATTATCGAAATACCCTCAA
*
15304043 TTTTTGAAATTACCAAAACACCCTCGATTTGTA
128 -TTGTGAAATTACCAAAACACCCTCGATTTGTA
* * *
15304076 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
* * ** *
15304141 ACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTA-CAGAAATACCCT
66 ATACCC-CTATTTGTAAAATTATTGAAATA-CCTTGATTTGTAAAATTATC-GAAATACCCT
15304202 TGTAGTGTAA
Statistics
Matches: 247, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
159 5 0.02
160 68 0.28
161 170 0.69
162 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (159 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAA
ATACCCCTATTTGTAAAATTATTGAAATACCTTGATTTGTAAAATTATCGAAATACCCTCAATTG
TGAAATTACCAAAACACCCTCGATTTGTA
Found at i:15304080 original size:134 final size:134
Alignment explanation
Indices: 15303755--15304200 Score: 515
Period size: 134 Copynumber: 3.3 Consensus size: 134
15303745 TAATAAAGAG
* * *
15303755 AAATTA-CTGAAATAACCTCGATTTGTAAAATTACCGAAATACCCCCGATTTATAAAATTACTGA
1 AAATTATC-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGA
* * * ** * * * *
15303819 AATACCCTCTATTATG--AAATTATTGAAATACCATTGATTTGTAAAACTATCGAAATACCCTCA
65 AACACCCTCGATT-TGTAAAATTATCGAAATACCCCTGATTTGTAAAATTATTGAAATACCTTGA
* *
15303882 ATTGTG
129 TTTGTA
** * * *
15303888 AAATTATCGAAATACCCTTGATTTGTAAAATTACCGAAATACCCCCAATTTGTGAAATTACCGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
*
15303953 ACACCCTCGATTTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTATTGAAATATCCTTGAT
66 ACACCCTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTATTGAAATA-CCTTGAT
15304018 TTGTA
130 TTGTA
* * * * * *
15304023 AAATTATCGATATACCC-CAATTTTTGAAATTACCAAAACACCCTCGATTTGTAAAATTACTGAA
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
* * * *
15304087 ACACCCTCGATTTGTAAAATTATCAAAATA-CCCTCGATTTGTAAAATTACTGAAACACCCTCGA
66 ACACCCTCGATTTGTAAAATTATCGAAATACCCCT-GATTTGTAAAATTATTGAAATA-CCTTGA
15304151 TTTGTA
129 TTTGTA
* * *
15304157 AAATTATCAAAATACCCTCGATTTGTAAAATTACAGAAATACCC
1 AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCC
15304201 TTGTAGTGTA
Statistics
Matches: 264, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
132 2 0.01
133 71 0.27
134 147 0.56
135 44 0.17
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (134 bp):
AAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTACTGAA
ACACCCTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTATTGAAATACCTTGATT
TGTA
Found at i:15304229 original size:27 final size:27
Alignment explanation
Indices: 15304180--15304246 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
15304170 ACCCTCGATT
* * *
15304180 TGTAAAATTACAGAAATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCTTATAG
*
15304207 TGTAAAATGACTGACATACCCTTATAG
1 TGTAAAATGACTGAAATACCCTTATAG
*
15304234 GGTAAAATGACTG
1 TGTAAAATGACTG
15304247 TTTTGCCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCTTATAG
Found at i:15309802 original size:39 final size:39
Alignment explanation
Indices: 15309742--15309820 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
15309732 GTGGGGAGGA
* *
15309742 TGAGGGAGCCTTCTTCCTTCTTCTGTGAGACATGTAGAC
1 TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
** * *
15309781 TGAGGGAACCTTCTTTTTTCTTCTATGAGATATGTGGAC
1 TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
15309820 T
1 T
15309821 ATGTCTATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (39 bp):
TGAGGGAACCTTCTTCCTTCTTCTATGAGACATGTAGAC
Found at i:15312478 original size:50 final size:50
Alignment explanation
Indices: 15312398--15312553 Score: 199
Period size: 50 Copynumber: 3.1 Consensus size: 50
15312388 TAGAGGACTT
* * *
15312398 GCCACAAAAGCTTTCCAAATAATATGCCACATGGACTTTTCAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
* * * *
15312448 GCTACAAAGGCTTCCCAAATAACACACCACATAGG-CTTTCCA-AGTAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACAT-GGACTTTTCAGA-TAACTA
* *
15312498 GCCACAAAGGCTTCCTAAATAATACGCCACATAGACTTTTCAGATAACTA
1 GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
15312548 GCCACA
1 GCCACA
15312554 TAAGCTTGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 84 0.94
51 3 0.03
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (50 bp):
GCCACAAAGGCTTCCCAAATAATACGCCACATGGACTTTTCAGATAACTA
Found at i:15312554 original size:25 final size:25
Alignment explanation
Indices: 15312398--15312560 Score: 120
Period size: 25 Copynumber: 6.5 Consensus size: 25
15312388 TAGAGGACTT
* *
15312398 GCCACAAAAGCTTTCCAAATAA-TA
1 GCCACATAGGCTTTCCAAATAACTA
* *
15312422 TGCCACAT-GGACTTTTCAGATAACTA
1 -GCCACATAGG-CTTTCCAAATAACTA
* * *
15312448 GCTACAAAGGCTTCCCAAATAAC-A
1 GCCACATAGGCTTTCCAAATAACTA
* *
15312472 CACCACATAGGCTTTCCAAGTAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
15312498 GCCACAAAGGC-TTCCTAAATAA-TA
1 GCCACATAGGCTTTCC-AAATAACTA
* * *
15312522 CGCCACATAGACTTTTCAGATAACTA
1 -GCCACATAGGCTTTCCAAATAACTA
*
15312548 GCCACATAAGCTT
1 GCCACATAGGCTT
15312561 GTTTTGTTTG
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
24 8 0.08
25 88 0.83
26 10 0.09
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.23
Consensus pattern (25 bp):
GCCACATAGGCTTTCCAAATAACTA
Found at i:15333755 original size:23 final size:23
Alignment explanation
Indices: 15333729--15333821 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
15333719 CACCGCAAGA
* *
15333729 GCATTACAGAATACACCAAAAAG
1 GCATCACAGAATACACCACAAAG
* ***
15333752 GCATCACAAAATACGGTACAAAG
1 GCATCACAGAATACACCACAAAG
**
15333775 GCATCACAGAATATGCCACAAAG
1 GCATCACAGAATACACCACAAAG
*
15333798 GCATTACAGAATACACCACAAAG
1 GCATCACAGAATACACCACAAAG
15333821 G
1 G
15333822 TTTCCGAGAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (23 bp):
GCATCACAGAATACACCACAAAG
Found at i:15336455 original size:43 final size:43
Alignment explanation
Indices: 15336394--15336489 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
15336384 ATGTAATGGT
*
15336394 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTATTTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
** * *
15336437 ACTAAGTGTGTGATACAATTATAGCTTTGACTAATTAATTGGC
1 ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
15336480 ACTAAGTGTG
1 ACTAAGTGTG
15336490 CGAGTTCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (43 bp):
ACTAAGTGTGAAATACAATTATAGATTCGACTAATTAATTGGC
Found at i:15343861 original size:13 final size:13
Alignment explanation
Indices: 15343843--15343871 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15343833 AAGAAATCTA
15343843 AAACCTAAGAATG
1 AAACCTAAGAATG
15343856 AAACCTAAGAATG
1 AAACCTAAGAATG
15343869 AAA
1 AAA
15343872 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (13 bp):
AAACCTAAGAATG
Found at i:15344548 original size:25 final size:25
Alignment explanation
Indices: 15344514--15344685 Score: 127
Period size: 25 Copynumber: 6.9 Consensus size: 25
15344504 AACTTACCAC
* *
15344514 AAAGGATTTCCAAAGAATTCTCCAA
1 AAAGGCTTTCCAAAGAATTCTCCAT
* * *
15344539 AAAGACTTTCCAAATG-ATAT-GCCAC
1 AAAGGCTTTCCAAA-GAAT-TCTCCAT
* * * *
15344564 AAGGGCTTTCCTAAGAAGTCACCAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
* * * *
15344589 AAAGGTTTTCCAGAGAATTCACTAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
*
15344614 AAAGG-TTTGCCAAAGAATT-TGCCAC
1 AAAGGCTTT-CCAAAGAATTCT-CCAT
*
15344639 AAAGGCTTTCCAAAGAATTTTCCAT
1 AAAGGCTTTCCAAAGAATTCTCCAT
* *
15344664 AAAGGCTTTCTAGAGAATTCTC
1 AAAGGCTTTCCAAAGAATTCTC
15344686 AACTTAACAG
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
24 5 0.04
25 104 0.90
26 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAGGCTTTCCAAAGAATTCTCCAT
Found at i:15347525 original size:40 final size:40
Alignment explanation
Indices: 15347474--15348778 Score: 2394
Period size: 40 Copynumber: 32.6 Consensus size: 40
15347464 CATTTGAATG
*
15347474 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15347514 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15347554 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15347594 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15347634 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15347674 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
15347714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347754 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347794 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
15347834 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347874 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347914 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347954 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15347994 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348034 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348074 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348114 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348154 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348194 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348234 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348274 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348314 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348354 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348394 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348434 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348474 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348514 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348594 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
15348634 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
15348674 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
15348714 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
15348754 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
15348779 ATTGAGCTTG
Statistics
Matches: 1253, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1253 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:15356667 original size:39 final size:40
Alignment explanation
Indices: 15356572--15356794 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
15356562 TTGAATGATG
*
15356572 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
15356610 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
15356651 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
15356690 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
15356729 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
15356768 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15356795 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:15356758 original size:79 final size:81
Alignment explanation
Indices: 15356572--15356794 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
15356562 TTGAATGATG
* * *
15356572 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
15356633 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
15356651 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
15356713 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
15356729 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
15356793 TG
66 TG
15356795 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:15356816 original size:79 final size:79
Alignment explanation
Indices: 15356572--15356827 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
15356562 TTGAATGATG
* * * *
15356572 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
15356633 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
15356651 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
15356715 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
15356729 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
15356793 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
15356809 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15356828 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:15360801 original size:5 final size:6
Alignment explanation
Indices: 15360763--15360788 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15360753 ATTTACGCTC
15360763 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
15360789 CTACTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:15362460 original size:11 final size:12
Alignment explanation
Indices: 15362438--15362470 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15362428 TCGGCTGCCC
15362438 ATATTAATTTTT
1 ATATTAATTTTT
15362450 ATATT-ATTTTT
1 ATATTAATTTTT
*
15362461 ATATAAATTT
1 ATATTAATTT
15362471 AAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:15365549 original size:49 final size:49
Alignment explanation
Indices: 15365371--15365877 Score: 860
Period size: 49 Copynumber: 10.6 Consensus size: 49
15365361 TATTTGAATA
15365371 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365418 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365465 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365512 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365561 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365610 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365657 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365706 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
15365755 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
15365804 AATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATG
*
15365851 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
15365878 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
46 2 0.00
47 197 0.44
48 3 0.01
49 243 0.55
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:15365628 original size:145 final size:143
Alignment explanation
Indices: 15365371--15365877 Score: 862
Period size: 145 Copynumber: 3.5 Consensus size: 143
15365361 TATTTGAATA
15365371 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
15365434 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
15365499 GGCCGATGTGATG
131 GGCCGATGTGATG
15365512 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
15365577 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
15365642 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
15365657 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
15365722 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
15365787 TAATGGCCGATGTGATG
127 TAATGGCCGATGTGATG
* * * * * *
15365804 AATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 AATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
15365867 A-ATGTGATAAG
65 ATATGTGATAAG
15365878 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 12 0.03
143 57 0.16
144 3 0.01
145 234 0.66
147 47 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:15376329 original size:31 final size:31
Alignment explanation
Indices: 15376294--15376357 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15376284 CCTAAGACAG
15376294 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
*
15376325 AGAGGGGAAACTTTCAAGGCCTAATTGGGTA
1 AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
15376356 AG
1 AG
15376358 TTCTCTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (31 bp):
AGAGGGGAAACTTTAAAGGCCTAATTGGGTA
Found at i:15384999 original size:57 final size:56
Alignment explanation
Indices: 15384883--15385020 Score: 165
Period size: 57 Copynumber: 2.4 Consensus size: 56
15384873 CATTAGAGAA
* *
15384883 AGGATTTAGCCTGGACTGGTAATCTTGATATAAGCCCTCTTGAGCATATGTACAGAT
1 AGGATTTAGCCTGGACAGGTAATCTTGATATAAG-CCTCTTGAGCATATGTACAAAT
*
15384940 AGGATTTAGCCCGGACAGGTAATCTTGAT-TAAG-CTCTTGTAAGCATATGTTGA-AAAT
1 AGGATTTAGCCTGGACAGGTAATCTTGATATAAGCCTCTTG--AGCATATG-T-ACAAAT
* *
15384997 AGGATTTAGCTTGGACAAGTAATC
1 AGGATTTAGCCTGGACAGGTAATC
15385021 CTGTTATATG
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
54 6 0.08
56 12 0.17
57 52 0.73
58 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (56 bp):
AGGATTTAGCCTGGACAGGTAATCTTGATATAAGCCTCTTGAGCATATGTACAAAT
Found at i:15390386 original size:93 final size:93
Alignment explanation
Indices: 15390274--15390445 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
15390264 GCCCATAAGT
* *
15390274 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15390339 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
15390367 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15390432 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
15390446 CAAACATTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:15390441 original size:46 final size:46
Alignment explanation
Indices: 15390266--15390441 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
15390256 TGTAACCCGC
* *
15390266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15390312 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
15390358 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15390405 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15390442 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:15392812 original size:16 final size:17
Alignment explanation
Indices: 15392791--15392823 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15392781 TCTCAAAAGA
*
15392791 ATAAGAATAA-CAAAAC
1 ATAAGAAAAACCAAAAC
15392807 ATAAGAAAAACCAAAAC
1 ATAAGAAAAACCAAAAC
15392824 TCCTGAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.09
Consensus pattern (17 bp):
ATAAGAAAAACCAAAAC
Found at i:15396501 original size:32 final size:32
Alignment explanation
Indices: 15396465--15396532 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
15396455 TAAATGAGTT
* *
15396465 AATTTTTATTTCATATAGATCAAGAAAGAAAG
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
15396497 AATTTTGAATTCATATAGATCAAGAAAGAAAG
1 AATTTTGAATTCATATAGATCAAGAAAGAAAG
15396529 AATT
1 AATT
15396533 CGGATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (32 bp):
AATTTTGAATTCATATAGATCAAGAAAGAAAG
Found at i:15400121 original size:10 final size:10
Alignment explanation
Indices: 15400106--15400130 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15400096 CATTTAAAAC
15400106 ATGTCTAAAT
1 ATGTCTAAAT
15400116 ATGTCTAAAT
1 ATGTCTAAAT
15400126 ATGTC
1 ATGTC
15400131 CACTCATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (10 bp):
ATGTCTAAAT
Found at i:15400632 original size:66 final size:65
Alignment explanation
Indices: 15400509--15400645 Score: 168
Period size: 66 Copynumber: 2.1 Consensus size: 65
15400499 CACGGTCTCA
* * *
15400509 CACATGGGCATGTGACTGGCCGTGTGGTACAAGTTAGTATAACCCCTAATTGGCACACGGCCTAG
1 CACACGGGCATGTGACTGGCCGTGTGGCACAAGTTAGTATAACCCCCAATTGGCACACGGCCTAG
* * * * **
15400574 CACACGGGCATGTGACTTGGTCGTGTTGCATAAGTTAGTAT-ACCCTCCATTTTTCACACGGCCT
1 CACACGGGCATGTGAC-TGGCCGTGTGGCACAAGTTAGTATAACCC-CCAATTGGCACACGGCCT
15400638 AG
64 AG
15400640 CACACG
1 CACACG
15400646 AACGTTTCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 19 0.31
66 42 0.69
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (65 bp):
CACACGGGCATGTGACTGGCCGTGTGGCACAAGTTAGTATAACCCCCAATTGGCACACGGCCTAG
Found at i:15402527 original size:15 final size:17
Alignment explanation
Indices: 15402502--15402535 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15402492 GCTAAGGACT
15402502 AAATTAGAAAG-TGATA
1 AAATTAGAAAGATGATA
15402518 AAATTA-AAAGATGATA
1 AAATTAGAAAGATGATA
15402534 AA
1 AA
15402536 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTAGAAAGATGATA
Found at i:15407115 original size:39 final size:40
Alignment explanation
Indices: 15407070--15407254 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
15407060 GCTCCTCGTT
* * *
15407070 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
15407110 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
15407149 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
15407189 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
15407230 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
15407255 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:15407170 original size:40 final size:39
Alignment explanation
Indices: 15407037--15407254 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
15407027 AAATCACGTA
* * **
15407037 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
15407076 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
15407115 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
15407155 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
15407195 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
15407235 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
15407255 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:15415039 original size:40 final size:39
Alignment explanation
Indices: 15414941--15415203 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
15414931 TCCTCGTTCA
* * * *
15414941 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
15414980 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
15415019 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
15415059 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
15415099 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
15415139 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
15415180 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15415204 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:15415163 original size:120 final size:119
Alignment explanation
Indices: 15414941--15415203 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
15414931 TCCTCGTTCA
* * *
15414941 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
15415006 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
15415059 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
15415124 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
15415180 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
15415204 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:15415212 original size:41 final size:41
Alignment explanation
Indices: 15415135--15415212 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15415125 TTTGTATCTC
* * *
15415135 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15415176 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15415213 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15417883 original size:42 final size:42
Alignment explanation
Indices: 15417823--15417935 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
15417813 TTGAGATTAT
*
15417823 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGA-CTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATC-CC
* * * *
15417865 GTGTAAGACCACAGCTAGGCTATTGGCATCAATATGAGATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCAATACGAGATCCC
*
15417908 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
15417936 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATACGAGATCCC
Found at i:15432700 original size:6 final size:6
Alignment explanation
Indices: 15432689--15432716 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15432679 AACATCAACC
15432689 TTCCCT TTCCCT TTCCCT TTCCCT TTCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCC
15432717 TACTTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCCT
Found at i:15436109 original size:18 final size:18
Alignment explanation
Indices: 15436082--15436120 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15436072 TCAGTTGTAA
15436082 TTTAGATTTTCTTCTAGT
1 TTTAGATTTTCTTCTAGT
* *
15436100 TTTAGTTTTTCTTTTAGT
1 TTTAGATTTTCTTCTAGT
15436118 TTT
1 TTT
15436121 CTATTTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTAGATTTTCTTCTAGT
Found at i:15436127 original size:18 final size:19
Alignment explanation
Indices: 15436087--15436132 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
15436077 TGTAATTTAG
*
15436087 ATTTTCTTCTAGTTTTAGT
1 ATTTTCTTCTAGTTTTACT
*
15436106 -TTTTCTTTTAGTTTT-CT
1 ATTTTCTTCTAGTTTTACT
*
15436123 ATTTTGTTCT
1 ATTTTCTTCT
15436133 TCACGAGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.70
Consensus pattern (19 bp):
ATTTTCTTCTAGTTTTACT
Found at i:15443582 original size:9 final size:9
Alignment explanation
Indices: 15443568--15443597 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15443558 GGAATTTAGA
15443568 AAAATAATT
1 AAAATAATT
15443577 AAAATAATT
1 AAAATAATT
15443586 AAAATAA-T
1 AAAATAATT
15443594 AAAA
1 AAAA
15443598 GATATTAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATAATT
Found at i:15450345 original size:24 final size:24
Alignment explanation
Indices: 15450317--15450389 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
15450307 GGGCCTTGTA
15450317 GGCCCAAAATTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
*
15450341 GGCCCAAACTTAGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
* *
15450365 GGCTCAAAATTGGGACACTACAAT
1 GGCCCAAAATTAGGACACTACAAT
15450389 G
1 G
15450390 TTAGTGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (24 bp):
GGCCCAAAATTAGGACACTACAAT
Found at i:15456540 original size:138 final size:138
Alignment explanation
Indices: 15456292--15456567 Score: 552
Period size: 138 Copynumber: 2.0 Consensus size: 138
15456282 ACCGAAACAC
15456292 AGCACCGAAATGAATACCAGGTAAGTTTGGATAACTTAAAGTAAACTCCTAATATGCCTAATTAT
1 AGCACCGAAATGAATACCAGGTAAGTTTGGATAACTTAAAGTAAACTCCTAATATGCCTAATTAT
15456357 ATGATTTGTGAATGGATGGTGATTGCATTTATTGATAGCATAAGATTTCATGAAATGCATTCCTA
66 ATGATTTGTGAATGGATGGTGATTGCATTTATTGATAGCATAAGATTTCATGAAATGCATTCCTA
15456422 ATAATGAT
131 ATAATGAT
15456430 AGCACCGAAATGAATACCAGGTAAGTTTGGATAACTTAAAGTAAACTCCTAATATGCCTAATTAT
1 AGCACCGAAATGAATACCAGGTAAGTTTGGATAACTTAAAGTAAACTCCTAATATGCCTAATTAT
15456495 ATGATTTGTGAATGGATGGTGATTGCATTTATTGATAGCATAAGATTTCATGAAATGCATTCCTA
66 ATGATTTGTGAATGGATGGTGATTGCATTTATTGATAGCATAAGATTTCATGAAATGCATTCCTA
15456560 ATAATGAT
131 ATAATGAT
15456568 GTGTTGAAAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (138 bp):
AGCACCGAAATGAATACCAGGTAAGTTTGGATAACTTAAAGTAAACTCCTAATATGCCTAATTAT
ATGATTTGTGAATGGATGGTGATTGCATTTATTGATAGCATAAGATTTCATGAAATGCATTCCTA
ATAATGAT
Found at i:15468542 original size:16 final size:16
Alignment explanation
Indices: 15468517--15468551 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15468507 CTAGAAAATT
15468517 AAATAAAATTTAT-GA
1 AAATAAAATTTATGGA
15468532 AAATGAAAATTTATGGA
1 AAAT-AAAATTTATGGA
15468549 AAA
1 AAA
15468552 ATGGTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 9 0.50
17 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAATAAAATTTATGGA
Found at i:15469387 original size:26 final size:25
Alignment explanation
Indices: 15469358--15469409 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
15469348 ACTTTTGTTA
15469358 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-T-AAAATGTGAAAT
15469384 AGGGACTAATTTGTAAAATGTGAAAT
1 AGGGACT-ATTTGTAAAATGTGAAAT
15469410 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 19 0.79
27 1 0.04
28 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTAAAATGTGAAAT
Found at i:15469935 original size:42 final size:43
Alignment explanation
Indices: 15469888--15470005 Score: 143
Period size: 42 Copynumber: 2.8 Consensus size: 43
15469878 GTACTACCGA
* *
15469888 GATTTCGTATAAGACCATATCTGGGATATGGCATCGATATG-T
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* * *
15469930 GATTTCATATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
* *
15469973 G-TTTCATGTAAGACCATATCCGAGG-TATGGCAT
1 GATTTCATATAAGACCATATCAG-GGATATGGCAT
15470006 TGGTACAGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCATATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:15486266 original size:32 final size:32
Alignment explanation
Indices: 15486230--15486301 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
15486220 CCACACGGGT
*
15486230 AGGCACATGGGCGTGTGTCTAGGCCGTATGTG
1 AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
*
15486262 AGGCACACGGGCGTGTGTCTAGGCCGTGTGTG
1 AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
15486294 A--CACACGG
1 AGGCACACGG
15486302 TTTACCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.18
32 31 0.82
ACGTcount: A:0.17, C:0.22, G:0.40, T:0.21
Consensus pattern (32 bp):
AGGCACACGGGCGTGTGTCTAGGCCGTATGTG
Done.