Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 147 of 213
Found at i:44200288 original size:44 final size:44
Alignment explanation
Indices: 44199976--44200905 Score: 150
Period size: 44 Copynumber: 21.2 Consensus size: 44
44199966 CAGTACAGGA
* * *
44199976 AGGCAAGATCTGCTATCTTCAACCTGCTCTACTACAACCGAGAG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * *
44200020 AGGCAAG-GCTTGTGT-T-TTCGATCTGCTTCACTCTCGA-TGCAGGA
1 AGGCAAGATC-TGT-TATCTTCAACCTGCTCCACT-ACAACCG-AGGG
* * *
44200064 AGGCAAAATCTGCTATCTTCAACCTGCTCCACTACAACCGTGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * * * *
44200108 GGGCAAG-GCT-TGTGTCTTCAATCTGCTTCACTGTCGA-TGTATGA
1 AGGCAAGATCTGT-TATCTTCAACCTGCTCCACT-ACAACCG-AGGG
* *
44200152 AGGCAAGATCTGATATCTTCAACCTCCTCCACTACAACCGAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * *
44200196 AGGCAAG-GCT-TGTGTCTTCGATCTACTTCGC-CGT-CGA-TGCAGGA
1 AGGCAAGATCTGT-TATCTTCAACCTGC-TC-CAC-TACAACCG-AGGG
*
44200240 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCAAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * ** * * * *
44200284 AGGCAAG-GCT-TGTGTCTTCGATCTGCTTCGTCGT-CGA-TGCAAGA
1 AGGCAAGATCTGT-TATCTTCAACCTGC-TCCAC-TACAACCG-AGGG
* * * * * * * *
44200328 AGGCAAGATCTGCTGTCCTCAACCTGCTTCGCTGCAACCTAAGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * * * *
44200372 AGGTAAG-GCTGGTGTCTTCGATCTGATTCACTGTCAGTA-C-AGGA
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACT-ACA--ACCGAGGG
*
44200416 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACTGAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * * *
44200460 AGGCAAG-GCT-TGTGTCTTCGATCTGCTTCGCCATCAA-TGCAGGA
1 AGGCAAGATCTGT-TATCTTCAACCTGCTCCACTA-CAACCG-AGGG
* * * * * * *
44200504 AGGCAAGATTTGCTGTCTTCAATCTACTCCACTACAACCAAGGA
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * *
44200548 AGGCAAG-GCT-TGTGTCTTCAATCTGCTTCACTGTCGA-TGCAGGA
1 AGGCAAGATCTGT-TATCTTCAACCTGCTCCACT-ACAACCG-AGGG
* * ** ** *
44200592 AGGCAAGATCTGCTATCTTCAACCTGTTCCGTTGTAACCCAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * * * *
44200636 AGGTAAG-GCTGGTGTCTTCGATCTACTTCACTGTCAGTA-C-AGGA
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACT-ACA--ACCGAGGG
44200680 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* ** * * * *
44200724 AGGCAAG-GCTTGTGT-T-TTTGATCTGCTTCACTCTCGATA-CG-GGA
1 AGGCAAGATC-TGT-TATCTTCAACCTGCTCCACT-AC-A-ACCGAGGG
* * *
44200768 AGGCAAGATCTGCTATCTTCAACCTACTCTACTACAACCGAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
* * * * * * * ** * *
44200812 AGGAAAG-GCTTGTGT-T-TTCAATCTACTTCACTGCGATGGAAGA
1 AGGCAAGATC-TGT-TATCTTCAACCTGCTCCACTACAACCGAGGG
*
44200855 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGG
1 AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
44200899 AGGCAAG
1 AGGCAAG
44200906 GCTTGTGTCT
Statistics
Matches: 599, Mismatches: 216, Indels: 142
0.63 0.23 0.15
Matches are distributed among these distances:
42 6 0.01
43 181 0.30
44 258 0.43
45 150 0.25
46 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGG
Found at i:44202225 original size:7 final size:7
Alignment explanation
Indices: 44202205--44202255 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
44202195 TTAGCCTCTC
44202205 CATTTTT
1 CATTTTT
*
44202212 ACTTTTTT
1 -CATTTTT
44202220 CATTTTTTT
1 CA--TTTTT
44202229 CATTTTT
1 CATTTTT
*
44202236 -AATTTT
1 CATTTTT
44202242 CATTTTT
1 CATTTTT
44202249 CATTTTT
1 CATTTTT
44202256 TTGACTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
6 5 0.14
7 18 0.50
8 6 0.17
9 7 0.19
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:44202243 original size:13 final size:13
Alignment explanation
Indices: 44202225--44202254 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44202215 TTTTTCATTT
44202225 TTTTCATTTTTAA
1 TTTTCATTTTTAA
*
44202238 TTTTCATTTTTCA
1 TTTTCATTTTTAA
44202251 TTTT
1 TTTT
44202255 TTTGACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTAA
Found at i:44203139 original size:15 final size:15
Alignment explanation
Indices: 44203119--44203148 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44203109 CGCCTTGGCC
*
44203119 TCTCCTTTTTCTTTT
1 TCTCCTTTTTATTTT
44203134 TCTCCTTTTTATTTT
1 TCTCCTTTTTATTTT
44203149 CATTTTTATT
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:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTCCTTTTTATTTT
Found at i:44203188 original size:20 final size:19
Alignment explanation
Indices: 44203125--44203195 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
44203115 GGCCTCTCCT
*
44203125 TTTTCTTTTTCTCCTTTTTA
1 TTTTCTTTTT-TCCTTTTGA
* *
44203145 TTTTCATTTTT-ATTTTGA
1 TTTTCTTTTTTCCTTTTGA
44203163 TTTTTTCTTTTTTCCTTTTGA
1 --TTTTCTTTTTTCCTTTTGA
*
44203184 CTTTTATTTTTT
1 -TTTTCTTTTTT
44203196 TCTCTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.12
19 1 0.02
20 29 0.71
21 6 0.15
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTTCCTTTTGA
Found at i:44203211 original size:28 final size:28
Alignment explanation
Indices: 44203156--44203222 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
44203146 TTTCATTTTT
44203156 ATTTTGA-TTTTTTCTTTTTTCCTTTTGA
1 ATTTTGATTTTTTTCTTTTTT-CTTTTGA
*
44203184 CTTTT-ATTTTTTTCTCTTTTT-TTATTGA
1 ATTTTGATTTTTTTCT-TTTTTCTT-TTGA
44203212 ATTTTGATTTT
1 ATTTTGATTTT
44203223 GACCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 3 0.09
28 20 0.61
29 10 0.30
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.73
Consensus pattern (28 bp):
ATTTTGATTTTTTTCTTTTTTCTTTTGA
Found at i:44211244 original size:29 final size:31
Alignment explanation
Indices: 44211175--44211244 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
44211165 TTAAAAGATA
44211175 TTAAAAATATTTTTATACGTTTTAAAATAATT
1 TTAAAAA-ATTTTTATACGTTTTAAAATAATT
* * * *
44211207 TT-AATAATTTTTTTA-TTTTTAAAAT-TTT
1 TTAAAAAATTTTTATACGTTTTAAAATAATT
44211235 TTAAAAAATT
1 TTAAAAAATT
44211245 AATTAATCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 4 0.12
29 15 0.47
30 8 0.25
31 3 0.09
32 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (31 bp):
TTAAAAAATTTTTATACGTTTTAAAATAATT
Found at i:44223345 original size:14 final size:14
Alignment explanation
Indices: 44223326--44223376 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
44223316 TTAATCGTCC
44223326 TTTTTACATAGAAT
1 TTTTTACATAGAAT
44223340 TTTTTAC-TCAGTAAAT
1 TTTTTACAT-AG--AAT
44223356 TTTTTACATAGAAT
1 TTTTTACATAGAAT
44223370 TTTTTAC
1 TTTTTAC
44223377 TCAGTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.03
14 19 0.58
16 12 0.36
17 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTTTACATAGAAT
Found at i:44223358 original size:16 final size:16
Alignment explanation
Indices: 44223337--44223388 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
44223327 TTTTACATAG
44223337 AATTTTTTACTCAGTA
1 AATTTTTTACTCAGTA
44223353 AATTTTTTA--CA-TA
1 AATTTTTTACTCAGTA
44223366 GAATTTTTTACTCAGTA
1 -AATTTTTTACTCAGTA
44223383 AATTTT
1 AATTTT
44223389 CTCCTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.06
14 11 0.34
16 17 0.53
17 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTTTACTCAGTA
Found at i:44223362 original size:30 final size:30
Alignment explanation
Indices: 44223326--44223388 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
44223316 TTAATCGTCC
44223326 TTTTTACATAGAATTTTTTACTCAGTAAAT
1 TTTTTACATAGAATTTTTTACTCAGTAAAT
44223356 TTTTTACATAGAATTTTTTACTCAGTAAAT
1 TTTTTACATAGAATTTTTTACTCAGTAAAT
44223386 TTT
1 TTT
44223389 CTCCTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (30 bp):
TTTTTACATAGAATTTTTTACTCAGTAAAT
Found at i:44224626 original size:28 final size:28
Alignment explanation
Indices: 44224595--44224649 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
44224585 ACTAGCGAAA
44224595 TGAGATTGAAATCTTGGAGAAAAAAAAT
1 TGAGATTGAAATCTTGGAGAAAAAAAAT
*
44224623 TGAGATTGAAATCTTGGAGAAACAAAA
1 TGAGATTGAAATCTTGGAGAAAAAAAA
44224650 CTCAAGTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (28 bp):
TGAGATTGAAATCTTGGAGAAAAAAAAT
Found at i:44237051 original size:113 final size:113
Alignment explanation
Indices: 44236846--44237124 Score: 285
Period size: 113 Copynumber: 2.5 Consensus size: 113
44236836 TTTTGGTTTT
* * ** *
44236846 GCGCCGCAAAATCTCA-AGACCAAAACGCATCGTTTTTGTCTTGATGTATACAATAATTAGTGGC
1 GCGCCGCAAAATATCATA-ACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGC
** * * ** *
44236910 GATTATGATAAAACACCGCTAAAGCAAGTATTAGCGGCGCATTGTGGGAA
65 GATTACAAAAAAACACCGCTAAAACAAGTATTAGCGGCGC-TTACGGAAA
* * * * *
44236960 GTGCCGCAAAA-ATCTTAACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCG
* ** *
44237024 TTTACAAAAAAATGCCAG-TAAAACAAGTCTTAGCGGCGCTTACGGAAA
66 ATTACAAAAAAACACC-GCTAAAACAAGTATTAGCGGCGCTTACGGAAA
* ** *
44237072 GCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTA
1 GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTA
44237125 AGCGCCGCAA
Statistics
Matches: 132, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
112 16 0.12
113 104 0.79
114 12 0.09
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (113 bp):
GCGCCGCAAAATATCATAACCAAAACGCATCGTTTTGGTCTTGATGTATATTAGAATTAGTGGCG
ATTACAAAAAAACACCGCTAAAACAAGTATTAGCGGCGCTTACGGAAA
Found at i:44237134 original size:54 final size:54
Alignment explanation
Indices: 44237070--44237175 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
44237060 CGCTTACGGA
* *
44237070 AAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATT
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTTGATGTATATT
* * *
44237124 AAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTTGATGTATA
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTTGATGTATA
44237176 ATACAATTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTTGATGTATATT
Found at i:44237507 original size:207 final size:207
Alignment explanation
Indices: 44237141--44237533 Score: 571
Period size: 207 Copynumber: 1.9 Consensus size: 207
44237131 GCAAAAAATG
*
44237141 TTAACCAAAACGCAGCGGTTTGGTCTTGATGTATAATACAATTAGTGGCGTTAGGGAAAAACGCC
1 TTAACCAAAACGCAGCGGTTTGGTCTTGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
* * *
44237206 GCTAAAGCATCATATTAGCGGCGATTTTCTAGAATCGCCGCAAGATATGCACACCAAAACGCAGA
66 GCTAAAGAATCATATTAGCGGCGATTTTCGAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
* * *
44237271 GTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACACCGCTAAAGAGAGAAGCG
131 GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAGAGAGAAGCG
44237336 CCGCTAAATTTC
196 CCGCTAAATTTC
* * * * *
44237348 TTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAGTTAGTGGCGCTTACGAGAAAAA-G
1 TTAACCAAAACGCAGCGGTTTGGTCTTGATGTATAATACAATTAGTGGCG-TTA-GAGAAAAACG
*
44237412 CCGCTAAATAAT-AGTATTAGCGGCGA-TTT-GAGTTAAGCGCCGCAAGATATGCACACCAAAAC
64 CCGCTAAAGAATCA-TATTAGCGGCGATTTTCGAG--AAGCGCCGCAAGATATGCACACCAAAAC
* *
44237474 GCAGAGTTTGGTC-TGAGGTATATTAGAATTAGTGGCGCTGATTGGAAAACGCCGCTAAAG
126 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAG
44237534 TATACTATTA
Statistics
Matches: 166, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
206 2 0.01
207 91 0.55
208 66 0.40
209 7 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (207 bp):
TTAACCAAAACGCAGCGGTTTGGTCTTGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
GCTAAAGAATCATATTAGCGGCGATTTTCGAGAAGCGCCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACACCGCTAAAGAGAGAAGCG
CCGCTAAATTTC
Found at i:44238015 original size:35 final size:35
Alignment explanation
Indices: 44237976--44238042 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
44237966 TTTAATATTT
44237976 TGTGAATATTAGAGTATT-GAGTTTAGGGTTTATGA
1 TGTGAATATTAGAGT-TTAGAGTTTAGGGTTTATGA
* * * *
44238011 TGTGAGTTTTGGTGTTTAGAGTTTAGGGTTTA
1 TGTGAATATTAGAGTTTAGAGTTTAGGGTTTA
44238043 GAAGTTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 25 0.93
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (35 bp):
TGTGAATATTAGAGTTTAGAGTTTAGGGTTTATGA
Found at i:44238043 original size:14 final size:14
Alignment explanation
Indices: 44238014--44238070 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
44238004 TTTATGATGT
*
44238014 GAGTTTTGGTGTTTA
1 GAGTTTAGG-GTTTA
44238029 GAGTTTAGGGTTTA
1 GAGTTTAGGGTTTA
44238043 GAAGTTTAGGGTTTA
1 G-AGTTTAGGGTTTA
*
44238058 -AGATTTGGGGTTT
1 GAG-TTTAGGGTTT
44238071 GGGGTTTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
13 2 0.05
14 15 0.39
15 21 0.55
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
GAGTTTAGGGTTTA
Found at i:44238494 original size:23 final size:24
Alignment explanation
Indices: 44238445--44238508 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
44238435 TATAATACAT
* *
44238445 TAATTTAATAA-TATAAATAATTTA
1 TAATTT-ATAATTTTAAATAATTGA
44238469 TAATTTATAATTTTAAAT-ATTGA
1 TAATTTATAATTTTAAATAATTGA
44238492 TAATATT-TAAATTTTAA
1 TAAT-TTAT-AATTTTAA
44238509 TGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTATAATTTTAAATAATTGA
Found at i:44239185 original size:44 final size:44
Alignment explanation
Indices: 44239135--44239228 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
44239125 AATTCTTGCG
*
44239135 TCCTTCTTGCCCAATTTCTTG-AATTCCCAAATCCGTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATT-CCAAATCCCTAAATCGCC
* *
44239179 TCCTTCTTGTCGAATTTCTTGAAATTCCAAATCCCTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATTCCAAATCCCTAAATCGCC
44239223 TCCTTC
1 TCCTTC
44239229 CTCCTTCTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATTCCAAATCCCTAAATCGCC
Found at i:44240838 original size:21 final size:21
Alignment explanation
Indices: 44240812--44240880 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
44240802 CAACAACTTA
* * *
44240812 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAACGAGAG
*
44240833 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGCGACAACGAGAG
* **
44240854 AAGCAGAGGCCACAGTGAGAG
1 AAGCAGAGGCGACAACGAGAG
44240875 AAGCAG
1 AAGCAG
44240881 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGACAACGAGAG
Found at i:44240887 original size:12 final size:12
Alignment explanation
Indices: 44240870--44240901 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
44240860 AGGCCACAGT
44240870 GAGAGAAGCAGC
1 GAGAGAAGCAGC
44240882 GAGAGAAGCAGC
1 GAGAGAAGCAGC
*
44240894 GATAGAAG
1 GAGAGAAG
44240902 TAGAGGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.41, T:0.03
Consensus pattern (12 bp):
GAGAGAAGCAGC
Found at i:44241426 original size:42 final size:42
Alignment explanation
Indices: 44241367--44241489 Score: 192
Period size: 42 Copynumber: 2.9 Consensus size: 42
44241357 CACTACTTTT
44241367 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCA
* *
44241409 AGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTCTTCCTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCCCA
* * *
44241452 AGCGCCGTTAAAGAACATGATATTTAGCGGTGTTTTTT
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
44241490 TCTGTAAGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
42 37 0.50
43 37 0.50
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCA
Found at i:44241469 original size:43 final size:42
Alignment explanation
Indices: 44241367--44241506 Score: 192
Period size: 43 Copynumber: 3.3 Consensus size: 42
44241357 CACTACTTTT
*
44241367 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
*
44241409 AGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTCTTCCTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCCTA
* * * *
44241452 AGCGCCGTTAAAGAACATGATATTTAGCGGTGTTTTTTTCTGTA
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-CTA
44241496 AGCGCCG-TAAA
1 AGCGCCGCTAAA
44241507 AGTTAGCGAC
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.40
43 40 0.45
44 13 0.15
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTA
Found at i:44246842 original size:41 final size:41
Alignment explanation
Indices: 44246776--44246923 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
44246766 CTTAATTATT
* *
44246776 CCCTGAATTGCACATACATGCCCCTGTTTGTATTTCAGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * *
44246817 CCCTGAATTACACATATGTGTCCCTGTTTGTACTTCAGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* ** * * * *
44246858 CCTTGAATTGCAGGTGCGTGTCGCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
44246899 CCCTGAATTGCACATACGTGCCCCT
1 CCCTGAATTGCACATACGTGCCCCT
44246924 ATTTACGCTC
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:44247634 original size:63 final size:63
Alignment explanation
Indices: 44247543--44247763 Score: 257
Period size: 63 Copynumber: 3.5 Consensus size: 63
44247533 TTACAAGAAT
** *
44247543 CACAACACGCA-AACTCATTCCCCCCATCAACACCA-TCAGCTCTGATTTATTTTACACAAGCAC
1 CACAACACGCACAA-TCATTCCCTGCATCAACA-CATTCAGCACTGATTTATTTTACACAAGCAC
* * * *
44247606 CACAACACGCACAATCATTCCCTGCATCAACATATTAAGCACTGGTTTATTTTACACAAGTAC
1 CACAACACGCACAATCATTCCCTGCATCAACACATTCAGCACTGATTTATTTTACACAAGCAC
* * * * * *
44247669 CACAGCACACACAATCATTCCCTACATCAATACATTCAGCACCGATTTATTTTACACAAGCGC
1 CACAACACGCACAATCATTCCCTGCATCAACACATTCAGCACTGATTTATTTTACACAAGCAC
* * * *
44247732 TACAGCACGCGCAATCATTCCTTGCATCAACA
1 CACAACACGCACAATCATTCCCTGCATCAACA
44247764 TCTTCTTCAG
Statistics
Matches: 133, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.01
63 130 0.98
64 2 0.02
ACGTcount: A:0.34, C:0.33, G:0.09, T:0.24
Consensus pattern (63 bp):
CACAACACGCACAATCATTCCCTGCATCAACACATTCAGCACTGATTTATTTTACACAAGCAC
Found at i:44260195 original size:41 final size:38
Alignment explanation
Indices: 44260150--44260241 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 38
44260140 AGCGGCATTT
44260150 TTAGTGGCGTTTGGACAAAAAACGCCGCTAAAAATCGAGCA
1 TTAGTGGCGTTT--ACAAAAAACGCCGCTAAAAAT-GAGCA
* *
44260191 TTAGTGACGCTTTACATAAAACGCCGCTAAAAATGAGCA
1 TTAGTGGCG-TTTACAAAAAACGCCGCTAAAAATGAGCA
*
44260230 TTAGCGGCGTTT
1 TTAGTGGCGTTT
44260242 TTTGGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.07
39 12 0.26
40 20 0.43
41 8 0.17
42 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (38 bp):
TTAGTGGCGTTTACAAAAAACGCCGCTAAAAATGAGCA
Found at i:44260423 original size:41 final size:41
Alignment explanation
Indices: 44260289--44260434 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 41
44260279 ACCTTTTGGG
* * *
44260289 GCTTTAGCGACGTTTTTGAAAAAGCGTTGCTAATGCTCA-A
1 GCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTCAGA
* * * * * *
44260329 GCTTTTAGCGGCATTTTCCAAGAAGCGCCGCTAATGCTCGGG
1 GC-TTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTCAGA
* * * *
44260371 GCTTCAACGGCGTTTTTGAAAAAGCGTCACT-ATAGCTCAGA
1 GCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAAT-GCTCAGA
*
44260412 GCTTTAGCGGCGCTTTTCAAAAA
1 GCTTTAGCGGCGTTTTTCAAAAA
44260435 CATTTTATCT
Statistics
Matches: 80, Mismatches: 23, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTCAGA
Found at i:44261072 original size:81 final size:83
Alignment explanation
Indices: 44260954--44261109 Score: 262
Period size: 81 Copynumber: 1.9 Consensus size: 83
44260944 TTCAATGTTA
*
44260954 GGTTAGGGTTTAAGGTTTAGAGTAATTAGTGTGTTTTAA-TT-TATATTAAATAAGGTTTAGGGG
1 GGTTAGAGTTTAAGGTTTAGAGTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
44261017 TTAAGGGTTAGGGATTCG
66 TTAAGGGTTAGGGATTCG
* * *
44261035 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGG
1 GGTTAGAGTTTAAGGTTTAGAGTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
44261100 TTAAGGGTTA
66 TTAAGGGTTA
44261110 AGGGTTTAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 35 0.51
82 2 0.03
83 32 0.46
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (83 bp):
GGTTAGAGTTTAAGGTTTAGAGTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGGGG
TTAAGGGTTAGGGATTCG
Found at i:44261114 original size:14 final size:14
Alignment explanation
Indices: 44261087--44261138 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
44261077 ATATATTAAA
*
44261087 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
*
44261101 TAAGGGTTAAGGGTT
1 TAAGGGTT-AGGGGT
*
44261116 TAA-GATTAGGGGT
1 TAAGGGTTAGGGGT
*
44261129 TAGGGGTTAG
1 TAAGGGTTAG
44261139 ATATTAGAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 7 0.23
14 15 0.50
15 8 0.27
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:44261128 original size:21 final size:22
Alignment explanation
Indices: 44261104--44261153 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
44261094 TAGGGGTTAA
*
44261104 GGGTTAAGGGTTTA-AGATTAG
1 GGGTTAAGGGGTTAGAGATTAG
*
44261125 GGGTT-AGGGGTTAGATATTAG
1 GGGTTAAGGGGTTAGAGATTAG
*
44261146 AGGTTAAG
1 GGGTTAAG
44261154 AGTTAGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (22 bp):
GGGTTAAGGGGTTAGAGATTAG
Found at i:44261158 original size:21 final size:21
Alignment explanation
Indices: 44261120--44261159 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44261110 AGGGTTTAAG
* * *
44261120 ATTAGGGGTTAGGGGTTAGAT
1 ATTAGAGGTTAAGAGTTAGAT
44261141 ATTAGAGGTTAAGAGTTAG
1 ATTAGAGGTTAAGAGTTAG
44261160 TGATTTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.33
Consensus pattern (21 bp):
ATTAGAGGTTAAGAGTTAGAT
Found at i:44265155 original size:19 final size:19
Alignment explanation
Indices: 44265108--44265279 Score: 218
Period size: 19 Copynumber: 8.8 Consensus size: 19
44265098 AAATTAAATC
*
44265108 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
*
44265130 TTCTAAGATTGCATATCATA
1 -TCTAAGATTACATATCATA
* *
44265150 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
44265169 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44265188 TCTAGGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44265207 TCTAGGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
44265226 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
44265245 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
44265264 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44265280 CCTGAAGATT
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 118 0.87
20 3 0.02
22 4 0.03
23 10 0.07
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44265831 original size:132 final size:132
Alignment explanation
Indices: 44265607--44266236 Score: 1057
Period size: 132 Copynumber: 4.8 Consensus size: 132
44265597 TAGGACTTAC
* * *
44265607 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * *
44265670 GTAACCACAGGGATGTAAAATCCGCCATCTTCGATCGGCTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAC
44265735 CTGA
129 CTGA
* * *
44265739 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTAATGGCTTCAATATACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
44265804 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
44265869 GA
131 GA
* *
44265871 AATCTTCAATCTGTTCCACTGTTATCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
44265936 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
44266001 GA
131 GA
* *
44266003 AATTTTCAACCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
44266068 AACCACAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACTGTTTAAGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
44266133 GA
131 GA
*
44266135 AATCTTCAATTTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
44266200 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
44266237 GTCGCTGTCA
Statistics
Matches: 469, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 466 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
GA
Found at i:44265883 original size:44 final size:44
Alignment explanation
Indices: 44265696--44265890 Score: 109
Period size: 44 Copynumber: 4.4 Consensus size: 44
44265686 AAAATCCGCC
* *
44265696 ATCTTCGATCGGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
** **
44265740 ATCTTCAATCTATTCCACTGTTG-TCTAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTGCTCCACTACTGCT-TAGGGAGA-TAAG-ATCTGAA
* * ** * * * **
44265781 ATGGCTTCAATATACTCCACTGTAAC--CACAGGGAGGTAAAATCCGTC
1 AT--CTTCAATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATCTGAA
*
44265828 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
*
44265872 ATCTTCAATCTGTTCCACT
1 ATCTTCAATCTGCTCCACT
44265891 GTTATCCAGG
Statistics
Matches: 107, Mismatches: 28, Indels: 32
0.64 0.17 0.19
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 20 0.19
44 65 0.61
45 15 0.14
47 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:44272531 original size:22 final size:21
Alignment explanation
Indices: 44272496--44272591 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
44272486 AAAGGGTATC
* *
44272496 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
44272517 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
44272540 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
44272559 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44272578 TACATATCATATCT
1 TACAAATCATATCT
44272592 AAGATTGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
17 2 0.03
19 27 0.44
21 7 0.11
22 15 0.25
23 10 0.16
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44272539 original size:23 final size:22
Alignment explanation
Indices: 44272496--44272553 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
44272486 AAAGGGTATC
* *
44272496 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
44272517 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
44272540 TGCATATCATATCT
1 TACAAATCATATCT
44272554 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44272556 original size:19 final size:19
Alignment explanation
Indices: 44272509--44272604 Score: 111
Period size: 19 Copynumber: 4.8 Consensus size: 19
44272499 AAATTAAATC
*
44272509 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
44272529 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
* *
44272551 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
44272570 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44272589 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44272605 CCTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
22 7 0.11
23 10 0.15
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44275822 original size:12 final size:12
Alignment explanation
Indices: 44275807--44275832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44275797 TTGTTTCAGG
44275807 TTGTGTTATTAA
1 TTGTGTTATTAA
44275819 TTGTGTTATTAA
1 TTGTGTTATTAA
44275831 TT
1 TT
44275833 TATTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTGTGTTATTAA
Found at i:44276228 original size:43 final size:43
Alignment explanation
Indices: 44276031--44276247 Score: 212
Period size: 43 Copynumber: 5.1 Consensus size: 43
44276021 TAAATTTTTT
* * *
44276031 TAAAGGTTATG-TTTTTAGCGGCGTTTTTG-CGAGAAGCA-CCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTA-AAG-AGCCGC
* * * * *
44276073 TAAAGGT-TTGTTCTTTAGCTGCGTTTGTGA-TAAAAACGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTAAAGA-GCCGC
* * * * *
44276115 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGTGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTAAAGAGCCGC
44276158 TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTAAAGAGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTAAAGAGCCGC
* * *
44276201 TAAATGTCATGATCTTTAGCGGCGTTTTTCACATAAA-TGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTTTGAC-TAAAGAGCCGC
44276244 TAAA
1 TAAA
44276248 TTTAGCGGCA
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.01
41 4 0.03
42 34 0.23
43 102 0.69
44 7 0.05
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTTTGACTAAAGAGCCGC
Found at i:44276878 original size:13 final size:13
Alignment explanation
Indices: 44276857--44276887 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44276847 TTAGTCTGTT
*
44276857 ACACAGCTTGGCG
1 ACACGGCTTGGCG
44276870 ACACGGCTTGGCG
1 ACACGGCTTGGCG
44276883 ACACG
1 ACACG
44276888 ACCATGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.13
Consensus pattern (13 bp):
ACACGGCTTGGCG
Found at i:44281222 original size:20 final size:21
Alignment explanation
Indices: 44281199--44281254 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
44281189 GTGAACAGGG
44281199 GCACCAAAGTGCAAA-TAGT-A
1 GCACCAAAGTGCAAAGTA-TAA
*
44281219 GCACCGAAGTGCAAAGTATAA
1 GCACCAAAGTGCAAAGTATAA
44281240 GCACCAAAGTGCAAA
1 GCACCAAAGTGCAAA
44281255 CCCGTACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (21 bp):
GCACCAAAGTGCAAAGTATAA
Found at i:44281485 original size:6 final size:6
Alignment explanation
Indices: 44281474--44281514 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
44281464 AACAATATAA
* *
44281474 ACAAAT ACAAAT ACAAAT ACAAAT ACACAAT TCAAAA ACAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACA-AAT ACAAAT ACAA
44281515 TTAAATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.15
Consensus pattern (6 bp):
ACAAAT
Found at i:44281497 original size:18 final size:19
Alignment explanation
Indices: 44281472--44281514 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44281462 CAAACAATAT
44281472 AAACAAATACA-AATACAA
1 AAACAAATACACAATACAA
* *
44281490 ATACAAATACACAATTCAA
1 AAACAAATACACAATACAA
44281509 AAACAA
1 AAACAA
44281515 TTAAATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.14
Consensus pattern (19 bp):
AAACAAATACACAATACAA
Found at i:44292629 original size:159 final size:159
Alignment explanation
Indices: 44292227--44292801 Score: 924
Period size: 159 Copynumber: 3.6 Consensus size: 159
44292217 ACTTCAAAAC
* *
44292227 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCAGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
*
44292292 ACTTT-TAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
44292356 AATGTATTAATTTAGTGT-TTTTTAATAT
131 AATGTATTAATTTAGTGTGTTTTTAATAT
* *
44292384 AAATTTAGTAAAAAACCCTTCTTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAGTTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
* *
44292449 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
*
44292514 CATGTATTAATTTAGTGTGTGTTTT-ATAT
131 AATGTATTAATTTAGTGTGT-TTTTAATAT
*
44292543 AAATTTAGTAAAAAACCCTTATTTTGGCACTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
* *
44292608 ACTTTCAAAAAATATACTATTTTCGTGTTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* *
44292673 AATGTATTATTTTAGTGTGTTTTTTAAAAT
131 AATGTATTAATTTAGTGTG-TTTTTAATAT
* **
44292703 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTT-TCGGATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTAT
** *
44292767 TACTTTCAGTAAATATACTATTTTCATTTTTTATT
65 TACTTTCAAAAAATATACTATTTTCATATTTTATT
44292802 TCTTTTCGTA
Statistics
Matches: 388, Mismatches: 24, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
157 66 0.17
158 73 0.19
159 151 0.39
160 57 0.15
161 41 0.11
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCTCAAATTTTATT
ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTGTGTTTTTAATAT
Found at i:44292979 original size:19 final size:20
Alignment explanation
Indices: 44292955--44292993 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44292945 TTTTTTAGAC
44292955 AAATAATA-CAAAAAAATTA
1 AAATAATACCAAAAAAATTA
*
44292974 AAATAATACCAACAAAATTA
1 AAATAATACCAAAAAAATTA
44292994 CCTTTCCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAATACCAAAAAAATTA
Found at i:44293052 original size:6 final size:6
Alignment explanation
Indices: 44293035--44293105 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
44293025 TTCCCTCCCT
* * * *
44293035 CTTCTT CTTCTC CTTCTC TTTCTC TTTTTC CTGTGCCTC CTTCTC CTTCTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CT-T--CTC CTTCTC CTTCTC
*
44293086 CTTCTT CTTCTC CTT-TC CTT
1 CTTCTC CTTCTC CTTCTC CTT
44293106 TTCTTTCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.09
6 44 0.80
7 1 0.02
8 1 0.02
9 4 0.07
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (6 bp):
CTTCTC
Found at i:44293117 original size:10 final size:10
Alignment explanation
Indices: 44293098--44293154 Score: 78
Period size: 10 Copynumber: 5.7 Consensus size: 10
44293088 TCTTCTTCTC
*
44293098 CTTTCCTTTT
1 CTTTCTTTTT
44293108 CTTTCTTTTT
1 CTTTCTTTTT
* *
44293118 CTTTCTTCTC
1 CTTTCTTTTT
*
44293128 CTTTCCTTTT
1 CTTTCTTTTT
44293138 CTTTCTTTTT
1 CTTTCTTTTT
44293148 CTTTCTT
1 CTTTCTT
44293155 CTCCATTCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:44293121 original size:20 final size:20
Alignment explanation
Indices: 44293098--44293174 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
44293088 TCTTCTTCTC
44293098 CTTTCCTTTTCTTTCTTTTT
1 CTTTCCTTTTCTTTCTTTTT
* *
44293118 CTTT-CTTCTCCTTTCCTTTT
1 CTTTCCTT-TTCTTTCTTTTT
* * *
44293138 CTTTCTTTTTCTTTCTTCTC
1 CTTTCCTTTTCTTTCTTTTT
* *
44293158 CATTCCTTTTCTATCTT
1 CTTTCCTTTTCTTTCTT
44293175 CTCCTTCAGC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.89
21 2 0.04
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTTCCTTTTCTTTCTTTTT
Found at i:44293126 original size:30 final size:30
Alignment explanation
Indices: 44293090--44293174 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
44293080 CTTCTCCTTC
44293090 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
44293120 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
* *
44293150 TTCTTCTCCATTCCTTTTCTATCTT
1 TTCTTCTCCTTTCCTTTTCTTTCTT
44293175 CTCCTTCAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCTTCTCCTTTCCTTTTCTTTCTTTTTCT
Found at i:44293258 original size:27 final size:27
Alignment explanation
Indices: 44293210--44293274 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44293200 TTATAATGGG
* * * *
44293210 TGGTGCCGCCTGTGGCAGTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTC
*
44293237 TGGTGTCGCCTCTGCCACTGGCACCTC
1 TGGTGCCGCCTCTGCCACTGGCACCTC
*
44293264 TGGTGCTGCCT
1 TGGTGCCGCCT
44293275 GTGGCAGGCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.06, C:0.34, G:0.32, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACCTC
Found at i:44296971 original size:14 final size:14
Alignment explanation
Indices: 44296933--44296975 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
44296923 TAAAATGTAA
44296933 AATATAATTAAA-T
1 AATATAATTAAATT
44296946 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
44296961 AA-ATAATTTAATT
1 AATATAATTAAATT
44296974 AA
1 AA
44296976 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:44299456 original size:3 final size:3
Alignment explanation
Indices: 44299441--44299495 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
44299431 TAAAACAATT
* **
44299441 TAA TAA TAG TAA TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
44299489 TAA TAA T
1 TAA TAA T
44299496 GATGATGATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:44300603 original size:5 final size:5
Alignment explanation
Indices: 44300593--44300620 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44300583 CTTTCAGTCT
44300593 TTTAC TTTAC TTTAC TTTAC TTTAC TTT
1 TTTAC TTTAC TTTAC TTTAC TTTAC TTT
44300621 GTTTTGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAC
Found at i:44306274 original size:16 final size:16
Alignment explanation
Indices: 44306253--44306283 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44306243 GAAGAACTTC
44306253 TATTTTTATAAGATTA
1 TATTTTTATAAGATTA
*
44306269 TATTTTTATGAGATT
1 TATTTTTATAAGATT
44306284 TCTATGAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TATTTTTATAAGATTA
Found at i:44315996 original size:29 final size:29
Alignment explanation
Indices: 44315954--44316130 Score: 223
Period size: 29 Copynumber: 6.1 Consensus size: 29
44315944 GTGCTAAACA
* * *
44315954 ATGGTTGTAACCATCCCTTTCCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
* *
44315983 ATGGTCATCACCATCCTTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
44316012 ATGGTCGTCACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
* * *
44316041 ATGGTCGTAACCATACCTTTTCATCAATC-
1 ATGGTCGTCACCATCCCTTTTCAT-ATTCG
*
44316070 AGTGGTCGTCACCATCGCTTTTCATAGTT-G
1 A-TGGTCGTCACCATCCCTTTTCATA-TTCG
*
44316100 ATGGTCGTCACCATCCCTTTTCATAGTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
44316129 AT
1 AT
44316131 AGTTGAAACT
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 101 0.80
30 25 0.20
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATATTCG
Found at i:44316091 original size:59 final size:57
Alignment explanation
Indices: 44315954--44316130 Score: 214
Period size: 59 Copynumber: 3.0 Consensus size: 57
44315944 GTGCTAAACA
* * * * *
44315954 ATGGTTGTAACCATCCCTTTCCATATTCGATGGTCATCACCATCCTTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCC-TTTTCATAATCG
*
44316012 ATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTAACCATACCTTTTCATCAATC-
1 ATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCAT-CCTTTTCAT-AATCG
* *
44316070 AGTGGTCGTCACCATCGCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAGTCG
1 A-TGGTCGTCACCATCCCTTTTCATA-TTCGATGGTCGTCACCAT-CCTTTTCATAATCG
44316129 AT
1 AT
44316131 AGTTGAAACT
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
58 50 0.48
59 52 0.50
60 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (57 bp):
ATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTCATAATCG
Found at i:44316103 original size:88 final size:87
Alignment explanation
Indices: 44315954--44316130 Score: 243
Period size: 88 Copynumber: 2.0 Consensus size: 87
44315944 GTGCTAAACA
* * *
44315954 ATGGTTGTAACCATCCCTTTCCATATTCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
1 ATGGTCGTAACCATACCTTTCCATAATCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
*
44316019 TCACCATCCCTTTTCATATTCG
66 TCACCATCCCTTTTCATAGTCG
* *
44316041 ATGGTCGTAACCATACCTTTTCATCAATC-AGTGGTCGTCACCATCGC-TTTTCATAGTT-GATG
1 ATGGTCGTAACCATACCTTTCCAT-AATCGA-TGGTCATCACCATC-CTTTTTCATA-TTCGATG
44316103 GTCGTCACCATCCCTTTTCATAGTCG
62 GTCGTCACCATCCCTTTTCATAGTCG
44316129 AT
1 AT
44316131 AGTTGAAACT
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
87 22 0.28
88 55 0.69
89 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (87 bp):
ATGGTCGTAACCATACCTTTCCATAATCGATGGTCATCACCATCCTTTTTCATATTCGATGGTCG
TCACCATCCCTTTTCATAGTCG
Found at i:44316148 original size:88 final size:88
Alignment explanation
Indices: 44315984--44316150 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
44315974 CCATATTCGA
* * *
44315984 TGGTCATCACCATCCTTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGT
1 TGGTCATCACCATCCTTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGA
44316049 AACCATACCTTTTCATCAATCAG
66 AACCATACCTTTTCATCAATCAG
* *
44316072 TGGTCGTCACCATCGC-TTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTT
1 TGGTCATCACCATC-CTTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTC
* *
44316135 GAAACTATCCCTTTTC
64 GAAACCATACCTTTTC
44316151 TTTAATCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 67 0.96
89 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (88 bp):
TGGTCATCACCATCCTTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCGA
AACCATACCTTTTCATCAATCAG
Found at i:44319355 original size:27 final size:26
Alignment explanation
Indices: 44319334--44319412 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
44319324 AGGTATAACA
*
44319334 GTCACTTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
44319360 GATCATTTTAACCTATGGGGGTATTTTG
1 G-TCATTTTACCCTATGGGGGTA-TTTC
*
44319388 GTCATTTTACCCTATGGGGGCATTT
1 GTCATTTTACCCTATGGGGGTATTT
44319413 ATATCATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.09
27 38 0.83
28 4 0.09
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTC
Found at i:44323914 original size:29 final size:29
Alignment explanation
Indices: 44323871--44324127 Score: 232
Period size: 29 Copynumber: 8.8 Consensus size: 29
44323861 GTGTGTTAAA
*
44323871 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
44323900 CGATGGTCGTCACCATCCATTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
44323929 CGATGGTCGTCACCATCCTTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* * * *
44323958 TGATAGTCTTCACCATCCCTTTTCATCAAT
1 CGATGGTCGTCACCATCCCTTTTCAT-ATT
* * * *
44323988 CGGTAGTTGTCACCATCGCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* * ** * *
44324018 -GATAGCCGAAACTATCTCTTTTCATATAT
1 CGATGGTCGTCACCATCCCTTTTCATAT-T
*
44324047 -GATGGTCGTCACCATCCGTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* * *
44324076 -GATGGTCATCACCATCCCCTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* ** *
44324104 CGATAGTCGAAACTATCCCTTTTC
1 CGATGGTCGTCACCATCCCTTTTC
44324128 TTTAATTGAT
Statistics
Matches: 185, Mismatches: 38, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
28 2 0.01
29 158 0.85
30 25 0.14
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:44324137 original size:117 final size:117
Alignment explanation
Indices: 44323871--44324137 Score: 281
Period size: 117 Copynumber: 2.3 Consensus size: 117
44323861 GTGTGTTAAA
* * * * ** *
44323871 CGATGGTCGTAACCATCCCTTTTCAT-ATTCGATGGTCGTCACCATC-CATTTTCATATTCGATG
1 CGATAGTCGAAACCATCCCTTTTCATAATT-GATAGCCGAAACTATCTC-TTTTCATATTCGATG
* * * *
44323934 GTCGTCACCATCCTTTTTCATATTTGATAGTCTTCACCATCCCTTTTCATCAAT
64 GTCGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCATCAAT
* * ** * *
44323988 CGGTAGTTGTCACCATCGCTTTTCATAGTTGATAGCCGAAACTATCTCTTTTCATATAT-GATGG
1 CGATAGTCGAAACCATCCCTTTTCATAATTGATAGCCGAAACTATCTCTTTTCATAT-TCGATGG
* *
44324052 TCGTCACCATCCGTTTTCATAGTTGATGGTCATCACCATCCCCTTTCAT-AGT
65 TCGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCATCAAT
* *
44324104 CGATAGTCGAAACTATCCCTTTTCTTTAATTGAT
1 CGATAGTCGAAACCATCCCTTTTC-ATAATTGAT
44324138 GCTCGTCGAT
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
116 20 0.17
117 97 0.80
118 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (117 bp):
CGATAGTCGAAACCATCCCTTTTCATAATTGATAGCCGAAACTATCTCTTTTCATATTCGATGGT
CGTCACCATCCGTTTTCATAGTTGATAGTCATCACCATCCCCTTTCATCAAT
Found at i:44324364 original size:23 final size:23
Alignment explanation
Indices: 44324336--44324383 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
44324326 TCTAAATTAA
44324336 TAAGTTTATTCAATATATTAATT
1 TAAGTTTATTCAATATATTAATT
*
44324359 TAAGTTTATTCAATCTATTAATT
1 TAAGTTTATTCAATATATTAATT
44324382 TA
1 TA
44324384 GATATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
TAAGTTTATTCAATATATTAATT
Found at i:44343507 original size:42 final size:43
Alignment explanation
Indices: 44343427--44343540 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 43
44343417 CGTTTTCTCT
* * **
44343427 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATAT-TG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATGCACATATCTG
*
44343469 ATGCCATAGCCCAGCTATGGTCTTACATAGTA-GCACATATCACACTG
1 ATGCCATAGCCCAGCTATGGTCTTACACA-TATGCACATAT----CTG
* *
44343516 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
44343541 TACGGAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 32 0.54
43 2 0.03
47 25 0.42
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATGCACATATCTG
Found at i:44344853 original size:43 final size:43
Alignment explanation
Indices: 44344799--44345145 Score: 254
Period size: 43 Copynumber: 7.8 Consensus size: 43
44344789 TTTCGAAAAG
44344799 AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
1 AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* *
44344842 AACGCCACTAAAGAACAAGACCTTTAG-AGTCGCTTTACCCACA
1 AACGCCACTAAAGACCAAGACCTTTAGCAG-CGCTTTTCCCACA
* * *
44344885 AACGCCGCTAAAGGTCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTACACACA
1 AACG-C-C---A------CTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* *
44344939 AACGCCGA-TAAAGACCAAGACCTTTAGCAGTGCTTTTCCCAAA
1 AACGCC-ACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * * * * * * *
44344982 AATGTCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCGCA
1 AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
* * * *
44345025 AACGCCGCTAAAGACTATGACCTTTAGC-GACGCTTTTTCCACA
1 AACGCCACTAAAGACCAAGACCTTTAGCAG-CGCTTTTCCCACA
** * * * **
44345068 AACGCTGCTAAAGATCATGAACTTTTAGC-GACGCTTTTATCACA
1 AACGCCACTAAAGACCAAG-ACCTTTAGCAG-CGCTTTTCCCACA
* * *
44345112 AACGCCGCTAAAGAACAA-ACCTTTAGCGGCGCTT
1 AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTT
44345146 ATCACAAAAA
Statistics
Matches: 249, Mismatches: 38, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
42 16 0.06
43 155 0.62
44 37 0.15
45 1 0.00
48 1 0.00
50 1 0.00
52 1 0.00
53 1 0.00
54 35 0.14
55 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
AACGCCACTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACA
Found at i:44344907 original size:54 final size:54
Alignment explanation
Indices: 44344849--44344951 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
44344839 ACAAACGCCA
* * *
44344849 CTAAAGAACAAGACCTTTAGAGTCGCTTTACCCACAAACGCCGCTAAAGGTCCG
1 CTAAAGAACAAGACCTTTAGAGGCGCTTTACACACAAACGCCGATAAAGGTCCG
* *
44344903 CTAAAGACCAAGACCTTTAGCGGCGCTTTACACACAAACGCCGATAAAG
1 CTAAAGAACAAGACCTTTAGAGGCGCTTTACACACAAACGCCGATAAAG
44344952 ACCAAGACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.17
Consensus pattern (54 bp):
CTAAAGAACAAGACCTTTAGAGGCGCTTTACACACAAACGCCGATAAAGGTCCG
Found at i:44344991 original size:97 final size:97
Alignment explanation
Indices: 44344806--44344983 Score: 270
Period size: 97 Copynumber: 1.8 Consensus size: 97
44344796 AAGAACGCCA
* *
44344806 CTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAGAACAAGACCTTTAGAG
1 CTAAAGACCAAGACCTTTAGCAGCGCTTTACACACAAACGCCACTAAAGAACAAGACCTTTAGAG
*
44344871 TCGCTTTACCCACAAACGCCGCTAAAGGTCCG
66 TCGCTTTACCCAAAAACGCCGCTAAAGGTCCG
* *
44344903 CTAAAGACCAAGACCTTTAGCGGCGCTTTACACACAAACGCCGA-TAAAGACCAAGACCTTTAGC
1 CTAAAGACCAAGACCTTTAGCAGCGCTTTACACACAAACGCC-ACTAAAGAACAAGACCTTTAG-
*
44344967 AGT-GCTTTTCCCAAAAA
64 AGTCGCTTTACCCAAAAA
44344984 TGTCGCTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
97 69 0.95
98 4 0.05
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.19
Consensus pattern (97 bp):
CTAAAGACCAAGACCTTTAGCAGCGCTTTACACACAAACGCCACTAAAGAACAAGACCTTTAGAG
TCGCTTTACCCAAAAACGCCGCTAAAGGTCCG
Found at i:44345027 original size:86 final size:84
Alignment explanation
Indices: 44344901--44345165 Score: 289
Period size: 86 Copynumber: 3.1 Consensus size: 84
44344891 GCTAAAGGTC
* * * *
44344901 CGCTAAAGACCAAGACCTTTAGCGGCGCTTTACACACAAACGCCGATAAAGACCAAGACCTTTAG
1 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
*
44344966 CAGTGCTTTTCCCAAAAATG
66 C-GCGCTTTTCCCAAAAATG
* * * *
44344986 TCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCGCAAACGCCGCTAAAGACTATGACCTTTA
1 -CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTA
* * *
44345051 GCGACGCTTTTTCCACAAACG
65 GCG-CGCTTTTCCCAAAAATG
* * * * *
44345072 CTGCTAAAGATCATGAACTTTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAACAA-ACCTTT
1 C-GCTAAAGACCATG-ACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTT
* *
44345136 AGCGGCGCTTATCACAAAAATG
64 AGC-GCGCTTTTCCCAAAAATG
44345158 CCGCTAAA
1 -CGCTAAA
44345166 AATATAACCT
Statistics
Matches: 148, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
85 2 0.01
86 109 0.74
87 37 0.25
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
CGCGCTTTTCCCAAAAATG
Found at i:44348882 original size:7 final size:7
Alignment explanation
Indices: 44348870--44348895 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44348860 ATTAATTAAT
44348870 CTAAATC
1 CTAAATC
44348877 CTAAATC
1 CTAAATC
44348884 CTAAATC
1 CTAAATC
44348891 CTAAA
1 CTAAA
44348896 CTCTAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAAATC
Found at i:44348901 original size:14 final size:13
Alignment explanation
Indices: 44348867--44348901 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
44348857 AACATTAATT
44348867 AATCTAAATCCTA
1 AATCTAAATCCTA
44348880 AATCCTAAATCCTA
1 AAT-CTAAATCCTA
44348894 AACTCTAA
1 AA-TCTAA
44348902 CTCGACCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (13 bp):
AATCTAAATCCTA
Found at i:44348929 original size:33 final size:33
Alignment explanation
Indices: 44348876--44348949 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
44348866 TAATCTAAAT
* *
44348876 CCTAAAT-CCTAAATCCTAAACTCTAACTCGAC
1 CCTAAATCCCTAAATCCTAAACCCTAACCCGAC
44348908 CCTAAATCCCT-AATCCTTAAACCCTAACCCGAC
1 CCTAAATCCCTAAATCC-TAAACCCTAACCCGAC
44348941 CCTAAATCC
1 CCTAAATCC
44348950 ATAACCCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 12 0.32
33 26 0.68
ACGTcount: A:0.35, C:0.39, G:0.03, T:0.23
Consensus pattern (33 bp):
CCTAAATCCCTAAATCCTAAACCCTAACCCGAC
Found at i:44348962 original size:33 final size:32
Alignment explanation
Indices: 44348876--44348962 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
44348866 TAATCTAAAT
* * *
44348876 CCTAAATCCTAAATCCTAAACTCTAACTCGAC
1 CCTAAATCCTAAACCCTAAACCCTAACCCGAC
* *
44348908 CCTAAATCCCTAATCCTTAAACCCTAACCCGAC
1 CCTAAAT-CCTAAACCCTAAACCCTAACCCGAC
*
44348941 CCTAAATCCATAACCCCTAAAC
1 CCTAAATCC-TAAACCCTAAAC
44348963 ATTATTTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 9 0.20
33 37 0.80
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (32 bp):
CCTAAATCCTAAACCCTAAACCCTAACCCGAC
Found at i:44349875 original size:41 final size:41
Alignment explanation
Indices: 44349816--44350098 Score: 413
Period size: 41 Copynumber: 6.9 Consensus size: 41
44349806 TTTTATTATT
* * * *
44349816 ATTAGTGGCGCTTTTTCAAAAACGCAGCTAAAGGCCTGATC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
44349857 ATTAGCGGCGCTTATTCAAAAGCGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
44349898 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
44349939 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
44349980 ATTAGCGGCGCCTTTTCAAAAACACCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
44350021 ATTAGCAGCTCTTTTTCAAAATCGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
44350062 ATTAGCGGCGCTTTTTCAAAAATGCCACTAAATGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
44350099 CAAAAACTTA
Statistics
Matches: 216, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:44357459 original size:25 final size:25
Alignment explanation
Indices: 44357403--44357464 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
44357393 GGCTCATGAG
* * *
44357403 AGCTTACTGATTCTCAGCTCGTATA
1 AGCTTACCGATTCTCAACTCATATA
*
44357428 AGCTTACCGATTCTCAACTCATATG
1 AGCTTACCGATTCTCAACTCATATA
*
44357453 AGTTTACCGATT
1 AGCTTACCGATT
44357465 TGCAGCCCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (25 bp):
AGCTTACCGATTCTCAACTCATATA
Found at i:44368619 original size:24 final size:24
Alignment explanation
Indices: 44368587--44368635 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
44368577 CCTCCTCTAA
44368587 ACCGTGTCATTACCAAAGAAATTT
1 ACCGTGTCATTACCAAAGAAATTT
44368611 ACCGTGTCATTACCAAAGAAATTT
1 ACCGTGTCATTACCAAAGAAATTT
44368635 A
1 A
44368636 ACTAAAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (24 bp):
ACCGTGTCATTACCAAAGAAATTT
Found at i:44372849 original size:20 final size:20
Alignment explanation
Indices: 44372821--44372868 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
44372811 TCCATGTGGT
*
44372821 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACACGAGCTCAAG
* *
44372841 TCAGTTCACACGAGCTCAAT
1 TCAGCTCACACGAGCTCAAG
44372861 TCAGCTCA
1 TCAGCTCA
44372869 TTGAGCTCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (20 bp):
TCAGCTCACACGAGCTCAAG
Found at i:44374241 original size:13 final size:13
Alignment explanation
Indices: 44374223--44374248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44374213 TGGTTTGTGA
44374223 AAAAAAAATTTCG
1 AAAAAAAATTTCG
44374236 AAAAAAAATTTCG
1 AAAAAAAATTTCG
44374249 TGCATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAAAAATTTCG
Found at i:44375473 original size:18 final size:18
Alignment explanation
Indices: 44375452--44375486 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44375442 GATTGAGAGT
44375452 GAAAA-AAAATGTGAAAAC
1 GAAAAGAAAAT-TGAAAAC
44375470 GAAAAGAAAATTGAAAA
1 GAAAAGAAAATTGAAAA
44375487 AAAGATTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.11
Consensus pattern (18 bp):
GAAAAGAAAATTGAAAAC
Found at i:44379092 original size:262 final size:262
Alignment explanation
Indices: 44378627--44379146 Score: 916
Period size: 262 Copynumber: 2.0 Consensus size: 262
44378617 GACGATCAGA
*
44378627 CAACTACGTGAAACGACTCGATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
1 CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
*
44378692 TAAAACCAAAGATGAATCCTTTAATAGAGATACAGCACATTTTACACACTCTGACGATGAACAAG
66 TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACGATGAACAAG
* *
44378757 ATAACTCGTTGAAAACTCATATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
131 ATAACTCATCGAAAACTCATATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
* *
44378822 AGCTCTAAATATTTCAACTCCATATTTGTGAATTTTATCAACTGGCAGTTTATTAATTTGCATCG
196 AGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATTCGCATCG
44378887 AG
261 AG
* * *
44378889 CAACTACGTGAAATGACTCAATCAACCTGGGCCAGTTCGTATCAAATACACTCCCTCAACACAAC
1 CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
* *
44378954 TAAAACCAAAGATGAATCTTTTAATAGAGATACAACACATTTTACACACTCTGGCGATGAACAAG
66 TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACGATGAACAAG
44379019 ATAACTCATCGAAAACTC-TGATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTA
131 ATAACTCATCGAAAACTCAT-ATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTA
*
44379083 TAGCTCTAAATATTTCAGCTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATTCGCAT
195 TAGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATTCGCAT
44379147 TGGTTCCAAA
Statistics
Matches: 245, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
261 1 0.00
262 244 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (262 bp):
CAACTACGTGAAACGACTCAATCAACCCGGGCCAGTTCGCATCAAATACACTCCCTCAACACAAC
TAAAACCAAAGATGAATCCTTTAATAGAGATACAACACATTTTACACACTCTGACGATGAACAAG
ATAACTCATCGAAAACTCATATAGTATTTTTTAACCAGAATTCTCCTCGGATCATCATCAACTAT
AGCTCTAAATATTTCAACTCCATAGTTGTGAATTTTATCAACTGGCAGTTTATTAATTCGCATCG
AG
Found at i:44380565 original size:15 final size:15
Alignment explanation
Indices: 44380533--44380570 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
44380523 TAAAGGACTT
44380533 AAGGATTAATGCATGA
1 AAGG-TTAATGCATGA
44380549 AAGGTTAATCGCA-GA
1 AAGGTTAAT-GCATGA
44380564 AAGGTTA
1 AAGGTTA
44380571 TGTCGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (15 bp):
AAGGTTAATGCATGA
Found at i:44381432 original size:30 final size:30
Alignment explanation
Indices: 44381396--44381460 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
44381386 ATTCCCAACA
44381396 CGTGTGACTCACACAACTGAAACACACGAC
1 CGTGTGACTCACACAACTGAAACACACGAC
** *
44381426 CGTGTGACTCACACGGCTGAGACACACGAC
1 CGTGTGACTCACACAACTGAAACACACGAC
44381456 CGTGT
1 CGTGT
44381461 CTTAAGCCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.15
Consensus pattern (30 bp):
CGTGTGACTCACACAACTGAAACACACGAC
Found at i:44382640 original size:29 final size:29
Alignment explanation
Indices: 44382598--44382765 Score: 169
Period size: 29 Copynumber: 5.8 Consensus size: 29
44382588 GTGTGTTAAT
* *
44382598 GATGGTCGTAACCACCCCTTTTCATATTC
1 GATGGTCGTCACCATCCCTTTTCATATTC
*
44382627 GATGGTCGTCACCATCCCTTTTCATTAATC
1 GATGGTCGTCACCATCCCTTTTCA-TATTC
* * *
44382657 GATGATCGTCACTATCCCTTTTTATAGTT-
1 GATGGTCGTCACCATCCCTTTTCATA-TTC
*
44382686 GATGGTCATCACCATCCCTTTTCATAGTT-
1 GATGGTCGTCACCATCCCTTTTCATA-TTC
* * *
44382715 AATGGTCGTCACCATCCCTTTTTATAGTC
1 GATGGTCGTCACCATCCCTTTTCATATTC
* ** *
44382744 GATAGTCGAAACTATCCCTTTT
1 GATGGTCGTCACCATCCCTTTT
44382766 AGCATTTAGT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 89 0.77
30 26 0.22
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATATTC
Found at i:44384124 original size:11 final size:11
Alignment explanation
Indices: 44384101--44384134 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
44384091 TTACTATTAT
44384101 TATAACTATATA
1 TATAAC-ATATA
44384113 TATAACATATA
1 TATAACATATA
*
44384124 TATAATATATA
1 TATAACATATA
44384135 CATACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (11 bp):
TATAACATATA
Found at i:44386711 original size:25 final size:24
Alignment explanation
Indices: 44386683--44386740 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
44386673 TAAACAAAAT
44386683 ATAAAAAAACTAAAAATAAATAACA
1 ATAAAAAAACTAAAAATAAATAA-A
* * * *
44386708 ATAAAACAATTTAAAATAAATAAT
1 ATAAAAAAACTAAAAATAAATAAA
44386732 ATAAAAAAA
1 ATAAAAAAA
44386741 TAACATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (24 bp):
ATAAAAAAACTAAAAATAAATAAA
Found at i:44386727 original size:40 final size:41
Alignment explanation
Indices: 44386683--44386765 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 41
44386673 TAAACAAAAT
44386683 ATAAAAAAACTA-AAAATAAATAACA-ATAAAACA-ATTTAAA
1 ATAAAAAAA-TATAAAA-AAATAACATATAAAACAGATTTAAA
* *
44386723 AT-AAATAATATAAAAAAATAACATATAAAACAGTTTTAAA
1 ATAAAAAAATATAAAAAAATAACATATAAAACAGATTTAAA
44386763 ATA
1 ATA
44386766 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
38 10 0.27
39 17 0.46
40 10 0.27
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (41 bp):
ATAAAAAAATATAAAAAAATAACATATAAAACAGATTTAAA
Found at i:44386773 original size:39 final size:39
Alignment explanation
Indices: 44386583--44386775 Score: 123
Period size: 44 Copynumber: 4.9 Consensus size: 39
44386573 AAACGAAACA
* *
44386583 AAATAATATATAAAACAATTTAAAGTAAATAATAGTTTAAAAT
1 AAATAACA-ATAAAACAATTTAAAATAAATAATA---TAAAAT
* * *
44386626 AAATGACTTATAAGAACAATTCAAAATAAATAATA-AAAAT
1 AAATAAC-AATAA-AACAATTTAAAATAAATAATATAAAAT
** * ** *
44386666 -TTTCA-AAT-AAACAAAATATAAA-AAA-ACTA-AAAAT
1 AAATAACAATAAAACAATTTA-AAATAAATAATATAAAAT
44386700 AAATAACAATAAAACAATTTAAAATAAATAATATAAAA-
1 AAATAACAATAAAACAATTTAAAATAAATAATATAAAAT
* *
44386738 AAATAACATATAAAACAGTTTTAAAATATATATATATA
1 AAATAACA-ATAAAACA-ATTTAAAATAAATA-ATATA
44386776 TATAAAAATT
Statistics
Matches: 117, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
34 8 0.07
35 11 0.09
36 10 0.09
37 13 0.11
38 11 0.09
39 14 0.12
40 17 0.15
41 5 0.04
43 9 0.08
44 19 0.16
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (39 bp):
AAATAACAATAAAACAATTTAAAATAAATAATATAAAAT
Found at i:44386868 original size:30 final size:26
Alignment explanation
Indices: 44386805--44386875 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
44386795 TATATAATAG
*
44386805 TTTACAATAAATAATATATAAAAGAAA
1 TTTA-AATAAATAATATATAAAACAAA
*
44386832 TTTAAATAAATAATATGTAAAACAAA
1 TTTAAATAAATAATATATAAAACAAA
*
44386858 TTAAAATAAATAATATAT
1 TTTAAATAAATAATATAT
44386876 TTAAAAACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
TTTAAATAAATAATATATAAAACAAA
Found at i:44386887 original size:26 final size:26
Alignment explanation
Indices: 44386810--44386892 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
44386800 AATAGTTTAC
* *
44386810 AATAAATAATATATAAAAGAAATTTA
1 AATAAATAATATATAAAACAAATTAA
*
44386836 AATAAATAATATGTAAAACAAATTAA
1 AATAAATAATATATAAAACAAATTAA
* *
44386862 AATAAATAATATATTTAAA-AACTTAA
1 AATAAATAATATA-TAAAACAAATTAA
44386888 AATAA
1 AATAA
44386893 GTGATGATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 46 0.92
27 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
AATAAATAATATATAAAACAAATTAA
Found at i:44388476 original size:44 final size:44
Alignment explanation
Indices: 44388428--44388966 Score: 306
Period size: 44 Copynumber: 11.9 Consensus size: 44
44388418 TTTAATCCGA
* *
44388428 TCCACTGCAACTTCATGGAGATAGGATTAGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* ** * * *
44388472 TCCACTACAACTTTTGGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* * * * * *
44388516 TCCACTACAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGA
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* * * *
44388560 TCCACTGTAACTTCAGGGAGATAAGATCTGCAATTTATAGCTTCAATCCGT
1 TCCACTGCAACTTCAGGGAGATAAGAT-T---A---GTAGCTTCAATCTGC
* * * * * *
44388611 TCCACTACAATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGC
* * * *
44388656 TCCACTGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
* ** * * *
44388700 TCCATTGCAACTTCAAAGAGATAAGGTT-TTA--TAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TCAATCTGC
* * * *
44388741 TCTACTGCAACTTCAGAGAGATAAGATCTGCAATTAATAGCTTCAA-CATGT
1 TCCACTGCAACTTCAGGGAGAT-A-A---G--ATTAGTAGCTTCAATC-TGC
* * * * * *
44388792 TCCGCTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGC
* * *
44388837 TCCACTGTAACTTTAGGGAGATAAGACTT-GTAACTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATC-TGC
* *
44388881 TCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCTTCAATC--C
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TA-G--CTTCAATCTGC
* *
44388927 ATCTCACTGCAACTTCAGGG-GTATAGGATTAGTGGCTTCA
1 -TC-CACTGCAACTTCAGGGAG-ATAAGATTAGTAGCTTCA
44388967 TTGTCCTGTT
Statistics
Matches: 376, Mismatches: 85, Indels: 68
0.71 0.16 0.13
Matches are distributed among these distances:
41 25 0.07
42 2 0.01
43 6 0.02
44 170 0.45
45 69 0.18
46 7 0.02
47 4 0.01
48 31 0.08
49 4 0.01
50 4 0.01
51 54 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGC
Found at i:44388530 original size:88 final size:88
Alignment explanation
Indices: 44388428--44388903 Score: 320
Period size: 96 Copynumber: 5.3 Consensus size: 88
44388418 TTTAATCCGA
* * * * *
44388428 TCCACTGCAACTTCATGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTTTGGGAGA
1 TCCACTACAACTTCAGGGAGATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGA
44388493 TAAGATTGGTATCTTCAACCTGC
66 TAAGATTGGTATCTTCAACCTGC
* * * * *
44388516 TCCACTACAACTTCAGGGAGATAAGG-TTTGTGGCTTCGATCTGATCCACTGTAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAGAT-AGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
* *
44388580 ATAAGATCTGCAATTTATAGCTTCAATCC-GT
65 ATAAGAT-TG----GTAT--CTTCAA-CCTGC
* * * * *
44388611 TCCACTACAATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTACAACTTCAGGGAGATAGGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
* * *
44388676 ATAAGACTAGTAACTTCAACCTGC
65 ATAAGATTGGTATCTTCAACCTGC
* * ** * * * *
44388700 TCCATTGCAACTTCAAAGAGATAAGG-TTT-TA--TAT-GATCTGCTCTACTGCAACTTCAGAGA
1 TCCACTACAACTTCAGGGAGAT-AGGATTTGTAGCT-TCAATCTGCTCCACTGCAACTTTAGGGA
* * *
44388760 GATAAGATCTGCAATTAATAGCTTCAACATGT
64 GATAAGAT-TG---GT-AT--CTTCAACCTGC
* * * * * * * * *
44388792 TCCGCTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGGGAG
1 TCCACTACAACTTCAGGGAGATAGGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
* *
44388857 ATAAGACTT-GTAACTTCAACTTGC
65 ATAAGA-TTGGTATCTTCAACCTGC
*
44388881 TCCACTGCAACTTCAGGGAGATA
1 TCCACTACAACTTCAGGGAGATA
44388904 AGGTTTGATA
Statistics
Matches: 294, Mismatches: 66, Indels: 55
0.71 0.16 0.13
Matches are distributed among these distances:
85 29 0.10
86 2 0.01
87 2 0.01
88 59 0.20
89 61 0.21
90 3 0.01
91 5 0.02
92 28 0.10
93 3 0.01
94 4 0.01
95 33 0.11
96 64 0.22
97 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (88 bp):
TCCACTACAACTTCAGGGAGATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGA
TAAGATTGGTATCTTCAACCTGC
Found at i:44388712 original size:140 final size:139
Alignment explanation
Indices: 44388458--44388724 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 139
44388448 ATAGGATTAG
* * * *
44388458 TAGCTTCAATCTGCTCCACTACAACTTTTGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTA
1 TAGCTTCAATCCGCTCCACTACAACTTTAGGGAAATAAGATTGCTATCTTCAACCTGCTCCACTA
** * ** * * * **
44388523 CAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGATCCACTGTAACTTCAGGGAGATAAGATC
66 CAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCCACTGCAACTTCAAAGAGATAAGATC
44388588 TGCAATTTA
131 TGCAATTTA
* **
44388597 TAGCTTCAATCCGTTCCACTACAA-TTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCAC
1 TAGCTTCAATCCGCTCCACTACAACTTT-AGGGAAATAAGA-TTGCTATCTTCAACCTGCTCCAC
* * * *
44388661 TGCAACTTTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCATTGCAACTTCAAAGAGATAAG
64 TACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCCACTGCAACTTCAAAGAGATAAG
44388725 GTTTTATATG
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
138 3 0.03
139 32 0.30
140 70 0.67
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (139 bp):
TAGCTTCAATCCGCTCCACTACAACTTTAGGGAAATAAGATTGCTATCTTCAACCTGCTCCACTA
CAACTTCAGGGAGATAAGACTAGTAACTTCAACCTGATCCACTGCAACTTCAAAGAGATAAGATC
TGCAATTTA
Found at i:44388834 original size:181 final size:181
Alignment explanation
Indices: 44388421--44388919 Score: 626
Period size: 181 Copynumber: 2.7 Consensus size: 181
44388411 TCATCATTTT
* * * * * * * * * *
44388421 AATCCGATCCACTGCAACTTCATGGAGATAGGATTAG-TAGCTTCAATCTGCTCCACTACAACTT
1 AATCCGTTCCACTACAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTT
* * * * * *
44388485 TTGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGGC
66 TAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT-T--A
* * *
44388550 T-TCGATCTGATCCACTGTAACTTCAGGGAGATAAGATCTGCAATTTATAGCTTC
128 TAT-GATCTGATCCACTGCAACTTCAGAGAGATAAGATCTGCAATTAATAGCTTC
* * *
44388604 AATCCGTTCCACTACAATTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTT
1 AATCCGTTCCACTACAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTT
* **
44388669 TAGGGAGATAAGACTAGTAACTTCAACCTGCTCCATTGCAACTTCAAAGAGATAAGGTTTTATAT
66 TAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTTATAT
* *
44388734 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTAATAGCTTC
131 GATCTGATCCACTGCAACTTCAGAGAGATAAGATCTGCAATTAATAGCTTC
* * * *
44388785 AA-CATGTTCCGCTGCAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACT
1 AATC-CGTTCCACTACAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACT
* * *
44388849 TTAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGATA
65 TTAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTTATA
44388914 TGATCT
130 TGATCT
44388920 TCAATCCATC
Statistics
Matches: 276, Mismatches: 37, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
180 1 0.00
181 167 0.61
182 1 0.00
183 31 0.11
184 76 0.28
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (181 bp):
AATCCGTTCCACTACAACTTAAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTT
TAGGGAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTTATAT
GATCTGATCCACTGCAACTTCAGAGAGATAAGATCTGCAATTAATAGCTTC
Found at i:44389806 original size:5 final size:5
Alignment explanation
Indices: 44389790--44389843 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
44389780 GGGCTCTCTT
*
44389790 TTTTC -TTT- TTTTC TTTTC TTTTTC TTCTT- TTTTCC TTTTT TTTTC
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TT-TTC TTTT-C TTTTC TTTTC
44389835 TTTTC TTTT
1 TTTTC TTTT
44389844 TGATTTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
4 8 0.20
5 22 0.54
6 11 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:44389813 original size:11 final size:10
Alignment explanation
Indices: 44389795--44389844 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
44389785 CTCTTTTTTC
44389795 TTTTTTTCTT
1 TTTTTTTCTT
44389805 TTCTTTTTCTT
1 TT-TTTTTCTT
*
44389816 CTTTTTTCCTT
1 -TTTTTTTCTT
44389827 TTTTTTTCTT
1 TTTTTTTCTT
44389837 TTCTTTTT
1 TT-TTTTT
44389845 GATTTTATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 13 0.37
11 20 0.57
12 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:44389820 original size:22 final size:21
Alignment explanation
Indices: 44389788--44389844 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
44389778 TTGGGCTCTC
44389788 TTTT-TTCTTTTTTTCTTTTCT
1 TTTTCTTCTTTTTTTCTTTT-T
*
44389809 TTTTCTTCTTTTTTCCTTTTT
1 TTTTCTTCTTTTTTTCTTTTT
44389830 TTTTCTT-TTCTTTTT
1 TTTTCTTCTT-TTTTT
44389845 GATTTTATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 14 0.44
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTTCTTTTTTTCTTTTT
Found at i:44395325 original size:125 final size:125
Alignment explanation
Indices: 44395103--44395351 Score: 399
Period size: 125 Copynumber: 2.0 Consensus size: 125
44395093 AGGGTTTTTA
* * *
44395103 GGTCCTGGAAGAAATAATTTCAAGTTGACGTTTCTGAGTAAATAGTATAAAATCACTTTTACCAG
1 GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
* * * *
44395168 GATGCTTTATGAGAAGAATTTGTTAAATCGCGCTCACGTGGACGCGCTTTTGCTACAGTT
66 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTT
* ** *
44395228 GGTCCTGGAAGAAATGATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAG
1 GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
44395293 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
66 GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
44395352 AGCATGTTTG
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
GGTCCTGGAAGAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAG
GAAGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTT
Found at i:44395844 original size:121 final size:121
Alignment explanation
Indices: 44395626--44395902 Score: 369
Period size: 121 Copynumber: 2.3 Consensus size: 121
44395616 CTTTCGGGGT
* *
44395626 TTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTCGTTTTTAGGAAAGC
1 TTTAGCGGCG-TTTTTGA-AAAGCGCCGCTAATGATCAGGGATTTAGCG-CGTTTTTAGGAAAGC
* * *
44395691 GCCGCTAATGATCAGGCCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGA-TCAGGGC
63 GCCGCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAAT-ACTCAGGGC
*
44395750 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGATTAGGGATTTAGCG-GTTTTTAGGAAAGCGC
1 TTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGATCAGGGATTTAGCGCGTTTTTAGGAAAGCGC
* * * *
44395814 CGCTAATGATCAGGGATTTAGCAGCGTTTTTGGGGAAGCACCTCTAATACTCAGGGC
65 CGCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAATACTCAGGGC
** *
44395871 TTTAGCGGTATTTTTGAAGTAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAA-AAGCGCCGCTAAT
44395903 TCTCTATTTT
Statistics
Matches: 137, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
120 4 0.03
121 89 0.65
123 32 0.23
124 12 0.09
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (121 bp):
TTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGATCAGGGATTTAGCGCGTTTTTAGGAAAGCGCC
GCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAATACTCAGGGC
Found at i:44395886 original size:41 final size:41
Alignment explanation
Indices: 44395626--44395878 Score: 332
Period size: 41 Copynumber: 6.2 Consensus size: 41
44395616 CTTTCGGGGT
* *
44395626 TTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * *
44395668 TTTAGCGTCGTTTTTAGGAAAGCGCCGCTAATGATCAGGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
*
44395709 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * *
44395750 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGATTAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* *
44395791 TTTAGC-G-GTTTTTAGGAAAGCGCCGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * * *
44395830 TTTAGCAGCGTTTTTGGGGAAGCACCTCTAAT-ACTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGA-TCAGGGC
44395871 TTTAGCGG
1 TTTAGCGG
44395879 TATTTTTGAA
Statistics
Matches: 186, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.19
40 3 0.02
41 139 0.75
42 9 0.05
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
Found at i:44396932 original size:43 final size:43
Alignment explanation
Indices: 44396880--44396983 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
44396870 GGGATTATGA
* * *
44396880 TTTAAGGTTTATGGTTTAAGAGTTAGGGGTTAGGGGATAGGGG
1 TTTAGGGTTTATGGTTTAAGAGTTAGGGGTTAGGAGATAGGAG
* * * *
44396923 TTTAGGGTTTATGTTTTATGATTTAGGGTTTAGGAGATAGGAG
1 TTTAGGGTTTATGGTTTAAGAGTTAGGGGTTAGGAGATAGGAG
* *
44396966 TTAAGGGTTTAAGGTTTA
1 TTTAGGGTTTATGGTTTA
44396984 GATTAATTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (43 bp):
TTTAGGGTTTATGGTTTAAGAGTTAGGGGTTAGGAGATAGGAG
Found at i:44398422 original size:19 final size:20
Alignment explanation
Indices: 44398372--44398421 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
44398362 TTTTTTTTAA
44398372 TTTTAAATTTTATGCCTTTT
1 TTTTAAATTTTATGCCTTTT
44398392 TTTTAAATTTTATGCCTTTT
1 TTTTAAATTTTATGCCTTTT
44398412 TTTTAAATTT
1 TTTTAAATTT
44398422 ACTGGGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTAAATTTTATGCCTTTT
Found at i:44399029 original size:32 final size:33
Alignment explanation
Indices: 44398993--44399063 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
44398983 CTGGAATTTG
44398993 TTTATTTGTAATTTGTTAT-TTTTCT-GTGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTAG-GTTTT
44399025 TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
44399058 TCTTAT
1 T-TTAT
44399064 AATGTCTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 19 0.53
33 12 0.33
34 5 0.14
ACGTcount: A:0.14, C:0.04, G:0.13, T:0.69
Consensus pattern (33 bp):
TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
Found at i:44401563 original size:43 final size:43
Alignment explanation
Indices: 44401467--44401757 Score: 177
Period size: 43 Copynumber: 6.8 Consensus size: 43
44401457 AAGTTATGCT
* * * *
44401467 TTTAGTGGCGTTTGT-GAAAAAGCGTCGCTAAAAGTCA--ATG-
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGA-GC
* *
44401507 TTATAGCGGCGTTTTTA-ATAGAGGCGCCGCTAAAGGTCATGAGC
1 TT-TAGCGGCGTTTTTAGA-AAAAGCGCCGCTAAAGGTCATGAGC
* * * * **
44401551 TTTAGTGGCGTTTGTAGAAAAAGCGTCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGAGC
* ** *
44401594 TTTAGCGGCGTTTTTGGGGAAAGTGCCGCTAAAGGT-ATTG-GTC
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCA-TGAG-C
* * *
44401637 TTTAGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGGTCATG-GTC
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGAG-C
* * * * ** * *
44401680 TTTAGCGACGTTTATGGGAAAAGTACTGCTAAAGGTCTTG-GTC
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGAG-C
* * * *
44401723 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGG
1 TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGG
44401758 CCTAAAAAGC
Statistics
Matches: 199, Mismatches: 42, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.01
41 12 0.06
42 16 0.08
43 164 0.82
44 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGAGC
Found at i:44401626 original size:86 final size:85
Alignment explanation
Indices: 44401467--44401757 Score: 302
Period size: 86 Copynumber: 3.4 Consensus size: 85
44401457 AAGTTATGCT
* * * * *** * *
44401467 TTTAGTGGCGTTTGT-GAAAAAGCGTCGCTAAAAGTCAATGT-TATAGCGGCGTTTTTAATAGAG
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC-ATGTCTTTAGCGGCGTTTTTGGGAAAA
*
44401530 GCGCCGCTAAAGGTCATGAG-C
65 GTGCCGCTAAAGGTCATG-GTC
* * * * *
44401551 TTTAGTGGCGTTTGTAGAAAAAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGGAAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG-TCTTTAGCGGCGTTTTTGGGAAAA
44401616 GTGCCGCTAAAGGT-ATTGGTC
65 GTGCCGCTAAAGGTCA-TGGTC
* * *
44401637 TTTAGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTATGGGAAAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAT-GTCTTTAGCGGCGTTTTTGGGAAAA
* * *
44401702 GTACTGCTAAAGGTCTTGGTC
65 GTGCCGCTAAAGGTCATGGTC
* *
44401723 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGG
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
44401758 CCTAAAAAGC
Statistics
Matches: 176, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
84 17 0.10
85 23 0.13
86 135 0.77
87 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGTCTTTAGCGGCGTTTTTGGGAAAAG
TGCCGCTAAAGGTCATGGTC
Found at i:44402731 original size:25 final size:25
Alignment explanation
Indices: 44402697--44402814 Score: 140
Period size: 25 Copynumber: 4.9 Consensus size: 25
44402687 ATCGTACAAT
44402697 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
44402722 TTCTATTTTATTACATCAAAT-AA-
1 TTCTATTTTATTACATCAAATAAAC
** * * *
44402745 TATC-A--AAATAAC-TCAAAAAAAT
1 T-TCTATTTTATTACATCAAATAAAC
44402767 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
44402792 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
44402815 TATCAAAATA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.06
21 8 0.10
22 2 0.03
23 2 0.03
24 8 0.10
25 52 0.68
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:44402807 original size:70 final size:69
Alignment explanation
Indices: 44402694--44402858 Score: 276
Period size: 70 Copynumber: 2.4 Consensus size: 69
44402684 GTGATCGTAC
44402694 AATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
1 AATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
44402759 AAAAA
66 -AAAA
44402764 AATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
1 AATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
*
44402829 AAAT
66 AAAA
** * *
44402833 TTTTTTTATTTTATTACATAAAATAA
1 AATTTCTATTTTATTACATCAAATAA
44402859 TATCAAAATA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 25 0.28
70 65 0.72
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (69 bp):
AATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
AAAA
Found at i:44403966 original size:7 final size:7
Alignment explanation
Indices: 44403956--44403981 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44403946 TTATATACAT
44403956 AATACTA
1 AATACTA
44403963 AATACTA
1 AATACTA
44403970 AATACTA
1 AATACTA
44403977 AATAC
1 AATAC
44403982 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:44404188 original size:20 final size:21
Alignment explanation
Indices: 44404146--44404189 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
44404136 ATACTTTTAT
*
44404146 TTTTAAAAATCTACATAATAA
1 TTTTAAAAATCTACATAAAAA
44404167 TTTT-AAAATCTA-ATATAAAA
1 TTTTAAAAATCTACATA-AAAA
44404187 TTT
1 TTT
44404190 ACCTCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATCTACATAAAAA
Found at i:44405195 original size:11 final size:11
Alignment explanation
Indices: 44405181--44405257 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
44405171 TTAAATATGG
44405181 ATTTGAGAGAA
1 ATTTGAGAGAA
*
44405192 ATTTG-GAAGGA
1 ATTTGAG-AGAA
44405203 ATTTGAGAGAA
1 ATTTGAGAGAA
*
44405214 AATTGAGAGGAA
1 ATTTGAGA-GAA
44405226 ATTT-AGAGGAA
1 ATTTGAGA-GAA
44405237 A-TTGAGAGGAA
1 ATTTGAGA-GAA
44405248 ATTTGAGAGA
1 ATTTGAGAGA
44405258 GGATTAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 3 0.05
11 41 0.72
12 13 0.23
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:44405209 original size:22 final size:22
Alignment explanation
Indices: 44405181--44405257 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
44405171 TTAAATATGG
44405181 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
44405203 ATTTGAGAGAAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
44405226 ATTT-AGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
44405248 ATTTGAGAGA
1 ATTTGAGAGA
44405258 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
22 37 0.74
23 13 0.26
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:44405236 original size:33 final size:35
Alignment explanation
Indices: 44405183--44405256 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
44405173 AAATATGGAT
* *
44405183 TTGAGA-GAAATTTGGAAGGAATTTGAGA-GAAAA
1 TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
*
44405216 TTGAGAGGAAATTTAG-AGGAAATTGAGAGGAAAT
1 TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
44405250 TTGAGAG
1 TTGAGAG
44405257 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 17 0.47
34 19 0.53
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (35 bp):
TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
Found at i:44405788 original size:39 final size:37
Alignment explanation
Indices: 44405712--44405807 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 37
44405702 TAAACAAAAT
*
44405712 ATAAATAACTAAAAATAAATAACAATAAAACAATTTAAA
1 ATAAATAA-TATAAA-AAATAACAATAAAACAATTTAAA
** *
44405751 ATAAATAATATAAAAAATAACATATAAAACCGTTTTAA
1 ATAAATAATATAAAAAATAACA-ATAAAACAATTTAAA
44405789 A-AAATATATATATAAAAAT
1 ATAAATA-ATATA-AAAAAT
44405808 TTGAAAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 13 0.26
38 23 0.46
39 14 0.28
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (37 bp):
ATAAATAATATAAAAAATAACAATAAAACAATTTAAA
Found at i:44405847 original size:24 final size:24
Alignment explanation
Indices: 44405784--44405916 Score: 105
Period size: 24 Copynumber: 5.5 Consensus size: 24
44405774 ATAAAACCGT
44405784 TTTAAA-AAAT-ATATATATAAAAA
1 TTTAAATAAATAATATATA-AAAAA
* * * *
44405807 TTTGAA-AGAT-ATATAT-AATAG
1 TTTAAATAAATAATATATAAAAAA
44405828 TTTACAATAAATAATATATAAAAAA
1 TTTA-AATAAATAATATATAAAAAA
*
44405853 TTTAAATAAATAATATGTAAAACAA
1 TTTAAATAAATAATATATAAAA-AA
*
44405878 CTTAAAAATAAATAATATATATAAAAA
1 -TT-TAAATAAATAATATATA-AAAAA
*
44405905 CTTAAAATAAAT
1 -TTTAAATAAAT
44405917 GATGATAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
21 6 0.07
22 2 0.02
23 17 0.19
24 23 0.25
25 9 0.10
26 11 0.12
27 20 0.22
28 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
TTTAAATAAATAATATATAAAAAA
Found at i:44405886 original size:27 final size:25
Alignment explanation
Indices: 44405833--44405916 Score: 116
Period size: 27 Copynumber: 3.3 Consensus size: 25
44405823 AATAGTTTAC
*
44405833 AATAAATAATATATAAAAAA-TTTA
1 AATAAATAATATATAAAAAACTTAA
*
44405857 AATAAATAATATGTAAAACAACTTAAA
1 AATAAATAATATATAAAA-AACTT-AA
44405884 AATAAATAATATATATAAAAACTTAA
1 AATAAATAATATATA-AAAAACTTAA
44405910 AATAAAT
1 AATAAAT
44405917 GATGATAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 17 0.32
25 2 0.04
26 11 0.21
27 20 0.38
28 3 0.06
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (25 bp):
AATAAATAATATATAAAAAACTTAA
Found at i:44406752 original size:22 final size:21
Alignment explanation
Indices: 44406701--44406753 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
44406691 TGTTCTCTTT
44406701 AAAA-AATAAAAATAAATAAA
1 AAAATAATAAAAATAAATAAA
*
44406721 TAAATAAATAAAAATGAAA-AGAA
1 AAAAT-AATAAAAAT-AAATA-AA
44406744 AAAATAATAA
1 AAAATAATAA
44406754 GACCACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
22 15 0.56
23 9 0.33
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAATAAAAATAAATAAA
Found at i:44407614 original size:27 final size:27
Alignment explanation
Indices: 44407576--44407628 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
44407566 AACCCTAAAC
*
44407576 GAATGCATTTGTAGCGTAATATGAAAG
1 GAATGCATTTGTAGCGCAATATGAAAG
*
44407603 GAATGCCTTTGTAGCGCAATATGAAA
1 GAATGCATTTGTAGCGCAATATGAAA
44407629 AAGTATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (27 bp):
GAATGCATTTGTAGCGCAATATGAAAG
Found at i:44412105 original size:35 final size:35
Alignment explanation
Indices: 44412059--44412128 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
44412049 TGGAGCCAAA
44412059 CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
1 CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
44412094 CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
1 CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
44412129 TTTTATATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (35 bp):
CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
Found at i:44427298 original size:29 final size:29
Alignment explanation
Indices: 44427266--44427393 Score: 150
Period size: 29 Copynumber: 4.4 Consensus size: 29
44427256 CAATTAACAT
* * * *
44427266 AGATAGCCATAAAAGTGTTCTTTTAAGAA
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* * *
44427295 AGATAGCCACAAAGGCGTTCCATTAACAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* *
44427324 AGATAGCCACAAAGGTGTACCTTTAATAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* *
44427353 AGATAGCCACAAAGGTGTT-CTTTTACAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
44427381 AGATAGCCACAAA
1 AGATAGCCACAAA
44427394 TTTCTCTATT
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 20 0.24
29 65 0.76
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (29 bp):
AGATAGCCACAAAGGTGTTCCTTTAAGAG
Found at i:44427332 original size:58 final size:58
Alignment explanation
Indices: 44427242--44427393 Score: 189
Period size: 58 Copynumber: 2.6 Consensus size: 58
44427232 TCAGAGTATT
* * * * * *
44427242 GCCACAAAGGCATTCAATTAACATAGATAGCCATAAAAGTGTTCTTTTAAGAAAGATA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
* * *
44427300 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTGTACCTTTAATAGAGATA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
* * *
44427358 GCCACAAAGGTGTT-CTTTTACAGAGATAGCCACAAA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAA
44427394 TTTCTCTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 20 0.24
58 62 0.76
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (58 bp):
GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
Found at i:44427406 original size:57 final size:58
Alignment explanation
Indices: 44427233--44427425 Score: 174
Period size: 58 Copynumber: 3.3 Consensus size: 58
44427223 GCTTTCCCTT
* * * * * * * * *
44427233 CAGAGTATTGCCACAAAGGCATTCAATTAACATAGATAGCCATAAAAGTGTTCTTTTAA
1 CAGAG-ATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTCTACATTTAA
* * * *
44427292 GAAAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTGTACCTTTAA
1 CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTCTACATTTAA
* * * * **
44427350 TAGAGATAGCCACAAAGGTGTT-CTTTTACAGAGATAGCCACAAATTTCT-CTATTTAA
1 CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTCTAC-ATTTAA
*
44427407 CAGAGATATCCACAAAGGC
1 CAGAGATAGCCACAAAGGC
44427426 TCACTTTTAT
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
56 1 0.01
57 43 0.39
58 64 0.58
59 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (58 bp):
CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTCTACATTTAA
Found at i:44427434 original size:29 final size:29
Alignment explanation
Indices: 44427259--44427434 Score: 124
Period size: 29 Copynumber: 6.1 Consensus size: 29
44427249 AGGCATTCAA
* * * **
44427259 TTAACATAGATAGCCATAAAAGTGTTCTT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* * * ** **
44427288 TTAAGAAAGATAGCCACAAAGGCGTTCCA
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* *
44427317 TTAACAGAGATAGCCACAAAGGTGTACCT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* **
44427346 TTAATAGAGATAGCCACAAAGGTGTTCTT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* * *
44427375 TT-ACAGAGATAGCCACAAA-TTTCTCTAT
1 TTAACAGAGATAGCCACAAAGGTGCACT-T
*
44427403 TTAACAGAGATATCCACAAAGGCT-CACTT
1 TTAACAGAGATAGCCACAAAGG-TGCACTT
44427432 TTA
1 TTA
44427435 TGAAAATTGG
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
27 4 0.03
28 19 0.16
29 94 0.78
30 3 0.02
31 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (29 bp):
TTAACAGAGATAGCCACAAAGGTGCACTT
Found at i:44428311 original size:42 final size:42
Alignment explanation
Indices: 44428252--44428335 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
44428242 TCTCTTCTTG
44428252 AAGAAGAAAGAGAAAGTTTCCATAATTTCTTACCTGAGTTAC
1 AAGAAGAAAGAGAAAGTTTCCATAATTTCTTACCTGAGTTAC
*
44428294 AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
1 AAGAAGAAAGAGAAAGTTTCCATAATTTCTTACCTGAGTTAC
44428336 CTTGATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (42 bp):
AAGAAGAAAGAGAAAGTTTCCATAATTTCTTACCTGAGTTAC
Found at i:44433969 original size:18 final size:17
Alignment explanation
Indices: 44433932--44433970 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44433922 ATTATTATGT
* *
44433932 ATTAAATGGTTAATTGA
1 ATTAAATGATTAAGTGA
44433949 ATTAAATGATTAAAGTGA
1 ATTAAATGATT-AAGTGA
44433967 ATTA
1 ATTA
44433971 TTGATGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (17 bp):
ATTAAATGATTAAGTGA
Done.