Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 143 of 182
Found at i:44030335 original size:14 final size:14
Alignment explanation
Indices: 44030308--44030348 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
44030298 AATTCACTAT
44030308 ATCA-AAATACTTAA
1 ATCATAAATA-TTAA
44030322 ATCATAAATATTAA
1 ATCATAAATATTAA
*
44030336 ATAAT-AATATTAA
1 ATCATAAATATTAA
44030349 TGTATTCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 12 0.48
15 5 0.20
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
ATCATAAATATTAA
Found at i:44030651 original size:19 final size:20
Alignment explanation
Indices: 44030627--44030670 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
44030617 CAACTTATTT
44030627 TAAAAA-ATATTTTTTAAAA
1 TAAAAACATATTTTTTAAAA
*
44030646 TAAAAATCATTTTTTTTAAAA
1 TAAAAA-CATATTTTTTAAAA
44030667 -AAAA
1 TAAAA
44030671 TGCAAAGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 12 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAACATATTTTTTAAAA
Found at i:44030671 original size:19 final size:17
Alignment explanation
Indices: 44030628--44030671 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
44030618 AACTTATTTT
44030628 AAAAAATATTTTTTAAA
1 AAAAAATATTTTTTAAA
*
44030645 ATAAAAATCATTTTTTTTAA
1 A-AAAAAT-A-TTTTTTAAA
44030665 AAAAAAT
1 AAAAAAT
44030672 GCAAAGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 6 0.26
19 7 0.30
20 9 0.39
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATATTTTTTAAA
Found at i:44038710 original size:17 final size:17
Alignment explanation
Indices: 44038688--44038726 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
44038678 AATTTAGATG
*
44038688 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
44038705 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
44038722 TAAAA
1 TAAAA
44038727 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:44039968 original size:9 final size:9
Alignment explanation
Indices: 44039939--44039975 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44039929 TGAGTTTTCG
44039939 AATTCGAAT
1 AATTCGAAT
*
44039948 AACTCGAAT
1 AATTCGAAT
44039957 AATTCGAAT
1 AATTCGAAT
*
44039966 AATTCAAAT
1 AATTCGAAT
44039975 A
1 A
44039976 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44044308 original size:22 final size:22
Alignment explanation
Indices: 44044283--44044405 Score: 65
Period size: 22 Copynumber: 6.1 Consensus size: 22
44044273 ACAGAGCCCA
44044283 AATATCATCGGCACAAAGCCTG
1 AATATCATCGGCACAAAGCCTG
*
44044305 AATACCA-CTGGCACAAAG-CT-
1 AATATCATC-GGCACAAAGCCTG
* * *
44044325 --T-GC-TAGGCACAAAGCCCG
1 AATATCATCGGCACAAAGCCTG
*
44044343 AATATCACCGGCACAAAG-CT-
1 AATATCATCGGCACAAAGCCTG
* * *
44044363 --T-GC-TAGGCACAAAGCCCG
1 AATATCATCGGCACAAAGCCTG
*
44044381 AATATCACCGGCACAAAGCCTG
1 AATATCATCGGCACAAAGCCTG
44044403 AAT
1 AAT
44044406 TAACGTTACG
Statistics
Matches: 71, Mismatches: 16, Indels: 28
0.62 0.14 0.24
Matches are distributed among these distances:
16 18 0.25
17 4 0.06
18 2 0.03
20 2 0.03
21 6 0.08
22 39 0.55
ACGTcount: A:0.36, C:0.30, G:0.20, T:0.15
Consensus pattern (22 bp):
AATATCATCGGCACAAAGCCTG
Found at i:44044346 original size:38 final size:38
Alignment explanation
Indices: 44044292--44044399 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
44044282 AAATATCATC
* * *
44044292 GGCACAAAGCCTGAATACCACTGGCACAAAGCTTGCTA
1 GGCACAAAGCCCGAATATCACCGGCACAAAGCTTGCTA
44044330 GGCACAAAGCCCGAATATCACCGGCACAAAGCTTGCTA
1 GGCACAAAGCCCGAATATCACCGGCACAAAGCTTGCTA
44044368 GGCACAAAGCCCGAATATCACCGGCACAAAGC
1 GGCACAAAGCCCGAATATCACCGGCACAAAGC
44044400 CTGAATTAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.12
Consensus pattern (38 bp):
GGCACAAAGCCCGAATATCACCGGCACAAAGCTTGCTA
Found at i:44054034 original size:38 final size:38
Alignment explanation
Indices: 44053990--44054126 Score: 123
Period size: 38 Copynumber: 3.4 Consensus size: 38
44053980 ACACTAGCAT
* * * *
44053990 AAAGCCTACTCGGCATAGAGGCCAAATATCACCGGCAC
1 AAAGCCTACTAGGCACAAAGCCCAAATATCACCGGCAC
* * *
44054028 AAAGCCTGCTAGGCACAAATCCCGAATATCACCGGCAC
1 AAAGCCTACTAGGCACAAAGCCCAAATATCACCGGCAC
*
44054066 AAAGCCTAAATATCACTA-GCACAAAGCCCAAATATCACCGACAC
1 AAAGCC------T-ACTAGGCACAAAGCCCAAATATCACCGGCAC
*
44054110 AAAGCCTGCTAGGCACA
1 AAAGCCTACTAGGCACA
44054127 GAGTCTGCAT
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
37 3 0.04
38 43 0.54
44 30 0.38
45 3 0.04
ACGTcount: A:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (38 bp):
AAAGCCTACTAGGCACAAAGCCCAAATATCACCGGCAC
Found at i:44054067 original size:22 final size:22
Alignment explanation
Indices: 44054039--44054115 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
44054029 AAGCCTGCTA
* *
44054039 GGCACAAATCCCGAATATCACC
1 GGCACAAAGCCCAAATATCACC
* *
44054061 GGCACAAAGCCTAAATATCACT
1 GGCACAAAGCCCAAATATCACC
*
44054083 AGCACAAAGCCCAAATATCACC
1 GGCACAAAGCCCAAATATCACC
*
44054105 GACACAAAGCC
1 GGCACAAAGCC
44054116 TGCTAGGCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.42, C:0.34, G:0.13, T:0.12
Consensus pattern (22 bp):
GGCACAAAGCCCAAATATCACC
Found at i:44055020 original size:23 final size:22
Alignment explanation
Indices: 44054971--44055024 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
44054961 TCAAATCATG
*
44054971 AAATTTACCTTTTTAAAATTAC
1 AAATTTACCCTTTTAAAATTAC
*
44054993 GAATTTACCCTTTTAAAATCCTA-
1 AAATTTACCCTTTTAAAAT--TAC
44055016 AAATTTACC
1 AAATTTACC
44055025 ATGCAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.63
23 8 0.30
24 2 0.07
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATTTACCCTTTTAAAATTAC
Found at i:44055654 original size:12 final size:13
Alignment explanation
Indices: 44055637--44055665 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44055627 AAGATTTCTT
44055637 TTGAAGCT-AGAA
1 TTGAAGCTGAGAA
44055649 TTGAAGCTGAGAA
1 TTGAAGCTGAGAA
44055662 TTGA
1 TTGA
44055666 GTATGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (13 bp):
TTGAAGCTGAGAA
Found at i:44059346 original size:40 final size:40
Alignment explanation
Indices: 44059278--44059354 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
44059268 AATCGAACCG
* * *
44059278 AAATATTTCGGTTAATTCAGCTGATTAACCGAATTAATCA
1 AAATATTTCGATTAATTCAGCAGATTAACCAAATTAATCA
*
44059318 AAATATTTCGATTAATTCGATCAG-TTAACCAAATTAA
1 AAATATTTCGATTAATTC-AGCAGATTAACCAAATTAA
44059355 CCGAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (40 bp):
AAATATTTCGATTAATTCAGCAGATTAACCAAATTAATCA
Found at i:44069646 original size:39 final size:40
Alignment explanation
Indices: 44069603--44069688 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 40
44069593 AAAAAATATA
*
44069603 TTTAATACAACAAAATATTTATTATATT-T-ATTTATGTTT
1 TTTAATACAACAAAATATTTATTATATTATGATAT-TGTTT
* *
44069642 TTTAATATAATAAAATATTTATTATATTATGATATTGTTT
1 TTTAATACAACAAAATATTTATTATATTATGATATTGTTT
44069682 TTTAATA
1 TTTAATA
44069689 TAAATACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 26 0.62
40 13 0.31
41 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (40 bp):
TTTAATACAACAAAATATTTATTATATTATGATATTGTTT
Found at i:44071351 original size:23 final size:24
Alignment explanation
Indices: 44071306--44071360 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
44071296 AATTTATTCT
* *
44071306 AAAACAAAATAGAATTAGTTTTAA
1 AAAATAAAATAGAATTAGATTTAA
*
44071330 AAAATAAAATATAATT-GATTTAA
1 AAAATAAAATAGAATTAGATTTAA
*
44071353 AAATTAAA
1 AAAATAAA
44071361 TTAATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (24 bp):
AAAATAAAATAGAATTAGATTTAA
Found at i:44071362 original size:17 final size:17
Alignment explanation
Indices: 44071335--44071378 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
44071325 TTTAAAAAAT
*
44071335 AAAATATAATTGATT-TA
1 AAAATA-AATTAATTCTA
44071352 AAAATTAAATTAATTCTA
1 AAAA-TAAATTAATTCTA
44071370 AAAATAAAT
1 AAAATAAAT
44071379 GAATAGGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATAAATTAATTCTA
Found at i:44076902 original size:6 final size:6
Alignment explanation
Indices: 44076891--44076921 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
44076881 AAATGCCAAT
*
44076891 TGGGGC TGGGGC TGGGGC TGGGGC AGGGGC T
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC T
44076922 AAGGTAGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.16, G:0.65, T:0.16
Consensus pattern (6 bp):
TGGGGC
Found at i:44077042 original size:7 final size:6
Alignment explanation
Indices: 44076988--44077064 Score: 56
Period size: 7 Copynumber: 12.5 Consensus size: 6
44076978 ATTATGATAA
44076988 TTTAA- TTTAA- TTTAA- -TTAAT TTTAAT TTTAAT TTTATATT TTTCGAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA-A-T TTT--AAT
44077036 TTTGAAT TTTAAAT TTTGAAT TTT-AT TTT
1 TTT-AAT TTT-AAT TTT-AAT TTTAAT TTT
44077065 TTATTAAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
4 4 0.06
5 15 0.23
6 15 0.23
7 20 0.31
8 8 0.12
9 1 0.02
10 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:44079399 original size:51 final size:52
Alignment explanation
Indices: 44079337--44079443 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
44079327 TTATAAAACT
* * *
44079337 TATATATATATAAAATACA-TAATGCATTTATGAAAACAATGAAA-ATATAAA
1 TATATACATATAAAATACATTAATGCATTTA-AAAAAAAATGAAATATATAAA
* * *
44079388 TATATACATATAAAATATATTCATGCATTTAAAAAAAAATGAAATATATAAG
1 TATATACATATAAAATACATTAATGCATTTAAAAAAAAATGAAATATATAAA
44079440 TATA
1 TATA
44079444 ATATAAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 28 0.58
52 20 0.42
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (52 bp):
TATATACATATAAAATACATTAATGCATTTAAAAAAAAATGAAATATATAAA
Found at i:44079730 original size:15 final size:13
Alignment explanation
Indices: 44079710--44079747 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
44079700 TATATGTAGG
44079710 TATAATAATATATAA
1 TATAATAATA-A-AA
44079725 TATAATAATAAAA
1 TATAATAATAAAA
44079738 -ATAATAATAA
1 TATAATAATAA
44079748 CAAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:44079752 original size:15 final size:15
Alignment explanation
Indices: 44079726--44079759 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44079716 AATATATAAT
*
44079726 ATAATAATAAAAATA
1 ATAATAACAAAAATA
*
44079741 ATAATAACAAAATTA
1 ATAATAACAAAAATA
44079756 ATAA
1 ATAA
44079760 AATAGACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAACAAAAATA
Found at i:44080007 original size:19 final size:21
Alignment explanation
Indices: 44079969--44080007 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
44079959 CCTTTTTTAA
*
44079969 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
44079990 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
44080008 AAGAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:44080215 original size:23 final size:22
Alignment explanation
Indices: 44080183--44080227 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44080173 AAATTAAATC
*
44080183 TCTAATATTACAAAATCATATCT
1 TCTAAGATTA-AAAATCATATCT
*
44080206 TCTAAGATTAAATATCATATCT
1 TCTAAGATTAAAAATCATATCT
44080228 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (22 bp):
TCTAAGATTAAAAATCATATCT
Found at i:44080243 original size:21 final size:21
Alignment explanation
Indices: 44080217--44080279 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
44080207 CTAAGATTAA
44080217 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
44080238 ATATCATATCTAGGATTGC--
1 ATATCATATCTAAGATTGCAT
44080257 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
44080278 AT
1 AT
44080280 CCTCGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:44080274 original size:19 final size:19
Alignment explanation
Indices: 44080206--44080280 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
44080196 AATCATATCT
**
44080206 TCTAAGATTAAATATCATA
1 TCTAAGATTGCATATCATA
44080225 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
44080246 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44080265 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
44080281 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44080769 original size:44 final size:44
Alignment explanation
Indices: 44080662--44080815 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 44
44080652 TATTTAGTCT
* * ** *
44080662 GCTCCACTGCAACTTCAGGGAGATAAGAT--TA-GATGTGTTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCATAGGCTTTAATCC
* * * *
44080703 GCT-CTCTGCAACTTTAGAGAGATAAGATCCA-AGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-CATAGGCTTTAATCC
* * * * * **
44080746 GTTTCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCATAGGCTTTAATCC
44080790 GCTCCACTGCAACTTCAGGGAGATAA
1 GCTCCACTGCAACTTCAGGGAGATAA
44080816 AATTTGCCAT
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
40 22 0.26
41 3 0.03
42 1 0.01
43 8 0.09
44 52 0.60
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCATAGGCTTTAATCC
Found at i:44081176 original size:44 final size:44
Alignment explanation
Indices: 44081122--44081497 Score: 384
Period size: 44 Copynumber: 8.7 Consensus size: 44
44081112 GCTATTTTCC
* * *
44081122 ACCTACTCCACTGCTGCTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCA
* *
44081166 ACCTATTCCACTGCTGAC-CAGGGAGATAGGA-CCTACAATCTTAA
1 ACCTATTCCACTGCTG-CTCAGGGAGATAGGATTC-ACAATCTTCA
* * *
44081210 ATCTATTCCACTGCTGC-CTAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGCTC-AGGGAGATAGGATTCACAATCTTCA
* *
44081254 ACCTATTCCACTACTGACT-AGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACAATCTTCA
*
44081298 ACGTATTCCACTGCTG-TCCAGGGAGATAGGATT--C--T-TT-A
1 ACCTATTCCACTGCTGCT-CAGGGAGATAGGATTCACAATCTTCA
* * * * *
44081336 ATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCA
* * *
44081380 ACCCATTTCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CTCAGGGAGATAGGATTCACAATCTTCA
* * *
44081424 ACCTATTCCACTGTTG-TCCAAGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGCT-CAGGGAGATAGGATTCACAATCTTCA
44081468 ACCTATTCCACTGCTGACT-AGGGAGATAGG
1 ACCTATTCCACTGCTG-CTCAGGGAGATAGG
44081498 GCTGGGGTCA
Statistics
Matches: 277, Mismatches: 35, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
38 28 0.10
39 2 0.01
40 2 0.01
42 3 0.01
43 5 0.02
44 232 0.84
45 4 0.01
46 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCA
Found at i:44081359 original size:170 final size:170
Alignment explanation
Indices: 44081168--44081497 Score: 457
Period size: 170 Copynumber: 1.9 Consensus size: 170
44081158 GATCTTCAAC
* * * *
44081168 CTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAATCTTAAATCTATTCCACTGCTG-CCTAG
1 CTATTCCACTACTGACCAGGGAGATAGAATCCT-CAATCTTAAACCCATTCCACTGCTGACC-AG
* * *
44081231 GGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGACTAGGGAGATAGGATTCACAATCTT
64 GGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTT
* *
44081296 TAACGTATTCCACTGCTGTCCAGGGAGATAGGATTCTTTAAT
129 TAACCTATTCCACTGCTGACCAGGGAGATAGGATTCTTTAAT
* * * *
44081338 CTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCATTTCACTGCTGACCAGGG
1 CTATTCCACTACTGACCAGGGAGATAGAATCCTCAATCTTAAACCCATTCCACTGCTGACCAGGG
* * ** *
44081403 AGATAGGATTCACAATCTTTAACCTATTCCACTGTTGTCCAAGGAGATAGGATTCACAATCTTTA
66 AGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTA
*
44081468 ACCTATTCCACTGCTGACTAGGGAGATAGG
131 ACCTATTCCACTGCTGACCAGGGAGATAGG
44081498 GCTGGGGTCA
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
170 135 0.97
171 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (170 bp):
CTATTCCACTACTGACCAGGGAGATAGAATCCTCAATCTTAAACCCATTCCACTGCTGACCAGGG
AGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAAGGAGATAGGATTCACAATCTTTA
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCTTTAAT
Found at i:44081397 original size:126 final size:126
Alignment explanation
Indices: 44081128--44081457 Score: 464
Period size: 126 Copynumber: 2.6 Consensus size: 126
44081118 TTCCACCTAC
* * * *
44081128 TCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TCCACTGCTGACT-AGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGA
* *
44081192 TAGGACCTACAATCTTAAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACC
65 TAGGA--T----TCTTAAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACC
*
44081257 TAT
124 CAT
* *
44081260 TCCACTACTGACTAGGGAGATAGGATTCACAATCTTTAACGTATTCCACTGCTGTCCAGGGAGAT
1 TCCACTGCTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGAT
*
44081325 AGGATTCTTTAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCAT
66 AGGATTCTTAAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCAT
* * * *
44081386 TTCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGTCCAAGGAGAT
1 TCCACTGCTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGAT
44081451 AGGATTC
66 AGGATTC
44081458 ACAATCTTTA
Statistics
Matches: 181, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
126 118 0.65
130 1 0.01
132 60 0.33
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (126 bp):
TCCACTGCTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGAT
AGGATTCTTAAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCAT
Found at i:44081557 original size:88 final size:88
Alignment explanation
Indices: 44081487--44081898 Score: 563
Period size: 88 Copynumber: 4.7 Consensus size: 88
44081477 ACTGCTGACT
* * * * * * *
44081487 AGGGAGATAGGGCTGGGGTCATCAATCTGCTTTGCTGTCGGTGCAGGAAGGCAATATCTGCTATT
1 AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
*
44081552 TTTAACCTGCTCCGCTGCAACCT
66 TTTAACCTGCTCCGCTGCAACCC
* * * *
44081575 AGGGAGACAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGTAAGAAAGCAAGATCTGCTATT
1 AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
* * *
44081640 TTCAGCCTGCTCCGCTGTAACCC
66 TTTAACCTGCTCCGCTGCAACCC
* * * *
44081663 AGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCAGTCGGTGCAGGAAGGCAAGATCTGTTATT
1 AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
*
44081728 TTTAGCCTGCTCCGCTGCAACCC
66 TTTAACCTGCTCCGCTGCAACCC
* * *
44081751 AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGTAAGATCTGCTATT
1 AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
*
44081816 TTTAGCCTGCTCCGCTGCAACCC
66 TTTAACCTGCTCCGCTGCAACCC
* * * * *
44081839 AGGGAGGCAAGGCTGGTGACTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTG
1 AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
44081899 TTATCTTCTC
Statistics
Matches: 288, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 288 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.27
Consensus pattern (88 bp):
AGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
TTTAACCTGCTCCGCTGCAACCC
Found at i:44081715 original size:44 final size:44
Alignment explanation
Indices: 44081662--44081801 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
44081652 CGCTGTAACC
* *
44081662 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCAGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTG
* * * * * * ****
44081706 CAGGAAGGCAAGATCTGTTAT-TTTTAGCCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTTGA-TCTGCTTCGCTGTCGGTG
* *
44081750 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTG
*
44081794 TAGGAAGG
1 CAGGAAGG
44081802 TAAGATCTGC
Statistics
Matches: 66, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 15 0.23
44 37 0.56
45 14 0.21
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTG
Found at i:44081740 original size:176 final size:176
Alignment explanation
Indices: 44081511--44081902 Score: 622
Period size: 176 Copynumber: 2.2 Consensus size: 176
44081501 GGGGTCATCA
* * * *
44081511 ATCTGCTTTGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGCAACCCA
44081576 GGGAGACAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGTAAGAAAGCAAGATCTGCTATTT
66 GGGAGACAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGTAAGAAAGCAAGATCTGCTATTT
* * *
44081641 TCAGCCTGCTCCGCTGTAACCCAGGGAGGCAAGGCTGGTGTCTTTG
131 TCAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCG
* *
44081687 ATCTGCTTCGCAGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAGCCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGCAACCCA
* * * * *
44081752 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGTAAGATCTGCTATTT
66 GGGAGACAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGTAAGAAAGCAAGATCTGCTATTT
*
44081817 TTAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCG
131 TCAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCG
* * *
44081863 ATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGTTAT
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTAT
44081903 CTTCTCTGAT
Statistics
Matches: 197, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
176 197 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (176 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGACAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGTAAGAAAGCAAGATCTGCTATTT
TCAGCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGACTTCG
Found at i:44084144 original size:25 final size:25
Alignment explanation
Indices: 44084092--44084144 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
44084082 AAGAAAATTC
*
44084092 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
44084117 AAAAGAATGAAA-AAT-ATTAGCTCA
1 AAAAGAATGAAAGAATAATTA-CTCA
44084141 AAAA
1 AAAA
44084145 TAAATGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 10 0.38
25 12 0.46
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:44084150 original size:25 final size:23
Alignment explanation
Indices: 44084092--44084159 Score: 55
Period size: 25 Copynumber: 2.7 Consensus size: 23
44084082 AAGAAAATTC
* *
44084092 AAAAGAATGAAAGAATAATTATTCA
1 AAAAAAATGAAA-AAT-ATTACTCA
*
44084117 AAAAGAATGAAAAATATTAGCTCA
1 AAAAAAATGAAAAATATTA-CTCA
*
44084141 AAAATAAATGCAAAGATAT
1 AAAA-AAATG-AAAAATAT
44084160 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 16 0.43
26 7 0.19
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.22
Consensus pattern (23 bp):
AAAAAAATGAAAAATATTACTCA
Found at i:44087475 original size:52 final size:51
Alignment explanation
Indices: 44087377--44087481 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
44087367 NNNNNNNNNN
* * *
44087377 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
44087428 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
44087480 TA
1 TA
44087482 ATATAAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:44087756 original size:3 final size:3
Alignment explanation
Indices: 44087748--44087787 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
44087738 ATATGTAGGT
*
44087748 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44087788 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44087771 original size:15 final size:12
Alignment explanation
Indices: 44087750--44087801 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
44087740 ATGTAGGTAT
44087750 AATAATAATATATA
1 AATAATAATA-A-A
44087764 ATATAATAATAAA
1 A-ATAATAATAAA
44087777 AATAATAATAACA
1 AATAATAATAA-A
*
44087790 AA-ATTAATAAA
1 AATAATAATAAA
44087801 A
1 A
44087802 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:44088047 original size:19 final size:21
Alignment explanation
Indices: 44088009--44088047 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
44087999 CCTTTTTTAA
*
44088009 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
44088030 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
44088048 GAAAACAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:44089512 original size:20 final size:20
Alignment explanation
Indices: 44089478--44089523 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
44089468 TTTATATTCT
44089478 TTAAAAAATTATAAA-AAAA
1 TTAAAAAATTATAAAGAAAA
* *
44089497 TTAAAGAATATATAAAGAAAG
1 TTAAAAAAT-TATAAAGAAAA
44089518 TTAAAA
1 TTAAAA
44089524 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
TTAAAAAATTATAAAGAAAA
Found at i:44090989 original size:24 final size:24
Alignment explanation
Indices: 44090962--44091013 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44090952 TTAGTAAGTC
*
44090962 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44090986 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44091010 AAAT
1 AAAT
44091014 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44092959 original size:24 final size:24
Alignment explanation
Indices: 44092932--44092983 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44092922 TTAGTAAGTC
*
44092932 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44092956 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44092980 AAAT
1 AAAT
44092984 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44113327 original size:7 final size:7
Alignment explanation
Indices: 44113317--44113575 Score: 69
Period size: 7 Copynumber: 36.6 Consensus size: 7
44113307 ATAGTTTTGA
44113317 GTTTAGG
1 GTTTAGG
*
44113324 GTTTATG
1 GTTTAGG
**
44113331 GTTTATA
1 GTTTAGG
44113338 GTTT-GTG
1 GTTTAG-G
44113345 GTTT-GTG
1 GTTTAG-G
*
44113352 GTTTAGT
1 GTTTAGG
*
44113359 GTTTAGT
1 GTTTAGG
44113366 GTTTAGG
1 GTTTAGG
44113373 AG-TTAGG
1 -GTTTAGG
*
44113380 AGCTTAGG
1 -GTTTAGG
*
44113388 GTTTAGT
1 GTTTAGG
**
44113395 GTTTACA
1 GTTTAGG
*
44113402 ATTTAGG
1 GTTTAGG
*
44113409 GTGTA-G
1 GTTTAGG
*
44113415 GTTTATG
1 GTTTAGG
**
44113422 GTTTAAA
1 GTTTAGG
* *
44113429 TTTTAAG
1 GTTTAGG
*
44113436 GTTTATG
1 GTTTAGG
* **
44113443 ATTTAAT
1 GTTTAGG
* * *
44113450 ATTAAGA
1 GTTTAGG
*
44113457 GTTTAGT
1 GTTTAGG
*
44113464 GTTTACG
1 GTTTAGG
44113471 GTTTAGG
1 GTTTAGG
*
44113478 GTGTA-G
1 GTTTAGG
*
44113484 GTTTATG
1 GTTTAGG
44113491 GTTTAGTG
1 GTTTAG-G
*
44113499 TTTTAGG
1 GTTTAGG
*
44113506 GTTTAAGA
1 GTTT-AGG
* *
44113514 GCTTAGA
1 GTTTAGG
44113521 GTTTAGGG
1 GTTTA-GG
*
44113529 GTTAAGG
1 GTTTAGG
* *
44113536 GCTTAAG
1 GTTTAGG
*
44113543 GTCTAGGG
1 GTTTA-GG
*
44113551 GTTAAGG
1 GTTTAGG
* *
44113558 GCTTATG
1 GTTTAGG
44113565 GTTTAGG
1 GTTTAGG
44113572 GTTT
1 GTTT
44113576 TAATTTAATA
Statistics
Matches: 185, Mismatches: 57, Indels: 20
0.71 0.22 0.08
Matches are distributed among these distances:
6 10 0.05
7 148 0.80
8 27 0.15
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:44113525 original size:22 final size:22
Alignment explanation
Indices: 44113500--44113572 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
44113490 GGTTTAGTGT
* *
44113500 TTTAGGGTTTAAGAGCTTAGAG
1 TTTAGGGGTTAAGGGCTTAGAG
44113522 TTTAGGGGTTAAGGGCTTA-AGG
1 TTTAGGGGTTAAGGGCTTAGA-G
*
44113544 TCTAGGGGTTAAGGGCTTATG-G
1 TTTAGGGGTTAAGGGCTTA-GAG
44113566 TTTAGGG
1 TTTAGGG
44113573 TTTTAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 43 0.98
ACGTcount: A:0.22, C:0.05, G:0.38, T:0.34
Consensus pattern (22 bp):
TTTAGGGGTTAAGGGCTTAGAG
Found at i:44113898 original size:115 final size:116
Alignment explanation
Indices: 44113756--44114120 Score: 473
Period size: 116 Copynumber: 3.2 Consensus size: 116
44113746 AACGATGCCA
* * * * *
44113756 TTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAACGCTGCAAAAGGATATCTATTAGTGGCGGT
1 TTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAATGCCGCAAAAGGATATGTGTTAGTGGCGTT
* * * * *
44113821 TGTACGAAAAACGCTGTAATTAGGTTTTAAGTGTTTGCTAGACGTTGTCG-
66 TTTACGAAAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGT
** * **
44113871 TTTTATCTGCGTTTTTAGTGGTGTTTTTACTAAAATGCCACAAGGGGATATGTGTTAGTGGCGTT
1 TTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAATGCCGCAAAAGGATATGTGTTAGTGGCGTT
* *
44113936 TTTAC-AGAAAATGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTTTCGT
66 TTTACGA-AAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGT
* * * * *
44113987 TTTTATTTGCCTTTCTAGTGGCATTTTGACTAAAATGCCGCAAAAGGATATGTGTTAGTGGTGTT
1 TTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAATGCCGCAAAAGGATATGTGTTAGTGGCGTT
* *
44114052 TTTACGAAAAACTCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTTGT
66 TTTACGAAAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGT
* *
44114103 TTTTATTTGCGATTTTAG
1 TTTTATCTGCGTTTTTAG
44114121 CTGCGTTAGT
Statistics
Matches: 213, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
114 1 0.00
115 96 0.45
116 115 0.54
117 1 0.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (116 bp):
TTTTATCTGCGTTTTTAGTGGCATTTTTACTAAAATGCCGCAAAAGGATATGTGTTAGTGGCGTT
TTTACGAAAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGT
Found at i:44114250 original size:23 final size:23
Alignment explanation
Indices: 44114224--44114345 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
44114214 CCCCACTCAG
*
44114224 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCCAATTTCATTTCCCCA
*
44114247 ATTT-CCC-ATTTCCTATTCCCCCA
1 ATTTCCCCAATTT-C-ATTTCCCCA
* * *
44114270 ATTTCTCCGATTTCATTTCCCAA
1 ATTTCCCCAATTTCATTTCCCCA
* *
44114293 ATTT-CCCAATTCCTTTTCCCCCA
1 ATTTCCCCAATTTCATTT-CCCCA
*
44114316 ATTTCCCCGATTTCATTTCCCCA
1 ATTTCCCCAATTTCATTTCCCCA
44114339 ATTTCCC
1 ATTTCCC
44114346 AAGACCTGTC
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
21 4 0.05
22 13 0.16
23 46 0.57
24 13 0.16
25 4 0.05
ACGTcount: A:0.19, C:0.39, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTTCCCCAATTTCATTTCCCCA
Found at i:44114283 original size:46 final size:46
Alignment explanation
Indices: 44114224--44114347 Score: 194
Period size: 46 Copynumber: 2.7 Consensus size: 46
44114214 CCCCACTCAG
* * *
44114224 ATTTCCCCAATTTCATTTCCCTAATTTCCCATTTCCTATTCCCCCA
1 ATTTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCA
* *
44114270 ATTTCTCCGATTTCATTTCCCAAATTTCCCAATTCCTTTTCCCCCA
1 ATTTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCA
*
44114316 ATTTCCCCGATTTCATTTCCCCAATTTCCCAA
1 ATTTCCCCGATTTCATTTCCCAAATTTCCCAA
44114348 GACCTGTCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.40
Consensus pattern (46 bp):
ATTTCCCCGATTTCATTTCCCAAATTTCCCAATTCCTATTCCCCCA
Found at i:44114516 original size:13 final size:12
Alignment explanation
Indices: 44114483--44114516 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44114473 GGTCAGATTC
*
44114483 TTTTGTTGGCAT
1 TTTTGTTGTCAT
44114495 TTTTGTTGTCAT
1 TTTTGTTGTCAT
44114507 TTTTGCTTGT
1 TTTTG-TTGT
44114517 TCCGTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.06, C:0.09, G:0.21, T:0.65
Consensus pattern (12 bp):
TTTTGTTGTCAT
Found at i:44115484 original size:46 final size:45
Alignment explanation
Indices: 44115415--44115502 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 45
44115405 TTACTTTTTT
* *
44115415 AAAAATCTTTAATTTCCATTATTTA-TTAGTCACTTAATTTCTAAA
1 AAAAATCTTTAATTTCCACTATTTACATA-TCACTTAATTTCTAAA
* *
44115460 AAAAATCTTTTAATTTTCACTATTTACATATTACTTAATTTCT
1 AAAAATC-TTTAATTTCCACTATTTACATATCACTTAATTTCT
44115503 TGGAATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 7 0.19
46 28 0.76
47 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.01, T:0.49
Consensus pattern (45 bp):
AAAAATCTTTAATTTCCACTATTTACATATCACTTAATTTCTAAA
Found at i:44115723 original size:20 final size:21
Alignment explanation
Indices: 44115679--44115731 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
44115669 TTATTTATTT
44115679 TATATTTTTAAATATTAAAACC
1 TATATTTTT-AATATTAAAACC
**
44115701 TATATTTTTAATA-TATCACC
1 TATATTTTTAATATTAAAACC
44115721 TATATTTTTAA
1 TATATTTTTAA
44115732 ATTCATTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 16 0.55
21 4 0.14
22 9 0.31
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTTTTAATATTAAAACC
Found at i:44115832 original size:37 final size:34
Alignment explanation
Indices: 44115748--44115838 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
44115738 TACTAATAAC
* * *
44115748 TTTTTAAATTTTAAACATAATTATTTATTTTATG
1 TTTTTAAATATTATACATAATTATTTATTTTATA
*
44115782 TTTTTAAATATTATATATAATTATTTATTTTTAAATA
1 TTTTTAAATATTATACATAATTATTTA-TTTT--ATA
44115819 TTTTTAAATATTATACATAA
1 TTTTTAAATATTATACATAA
44115839 AATTTTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 24 0.49
35 4 0.08
37 21 0.43
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTTTAAATATTATACATAATTATTTATTTTATA
Found at i:44115959 original size:9 final size:9
Alignment explanation
Indices: 44115945--44115977 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
44115935 ACTAATTTCC
44115945 ACATAACAT
1 ACATAACAT
44115954 ACATAAC-T
1 ACATAACAT
44115962 CACATAACAT
1 -ACATAACAT
44115972 ACATAA
1 ACATAA
44115978 TAACTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (9 bp):
ACATAACAT
Found at i:44116017 original size:9 final size:9
Alignment explanation
Indices: 44116000--44116205 Score: 118
Period size: 9 Copynumber: 22.2 Consensus size: 9
44115990 ATCATAACTC
44116000 AACTTACAT
1 AACTTACAT
*
44116009 AACTCACAT
1 AACTTACAT
44116018 AACTTACAT
1 AACTTACAT
*
44116027 AACTTATAT
1 AACTTACAT
*
44116036 ATACCATA-ACT
1 A-A-CTTACA-T
44116047 CAACTTACAT
1 -AACTTACAT
*
44116057 AACTCACAT
1 AACTTACAT
*
44116066 AACTTATAT
1 AACTTACAT
*
44116075 ATATCATA-ACT
1 A-A-CTTACA-T
44116086 CAACTTACAT
1 -AACTTACAT
44116096 AACTTACAT
1 AACTTACAT
44116105 AA--TACAT
1 AACTTACAT
* *
44116112 AA-ATATAT
1 AACTTACAT
* *
44116120 ATCATATCAT
1 AACTTA-CAT
*
44116130 AGCTTACAT
1 AACTTACAT
*
44116139 AACTCACAT
1 AACTTACAT
44116148 AACTTACAT
1 AACTTACAT
44116157 AACTTA-AT
1 AACTTACAT
*
44116165 AACTTATGTAT
1 AACTTA--CAT
* *
44116176 ATCATATCAT
1 AACTTA-CAT
44116186 AACTTACAT
1 AACTTACAT
*
44116195 AACTTGCAT
1 AACTTACAT
44116204 AA
1 AA
44116206 TACATAAATA
Statistics
Matches: 156, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.04
8 13 0.08
9 92 0.59
10 24 0.15
11 18 0.12
12 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:44116048 original size:48 final size:47
Alignment explanation
Indices: 44115953--44116226 Score: 241
Period size: 48 Copynumber: 5.8 Consensus size: 47
44115943 CCACATAACA
44115953 TACATAACTCACATAACATACATAATAACTTATATATATCATAACTCAACT
1 TACATAACTCACATAAC-TAC---ATAACTTATATATATCATAACTCAACT
*
44116004 TACATAACTCACATAACTTACATAACTTATATATACCATAACTCAACT
1 TACATAACTCACATAAC-TACATAACTTATATATATCATAACTCAACT
44116052 TACAT-A---AC-T--C-ACATAACTTATATATATCATAACTCAACT
1 TACATAACTCACATAACTACATAACTTATATATATCATAACTCAACT
* * *
44116091 TACATAACTTACATAA-TACATAAATATATATCATATCATAGCTTACATAACT
1 TACATAACTCACATAACTACATAACT-TATAT-ATATCATAAC-T-C--AACT
* * * *
44116143 CACATAACTTACATAACTTA-ATAACTTATGTATATCATATCAT-AACT
1 TACATAACTCACATAAC-TACATAACTTATATATATCATAAC-TCAACT
** *
44116190 TACATAACTTGCATAA-TACATAA-ATATATATATCATA
1 TACATAACTCACATAACTACATAACTTATATATATCATA
44116227 TCATAAGTTA
Statistics
Matches: 192, Mismatches: 14, Indels: 40
0.78 0.06 0.16
Matches are distributed among these distances:
39 33 0.17
40 1 0.01
41 1 0.01
43 3 0.02
44 3 0.02
45 14 0.07
46 11 0.06
47 24 0.12
48 40 0.21
49 1 0.01
50 1 0.01
51 30 0.16
52 23 0.12
53 5 0.03
54 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (47 bp):
TACATAACTCACATAACTACATAACTTATATATATCATAACTCAACT
Found at i:44116057 original size:39 final size:39
Alignment explanation
Indices: 44116009--44116106 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
44115999 CAACTTACAT
*
44116009 AACTCACATAACTTACATAACTTATATATACCATAACTC
1 AACTTACATAACTTACATAACTTATATATACCATAACTC
* *
44116048 AACTTACATAACTCACATAACTTATATATATCATAACTC
1 AACTTACATAACTTACATAACTTATATATACCATAACTC
44116087 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
44116107 TACATAAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTTACATAACTTATATATACCATAACTC
Found at i:44116099 original size:14 final size:14
Alignment explanation
Indices: 44115992--44116062 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 14
44115982 TTATATATAT
44115992 CATAACTCAACTTA
1 CATAACTCAACTTA
44116006 CATAACTCACATAACTTA
1 CATAACT--C--AACTTA
*
44116024 CATAACTTATA-TATA
1 CATAACTCA-ACT-TA
44116039 CCATAACTCAACTTA
1 -CATAACTCAACTTA
44116054 CATAACTCA
1 CATAACTCA
44116063 CATAACTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
14 18 0.38
15 6 0.13
16 10 0.21
18 13 0.28
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
CATAACTCAACTTA
Found at i:44116113 original size:30 final size:30
Alignment explanation
Indices: 44116057--44116113 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44116047 CAACTTACAT
*
44116057 AACTCACATAACTTATATATATCATAACTC
1 AACTCACATAACTTACATATATCATAACTC
*
44116087 AACTTACATAACTTACATA-ATACATAA
1 AACTCACATAACTTACATATAT-CATAA
44116114 ATATATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (30 bp):
AACTCACATAACTTACATATATCATAACTC
Found at i:44116199 original size:99 final size:102
Alignment explanation
Indices: 44116048--44116241 Score: 299
Period size: 99 Copynumber: 1.9 Consensus size: 102
44116038 ACCATAACTC
44116048 AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACAT-
1 AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACATA
44116112 AA-ATATATATCATATCAT-AGCTTACATAACTCACAT
66 AATATATATATCATATCATAAG-TTACATAACTCACAT
* * * *
44116148 AACTTACATAACTTA-ATAACTTATGTATATCATATCAT-AACTTACATAACTTGCATAATACAT
1 AACTTACATAACTCACATAACTTATATATATCATAAC-TCAACTTACATAACTTACATAATACAT
44116211 AAATATATATATCATATCATAAGTTACATAA
65 AAATATATATATCATATCATAAGTTACATAA
44116242 TTTAATTATA
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
99 43 0.50
100 17 0.20
101 24 0.28
102 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (102 bp):
AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACATA
AATATATATATCATATCATAAGTTACATAACTCACAT
Found at i:44116238 original size:45 final size:46
Alignment explanation
Indices: 44115968--44116241 Score: 207
Period size: 45 Copynumber: 5.9 Consensus size: 46
44115958 AACTCACATA
* * *
44115968 ACATACATA-ATAACTTATATATATCATAAC-TCAACTTACATAACTC
1 ACATA-ATACATAACATATATATATCATATCAT-AACTTACATAACTT
*
44116014 ACATAACTTACATAAC---T-TATAT-ATACCATAAC-T-C--AACTT
1 ACATAA--TACATAACATATATATATCATATCATAACTTACATAACTT
* *
44116053 ACATAACTCACATAACTTATATATATCATAAC-TCAACTTACATAACTT
1 ACATAA-T-ACATAACATATATATATCATATCAT-AACTTACATAACTT
* *
44116101 ACATAATACATAAATATATATCATATCATAGCTTACATAACTCACATAACTT
1 ACATAATACAT-AACATATAT-ATATCATA---T-CATAACTTACATAACTT
* *
44116153 ACATAACTTA-ATAACTTATGTATATCATATCATAACTTACATAACTT
1 ACATAA--TACATAACATATATATATCATATCATAACTTACATAACTT
* *
44116200 GCATAATACATAA-ATATATATATCATATCATAAGTTACATAA
1 ACATAATACATAACATATATATATCATATCATAACTTACATAA
44116242 TTTAATTATA
Statistics
Matches: 187, Mismatches: 16, Indels: 51
0.74 0.06 0.20
Matches are distributed among these distances:
38 1 0.01
39 17 0.09
41 1 0.01
42 2 0.01
43 13 0.07
44 13 0.07
45 31 0.17
46 14 0.07
47 31 0.17
48 25 0.13
51 8 0.04
52 26 0.14
53 3 0.02
54 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.34
Consensus pattern (46 bp):
ACATAATACATAACATATATATATCATATCATAACTTACATAACTT
Found at i:44127089 original size:27 final size:27
Alignment explanation
Indices: 44127055--44127200 Score: 168
Period size: 27 Copynumber: 5.4 Consensus size: 27
44127045 TGGATAAGTT
*
44127055 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
44127082 CTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
44127109 GTAGAATTA-TTACAATACCCTTGTAGG
1 GTAGAATTACCGA-AATACCCCTGTAGG
* *
44127136 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
44127163 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
44127190 GTAAAATTACC
1 GTAGAATTACC
44127201 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:44130177 original size:43 final size:43
Alignment explanation
Indices: 44130113--44130262 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
44130103 CGCTTTTAGT
* *
44130113 AAAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTCTAATA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
* * * *
44130156 AAAGCGTCGCTAAAGGTCATGACCTTTAGCAGCATTTGTGATA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
* * ** * * *
44130199 AAAGCACCGCTAAAGTTCATGTTCTTTAACGATG-TTTTCT-ACA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGC-A-GCATTTCTAATA
*
44130242 AAAGCACCGCTAAAGATCATG
1 AAAGCGCCGCTAAAGATCATG
44130263 TTCTTTAGTG
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
43 83 0.93
44 5 0.06
45 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
Found at i:44131573 original size:58 final size:56
Alignment explanation
Indices: 44131511--44131653 Score: 130
Period size: 58 Copynumber: 2.5 Consensus size: 56
44131501 ATTTTGCTAG
** *
44131511 ATTTAATATTAAATT-TTAAA-TTAATTTAATGTTTATCTTATAGATAAATA-TACTATTA
1 ATTTAATATTAAATTATTAAATTTAACCTAATATTTATC-T-T-GATAAATATTA-TA-TA
**
44131569 ATTTAATAATATTTATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
1 ATTTAAT-AT-TAAATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
* *
44131627 ATTTAATATTAAAGTGATTAAGTTTAA
1 ATTTAATATTAAA-TTATTAAATTTAA
44131654 TTATAATTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
56 2 0.03
57 13 0.19
58 16 0.23
59 12 0.17
60 7 0.10
61 6 0.09
62 14 0.20
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (56 bp):
ATTTAATATTAAATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
Found at i:44131589 original size:21 final size:23
Alignment explanation
Indices: 44131564--44131608 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
44131554 ATAAATATAC
44131564 TATT-AATTTAA-TAATATTTAT
1 TATTAAATTTAACTAATATTTAT
44131585 TATTAAATTTAACCTAATATTTAT
1 TATTAAATTTAA-CTAATATTTAT
44131609 CTTGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
24 10 0.48
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAATTTAACTAATATTTAT
Found at i:44133388 original size:18 final size:18
Alignment explanation
Indices: 44133365--44133402 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
44133355 TCATGTTAAA
44133365 ATTTGATTATGAAATTCT
1 ATTTGATTATGAAATTCT
44133383 ATTTGATTATGAAATTCT
1 ATTTGATTATGAAATTCT
44133401 AT
1 AT
44133403 CGTTTAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTGATTATGAAATTCT
Found at i:44133959 original size:16 final size:16
Alignment explanation
Indices: 44133938--44133972 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44133928 TAGTAATTTT
44133938 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
44133954 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
44133970 AAT
1 AAT
44133973 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:44134857 original size:45 final size:45
Alignment explanation
Indices: 44134639--44134859 Score: 316
Period size: 45 Copynumber: 4.9 Consensus size: 45
44134629 TCATACTGGA
* * *
44134639 AATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCACGATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* * * **
44134684 AACGAGTAAGACCATAGCTTAAAGACGTTAAGGCATCACAATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
*
44134729 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* * *
44134774 AATGAGTAAGACTATAGTTGAAAGACGTTATGGCATCATGATTCT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* *
44134819 AATGAGTAAGACCATAGCTGAAAGACATTATGACATCATGA
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGA
44134860 ATCAGGGGAA
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
Found at i:44134885 original size:90 final size:90
Alignment explanation
Indices: 44134642--44134886 Score: 235
Period size: 90 Copynumber: 2.7 Consensus size: 90
44134632 TACTGGAAAT
* ** * * * * * *
44134642 GAGTAAGACCATAGCTAAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTT-AA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAG-TTGAA
*
44134706 AGACGTTAAGGCATCACAATTTTAAC
65 AGACGTTAAGGCATCACAATTCTAAC
* * * * * * *
44134732 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAATGAGTAAGACTATAGTTGAAA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAGTTGAAA
* ** *
44134797 GACGTTATGGCATCATGATTCTAAT
66 GACGTTAAGGCATCACAATTCTAAC
* *
44134822 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGA-ATCAGGGGAATAATACCAT-GATTGA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCA-AGGAATAAGACCATAG-TTGA
44134885 AA
64 AA
44134887 TACACTATGG
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
89 5 0.04
90 128 0.96
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (90 bp):
GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAGTTGAAA
GACGTTAAGGCATCACAATTCTAAC
Found at i:44136600 original size:21 final size:21
Alignment explanation
Indices: 44136574--44136615 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
44136564 TTTTATGATG
*
44136574 ATTAGAAACATTTGTACATGA
1 ATTAGAAACATTTGTAAATGA
44136595 ATTAGAAACATTTGTAAATGA
1 ATTAGAAACATTTGTAAATGA
44136616 TTTGAGGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTAGAAACATTTGTAAATGA
Found at i:44151499 original size:22 final size:22
Alignment explanation
Indices: 44151456--44151499 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44151446 AGCGGATAAA
*
44151456 CAGAAAGCACAAATGTGCTAAT
1 CAGAAAGCACAAACGTGCTAAT
* * *
44151478 CAGAGAGCACTAACGTGGTAAT
1 CAGAAAGCACAAACGTGCTAAT
44151500 AGCGCACTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (22 bp):
CAGAAAGCACAAACGTGCTAAT
Found at i:44154674 original size:26 final size:26
Alignment explanation
Indices: 44154638--44154699 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
44154628 ACAAATTTTC
*
44154638 TCAAAATTTTACTAAGGGCAGAATCG
1 TCAAAATTTTACTAAGGGCAAAATCG
* *
44154664 TCAAAATTTTACTAAGGGTAAAATTG
1 TCAAAATTTTACTAAGGGCAAAATCG
*
44154690 TTAAAATTTT
1 TCAAAATTTT
44154700 GCTGGGAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAAGGGCAAAATCG
Found at i:44163131 original size:25 final size:26
Alignment explanation
Indices: 44163092--44163159 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
44163082 TTCTTGAAAT
44163092 TTTACTAGGGG-AAAATAGTCAAA-A
1 TTTACTAGGGGTAAAATAGTCAAAGA
* *
44163116 TTTACTAGGGGTAAAATTGTCAAAGT
1 TTTACTAGGGGTAAAATAGTCAAAGA
*
44163142 TTTGCT-GGGGTAAAATAG
1 TTTACTAGGGGTAAAATAG
44163160 AAATGAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.29
25 22 0.58
26 5 0.13
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (26 bp):
TTTACTAGGGGTAAAATAGTCAAAGA
Found at i:44163663 original size:62 final size:62
Alignment explanation
Indices: 44163590--44163714 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
44163580 AAAGATAGAA
44163590 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
1 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
* * * *
44163652 TTTTTGTTTTCACCCCAAAATGAGAGAAACTTTTTTCTAGTTTGGTGTTTCGATCAATTGGT
1 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
44163714 T
1 T
44163715 CGAGCCCACA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (62 bp):
TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
Found at i:44165850 original size:27 final size:27
Alignment explanation
Indices: 44165820--44165997 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44165810 ATATTGAGCC
* * * *
44165820 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44165847 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44165874 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44165902 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44165929 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44165956 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44165983 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44165998 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44165959 original size:82 final size:81
Alignment explanation
Indices: 44165841--44165996 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44165831 TGCTATATAA
* *
44165841 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44165906 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44165923 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44165987 CACTTAGTGC
65 CACTTAGTGC
44165997 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44176101 original size:12 final size:11
Alignment explanation
Indices: 44176079--44176114 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
44176069 ATTTCAAAAG
44176079 TAATATTATTT
1 TAATATTATTT
44176090 TAATATTTATTT
1 TAATA-TTATTT
*
44176102 TGATATTATTT
1 TAATATTATTT
44176113 TA
1 TA
44176115 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TAATATTATTT
Found at i:44184268 original size:14 final size:13
Alignment explanation
Indices: 44184244--44184296 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
44184234 TTTTATGAAT
44184244 TAAAAAATAATTA
1 TAAAAAATAATTA
44184257 TAAAAGAATAATTA
1 TAAAA-AATAATTA
*
44184271 TATTAAAAATAAATCA
1 TA--AAAAAT-AATTA
44184287 TATAAAAATA
1 TA-AAAAATA
44184297 TTTAATATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 5 0.14
14 11 0.31
15 10 0.29
16 9 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
TAAAAAATAATTA
Found at i:44184294 original size:16 final size:14
Alignment explanation
Indices: 44184244--44184294 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
44184234 TTTTATGAAT
44184244 TAAAAAATAAT-TA
1 TAAAAAATAATATA
44184257 TAAAAGAATAATTATA
1 TAAAA-AATAA-TATA
*
44184273 TTAAAAATAAATCATA
1 TAAAAAAT-AAT-ATA
44184289 TAAAAA
1 TAAAAA
44184295 TATTTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 5 0.16
16 16 0.52
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
TAAAAAATAATATA
Found at i:44188071 original size:13 final size:13
Alignment explanation
Indices: 44188053--44188079 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44188043 CTTTTCTATT
44188053 ATTCAATGGGTTA
1 ATTCAATGGGTTA
44188066 ATTCAATGGGTTA
1 ATTCAATGGGTTA
44188079 A
1 A
44188080 CGTCTCAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ATTCAATGGGTTA
Found at i:44199651 original size:31 final size:31
Alignment explanation
Indices: 44199613--44199672 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
44199603 CCTTAAACAC
44199613 AAATATAGTCTTTACAAATAAAAATATAAAA
1 AAATATAGTCTTTACAAATAAAAATATAAAA
44199644 AAATATAGTCTTTACAAATAAAAATATAA
1 AAATATAGTCTTTACAAATAAAAATATAA
44199673 TCTTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (31 bp):
AAATATAGTCTTTACAAATAAAAATATAAAA
Found at i:44199694 original size:13 final size:14
Alignment explanation
Indices: 44199671--44199699 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44199661 ATAAAAATAT
44199671 AATCTTAAATATTA
1 AATCTTAAATATTA
44199685 AATC-TAAATATTA
1 AATCTTAAATATTA
44199698 AA
1 AA
44199700 AATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATCTTAAATATTA
Found at i:44201729 original size:6 final size:6
Alignment explanation
Indices: 44201720--44201751 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44201710 CTTTATCATT
44201720 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
44201752 CGATTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:44213737 original size:26 final size:26
Alignment explanation
Indices: 44213708--44213789 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
44213698 ATACCGCAGT
44213708 TCTTTGTGAGCTTCCT-ATTATATGGC
1 TCTTTGTGAGCTTCCTAATTA-ATGGC
* * *
44213734 TCTTCGTGAACTTCCTGATTAATGGC
1 TCTTTGTGAGCTTCCTAATTAATGGC
*
44213760 TCTTTTTGAGCTTCCTAATTAATGGC
1 TCTTTGTGAGCTTCCTAATTAATGGC
44213786 TCTT
1 TCTT
44213790 CAGGGTTTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 45 0.92
27 4 0.08
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCTAATTAATGGC
Found at i:44213915 original size:24 final size:24
Alignment explanation
Indices: 44213714--44213918 Score: 73
Period size: 24 Copynumber: 8.3 Consensus size: 24
44213704 CAGTTCTTTG
*
44213714 TGAGCTTCCT-ATTATATGGCTCTTCG
1 TGAGCTTCCTGA-T-TATGGCTCTT-A
* *
44213740 TGAACTTCCTGATTAATGGCTCTTTT
1 TGAGCTTCCTGATT-ATGGCTC-TTA
*
44213766 TGAGCTTCCTAATTAATGGCTCTTCA
1 TGAGCTTCCTGATT-ATGGCTCTT-A
* * * * *
44213792 -GGGTTTCCTGATAATGACTCGCT-
1 TGAGCTTCCTGATTATGGCTC-TTA
* * * *
44213815 TGAACTTCCTAATATATAGCTATCTA
1 TGAGCTTCCTGAT-TATGGCTCT-TA
*
44213841 -GAGCTTCCCG-TTAATGGCTCTT-
1 TGAGCTTCCTGATT-ATGGCTCTTA
* * ***
44213863 TGGAGCTACTTG-TTATTGGCTCACG
1 T-GAGCTTCCTGATTA-TGGCTCTTA
44213888 TGAGCTTCCTGATTATGGCTCTTA
1 TGAGCTTCCTGATTATGGCTCTTA
44213912 TGAGCTT
1 TGAGCTT
44213919 TCCGTTATAC
Statistics
Matches: 129, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
23 3 0.02
24 57 0.44
25 29 0.22
26 37 0.29
27 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (24 bp):
TGAGCTTCCTGATTATGGCTCTTA
Found at i:44214700 original size:8 final size:8
Alignment explanation
Indices: 44214687--44214715 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44214677 TAGTTAAGTT
44214687 TGAATACA
1 TGAATACA
44214695 TGAATACA
1 TGAATACA
44214703 TGAATACA
1 TGAATACA
44214711 TGAAT
1 TGAAT
44214716 GTATTCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (8 bp):
TGAATACA
Found at i:44216282 original size:27 final size:27
Alignment explanation
Indices: 44216243--44216311 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
44216233 TGTAATCCTT
** * **
44216243 GTGTTTATTGTCCCAACGATCTACTTC
1 GTGTTTAACGTCCCAACGAACTACCCC
44216270 GTGTTTAACGTCCCAACGAACTACCCC
1 GTGTTTAACGTCCCAACGAACTACCCC
44216297 GTGTTT-ACTGTCCCA
1 GTGTTTAAC-GTCCCA
44216312 GTAGACTACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (27 bp):
GTGTTTAACGTCCCAACGAACTACCCC
Found at i:44223642 original size:24 final size:23
Alignment explanation
Indices: 44223603--44223652 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
44223593 CGAGCACTAA
44223603 TAAAACAGAGAAAGAAAACCTAG
1 TAAAACAGAGAAAGAAAACCTAG
* *
44223626 TAAAACTGAGTAAAGAAAATCTAG
1 TAAAACAGAG-AAAGAAAACCTAG
44223650 TAA
1 TAA
44223653 GCATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.58, C:0.10, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAAACAGAGAAAGAAAACCTAG
Found at i:44225889 original size:13 final size:13
Alignment explanation
Indices: 44225873--44225898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44225863 TTATTTACCG
44225873 AAATTATTATAAT
1 AAATTATTATAAT
44225886 AAATTATTATAAT
1 AAATTATTATAAT
44225899 TATGATTTTG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:44231119 original size:28 final size:27
Alignment explanation
Indices: 44231058--44231237 Score: 270
Period size: 28 Copynumber: 6.6 Consensus size: 27
44231048 ATATTAAGTC
* *
44231058 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
44231085 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
44231113 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
44231140 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
44231168 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
44231196 CGTACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
44231223 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44231238 GCACAATTTA
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
27 64 0.46
28 75 0.54
29 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:44231142 original size:55 final size:55
Alignment explanation
Indices: 44231058--44231237 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
44231048 ATATTAAGTC
* *
44231058 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
44231113 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
* * *
44231168 CGCACACTTAGTGCTACATAGTCAAACTCGTACACTTAGTGCTACATATTCA-ATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCATACT
44231223 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44231238 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 93 0.78
56 26 0.22
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:44231179 original size:83 final size:82
Alignment explanation
Indices: 44231058--44231237 Score: 279
Period size: 83 Copynumber: 2.2 Consensus size: 82
44231048 ATATTAAGTC
* * * *
44231058 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
44231123 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
44231140 CGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTGCTACATAGTCAAACTCGTACACTT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
44231205 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
44231223 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44231238 GCACAATTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 21 0.24
83 68 0.76
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:44232545 original size:24 final size:24
Alignment explanation
Indices: 44232483--44232546 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
44232473 GGGGGGTGAG
* *
44232483 ACCATG-TTATTTTTTTTTTCATC
1 ACCATGCTTATTATTTTTTTAATC
* * *
44232506 ACCCTTCCTT-TCATTTTTTTAATC
1 A-CCATGCTTATTATTTTTTTAATC
44232530 ACCATGCTTATTATTTT
1 ACCATGCTTATTATTTT
44232547 ATTTTTCTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
23 7 0.23
24 21 0.70
25 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (24 bp):
ACCATGCTTATTATTTTTTTAATC
Found at i:44234679 original size:12 final size:12
Alignment explanation
Indices: 44234664--44234692 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44234654 TACTTTCATA
44234664 TATATATATATG
1 TATATATATATG
44234676 TATATATATATG
1 TATATATATATG
44234688 TATAT
1 TATAT
44234693 TATTGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:44243668 original size:14 final size:15
Alignment explanation
Indices: 44243640--44243680 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
44243630 ATAAAAAATG
44243640 AAAGAAGGATAAGAA
1 AAAGAAGGATAAGAA
*
44243655 AAAG-AGGATGAGAA
1 AAAGAAGGATAAGAA
44243669 AGAA-AAGGATAA
1 A-AAGAAGGATAA
44243681 AATACACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.07
Consensus pattern (15 bp):
AAAGAAGGATAAGAA
Found at i:44257253 original size:30 final size:30
Alignment explanation
Indices: 44257219--44257312 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
44257209 TCCATATTTA
* *
44257219 TGGAAAATCAAAGATATGTGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
44257249 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
44257279 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
44257310 TGG
1 TGG
44257313 CATAATAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 52 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:44260492 original size:30 final size:31
Alignment explanation
Indices: 44260456--44260519 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
44260446 GCTTGATGTA
44260456 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
44260486 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
44260517 TGG
1 TGG
44260520 CATAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:44260496 original size:15 final size:16
Alignment explanation
Indices: 44260454--44260504 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
44260444 TAGCTTGATG
44260454 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
44260470 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
44260485 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
44260500 TATGG
1 TATGG
44260505 GTATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:44263247 original size:17 final size:18
Alignment explanation
Indices: 44263214--44263247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44263204 TATTAACACT
*
44263214 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
44263232 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
44263248 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:44264871 original size:50 final size:50
Alignment explanation
Indices: 44264808--44265151 Score: 204
Period size: 50 Copynumber: 6.9 Consensus size: 50
44264798 TGCAATGTCG
* * *
44264808 GGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCACCACCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * ** * *
44264858 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * * *
44264908 GGTAGGCCAGACTCACCGCTATGGCTTTAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * * ** * * ***
44264958 GGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAATTGCAATGTTG
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* *
44265008 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * ** * **
44265058 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTGA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * *
44265108 GGGAGGCCAGATTCACC-ATTGTGGCTTTAATCTGCTCTACTGCA
1 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCA
44265152 CTGGCTGAGA
Statistics
Matches: 206, Mismatches: 87, Indels: 2
0.70 0.29 0.01
Matches are distributed among these distances:
50 206 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
Found at i:44264967 original size:100 final size:99
Alignment explanation
Indices: 44264790--44265543 Score: 704
Period size: 100 Copynumber: 7.6 Consensus size: 99
44264780 AACTTCAATA
* * * *
44264790 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCACCA
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
* *
44264855 CCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTG-TGTAGCTTTAATC
* * * * * * *
44264890 TTTTTAACTGCAATGTCAGGTAGGCCAGACTCACCGCTATGGCTTTAATCTGTTCCACTGCACCG
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
44264955 CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTG-TGTAGCTTTAATC
* * * * *
44264990 TTTTTAATTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
*
44265055 CCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTG-TGTAGCTTTAATC
* * * * * * *
44265090 TTTTTAACTGCAATGT-GAGGGAGGCCAGATTCACCATTGTGGCTTTAATCTGCTCTACTGCACT
1 TTTTTAACTGCAATGTCG-GGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACC
* * *
44265154 GGCTGAGAGAGTGAGATTCGTCACTGTG-A-CTTTAATC
65 GCCTGGGAG-GTAAGATTCG---CTGTGTAGCTTTAATC
* * * * *
44265191 CTTTTAACTGCAATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTA
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAC-C
* *
44265256 G-CTGAGAGAGTGAGATTCGTCACTGTG-A-CTTTAATC
65 GCCTGGGAG-GTAAGATTCG---CTGTGTAGCTTTAATC
* * * * *
44265292 CTTTTAACTGCAATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTA
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAC-C
* *
44265357 G-CTGAGAGAGTGAGATTCGTCACTGTG-A-CTTTAATC
65 GCCTGGGAG-GTAAGATTCG---CTGTGTAGCTTTAATC
* * * * **
44265393 CTTTTAACTGCAATGTCGGGAAAGCAAGA-TCACAGTTGTGGCTTTAATCTACTT-GACTGCATT
1 TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCT-GTTCCACTGCACC
*
44265456 GCCAGGGAGGTAAGATTCGCTGCTGTAGCTTTAA--
65 GCCTGGGAGGTAAGATTCGCTG-TGTAGCTTTAATC
* *
44265490 ----T--CTGTAATGTCGAGG-AAGCAAGATTTACCGTTGTGGCTTTAATCTGTTCC-CTGC
1 TTTTTAACTGCAATGTCG-GGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGC
44265544 TCTTGCAGAT
Statistics
Matches: 582, Mismatches: 57, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
91 24 0.04
92 21 0.04
93 1 0.00
96 3 0.01
97 2 0.00
98 1 0.00
99 17 0.03
100 268 0.46
101 237 0.41
102 3 0.01
103 2 0.00
104 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (99 bp):
TTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
CCTGGGAGGTAAGATTCGCTGTGTAGCTTTAATC
Found at i:44265190 original size:51 final size:51
Alignment explanation
Indices: 44265127--44265392 Score: 211
Period size: 51 Copynumber: 5.3 Consensus size: 51
44265117 GATTCACCAT
*
44265127 TGTGGCTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
1 TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* * * * * ** ** **
44265178 TGTGACTTTAATC--CTTTTAACTGCAATGTCGGA-AAAGCAAGATTCACCGT
1 TGTGACTTTAATCTGC-TCT-ACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* *
44265228 TGTGGCTTTAATCTGCTCTACTGCACTAGCTGAGAGAGTGAGATTCGTCAC
1 TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* * * * * ** ** **
44265279 TGTGACTTTAATC--CTTTTAACTGCAATGTCGGA-AAAGCAAGATTCACCGT
1 TGTGACTTTAATCTGC-TCT-ACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* *
44265329 TGTGGCTTTAATCTGCTCTACTGCACTAGCTGAGAGAGTGAGATTCGTCAC
1 TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
44265380 TGTGACTTTAATC
1 TGTGACTTTAATC
44265393 CTTTTAACTG
Statistics
Matches: 153, Mismatches: 52, Indels: 20
0.68 0.23 0.09
Matches are distributed among these distances:
49 2 0.01
50 68 0.44
51 81 0.53
52 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (51 bp):
TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
Found at i:44265240 original size:50 final size:50
Alignment explanation
Indices: 44264965--44265441 Score: 197
Period size: 50 Copynumber: 9.5 Consensus size: 50
44264955 CCTGGGAGGT
* * * * * * **
44264965 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAATTGCAATGTTGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
* ** * * *
44265015 AAGATTCACCGATGTGGCTTTAAT-CTGTTCCACTGC-ATCGCCTGG-GAAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT-TTTAACTGCAAT-GTC-GGAAAAGC
* * * * ** *
44265065 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGT-GAGGGAGGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCG-GAAAAGC
* * * * * * * *
44265115 CAGATTCACCATTGTGGCTTTAAT-CTGCTCT-ACTGCACTGGCTGAGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT--TTTAACTGCAATGTCGGA-AAAGC
* ** ** *
44265166 GAGATTCGTCACTGTGACTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
* * * * *
44265216 AAGATTCACCGTTGTGGCTTTAAT-CTGCTCT-ACTGCACTAG-CTGAGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT--TTTAACTGCAAT-GTCGGA-AAAGC
* ** ** *
44265267 GAGATTCGTCACTGTGACTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
* * * * *
44265317 AAGATTCACCGTTGTGGCTTTAAT-CTGCTCT-ACTGCACTAG-CTGAGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT--TTTAACTGCAAT-GTCGGA-AAAGC
* ** ** * *
44265368 GAGATTCGTCACTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
*
44265418 AAGA-TCACAGTTGTGGCTTTAATC
1 AAGATTCACCGTTGTGGCTTTAATC
44265442 TACTTGACTG
Statistics
Matches: 301, Mismatches: 99, Indels: 55
0.66 0.22 0.12
Matches are distributed among these distances:
48 1 0.00
49 23 0.08
50 166 0.55
51 105 0.35
52 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
Found at i:44266813 original size:7 final size:7
Alignment explanation
Indices: 44266796--44266864 Score: 67
Period size: 6 Copynumber: 10.1 Consensus size: 7
44266786 TTAGCCTCTC
44266796 CATTTTT
1 CATTTTT
44266803 -ATTTTT
1 CATTTTT
44266809 CA-TTTT
1 CATTTTT
44266815 CATTTTT
1 CATTTTT
*
44266822 C-CTTTT
1 CATTTTT
44266828 C-TTTTT
1 CATTTTT
44266834 CA-TTTT
1 CATTTTT
44266840 CACTTTTTT
1 CA--TTTTT
44266849 CATTTTT
1 CATTTTT
44266856 CATGTTTT
1 CAT-TTTT
44266864 C
1 C
44266865 TGACTCAGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
6 28 0.53
7 14 0.26
8 5 0.09
9 6 0.11
ACGTcount: A:0.12, C:0.17, G:0.01, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:44266820 original size:19 final size:19
Alignment explanation
Indices: 44266796--44266854 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
44266786 TTAGCCTCTC
44266796 CATTTTTATTTTTCATTTT
1 CATTTTTATTTTTCATTTT
** *
44266815 CATTTTTCCTTTTCTTTTT
1 CATTTTTATTTTTCATTTT
*
44266834 CATTTTCACTTTTTTCATTTT
1 CATTTTTA--TTTTTCATTTT
44266855 TCATGTTTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 22 0.71
21 9 0.29
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (19 bp):
CATTTTTATTTTTCATTTT
Found at i:44266832 original size:25 final size:26
Alignment explanation
Indices: 44266799--44266847 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
44266789 GCCTCTCCAT
44266799 TTTTATTTTTCATTTTCA-TTTTTCC
1 TTTTATTTTTCATTTTCACTTTTTCC
*
44266824 TTTTCTTTTTCATTTTCACTTTTT
1 TTTTATTTTTCATTTTCACTTTTT
44266848 TCATTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTATTTTTCATTTTCACTTTTTCC
Found at i:44266863 original size:16 final size:15
Alignment explanation
Indices: 44266804--44266854 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
44266794 TCCATTTTTA
44266804 TTTTTCATTTTCA--
1 TTTTTCATTTTCACT
*
44266817 TTTTTCCTTTT--C-
1 TTTTTCATTTTCACT
44266829 TTTTTCATTTTCACT
1 TTTTTCATTTTCACT
44266844 TTTTTCATTTT
1 TTTTTCATTTT
44266855 TCATGTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 1 0.03
15 11 0.34
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATTTTCACT
Found at i:44268196 original size:19 final size:19
Alignment explanation
Indices: 44268172--44268209 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44268162 CTCTAGAGGT
44268172 CACTAATGTATGAAGAATA
1 CACTAATGTATGAAGAATA
44268191 CACTAATGTATGAAGAATA
1 CACTAATGTATGAAGAATA
44268210 ATCAAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTAATGTATGAAGAATA
Found at i:44268599 original size:17 final size:18
Alignment explanation
Indices: 44268566--44268599 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44268556 TATTAACACT
*
44268566 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
44268584 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
44268600 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:44271948 original size:212 final size:203
Alignment explanation
Indices: 44271590--44271977 Score: 578
Period size: 212 Copynumber: 1.9 Consensus size: 203
44271580 TTACATAAAA
*
44271590 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCATTAAATT
1 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCACTAAATT
* *
44271655 TATTTTTAGTATGAGTAATTAAACTTTTAAGGGGATTGGTTGATGTAGATGTGGTGAGCTAATTT
66 TATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTGAGCTAATTT
* *
44271720 TTGGATGAGAGACCAAATCATAATAAATTGGGCTAATTTGAATGAATACCTAGGCAAGTGAGATC
131 TTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAATACCTAGGCAAGTGAGATC
44271785 GAGAGAAG
196 GAGAGAAG
* * *
44271793 ATCCCAACTTTTATATTTTTCTCAAGCTTTTCTTTAATGGCTTCCATGTTATGCATTTTTATGTT
1 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCC-----ATG----TTTATGTT
* * * *
44271858 CACTAACTTTATTTTTAGTATGAGTAACTATACTTTTCAGGGGGTTGGTTGATGGAGATGTGGTG
57 CACTAAATTTATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTG
*
44271923 AGCTAATTTTTGGATGAGAGACCAAATCGTAAAAAATTGGACTAATTTGAATGAA
122 AGCTAATTTTTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAA
44271978 CCTAAAAACT
Statistics
Matches: 163, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
203 42 0.26
208 3 0.02
212 118 0.72
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (203 bp):
ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCACTAAATT
TATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTGAGCTAATTT
TTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAATACCTAGGCAAGTGAGATC
GAGAGAAG
Found at i:44275281 original size:13 final size:13
Alignment explanation
Indices: 44275222--44275281 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
44275212 GAAAAAATGC
*
44275222 ATAATAAAATAAA
1 ATAAAAAAATAAA
*
44275235 ATAAAAGAATAAA
1 ATAAAAAAATAAA
*
44275248 TCTAGAAAATAA-AAA
1 -ATA-AAAA-AATAAA
44275263 AT-AAAAAATAAA
1 ATAAAAAAATAAA
44275275 ATAAAAA
1 ATAAAAA
44275282 TAAAAATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 15 0.41
14 3 0.08
15 6 0.16
16 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:44286578 original size:8 final size:9
Alignment explanation
Indices: 44286554--44286579 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44286544 GAAAACTATA
44286554 GTGTTTTTG
1 GTGTTTTTG
44286563 GTGTTTTTG
1 GTGTTTTTG
44286572 GTGTTTTT
1 GTGTTTTT
44286580 TCTTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (9 bp):
GTGTTTTTG
Found at i:44296059 original size:41 final size:41
Alignment explanation
Indices: 44296014--44296113 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 41
44296004 TATGGATACT
44296014 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
1 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
*
44296055 CCACAGCTCGTGTGAGCAGCATCATGTCGCTACGTTGTGAC
1 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
44296096 CCACAGCTCGTGTGAGCA
1 CCACAGCTCGTGTGAGCA
44296114 TACCGATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (41 bp):
CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
Found at i:44296128 original size:25 final size:25
Alignment explanation
Indices: 44296098--44296191 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
44296088 GTTGTGACCC
*
44296098 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCAATTT
* *
44296123 ATAGCTCGTGAT-AGCATACCAATCT
1 ACAGCTCGTG-TGAGCATACCAATTT
* * *
44296148 ACAGCTCGAGTGAGCATACCCATTC
1 ACAGCTCGTGTGAGCATACCAATTT
*
44296173 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
44296192 ATGTACATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCAATTT
Found at i:44299228 original size:19 final size:19
Alignment explanation
Indices: 44299190--44299229 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44299180 AAAATATCAT
* *
44299190 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
44299209 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
44299228 AT
1 AT
44299230 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:44300612 original size:61 final size:61
Alignment explanation
Indices: 44300533--44300652 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
44300523 TAAACTTAAA
* * *
44300533 ATTAAATTTAATATAATATTTATCTTGATAGTATTTTATTAACTCT-ATATTAATGTGAGAT
1 ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAA-TCTAATATTAATATGAGAT
* * *
44300594 ATTAAATTTGATTTAATATTTATCTTAATAATATTTTATTAATTTAATATTAATATGAG
1 ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAATCTAATATTAATATGAG
44300653 TAATTTCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.04
61 50 0.96
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (61 bp):
ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAATCTAATATTAATATGAGAT
Found at i:44300641 original size:16 final size:17
Alignment explanation
Indices: 44300604--44300649 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
44300594 ATTAAATTTG
*
44300604 ATTTAATATTTATCTTA
1 ATTTAATATTTATATTA
44300621 A--TAATATTT-TATTA
1 ATTTAATATTTATATTA
*
44300635 ATTTAATATTAATAT
1 ATTTAATATTTATAT
44300650 GAGTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 7 0.29
17 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:44302614 original size:26 final size:26
Alignment explanation
Indices: 44302585--44302639 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
44302575 AACACACCAA
*
44302585 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAATAATAG
*
44302611 TATCGCAGCGAAGCTGCCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAATAG
44302637 TAT
1 TAT
44302640 ATGTGGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAATAG
Found at i:44302836 original size:27 final size:27
Alignment explanation
Indices: 44302798--44302889 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
44302788 ACATAAGGCC
* * *
44302798 ATAACGGTCATTTCATCTTCTGGAGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
*
44302825 ATAACAGTCATTTTATCTTATGGGGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
**
44302852 ATTTCGGTCATTTTATCTTATGGGGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
**
44302879 ATTTCGGTCAT
1 ATAACGGTCAT
44302890 CTTACCCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (27 bp):
ATAACGGTCATTTTATCTTATGGGGGT
Found at i:44302889 original size:54 final size:54
Alignment explanation
Indices: 44302802--44302972 Score: 153
Period size: 54 Copynumber: 3.2 Consensus size: 54
44302792 AAGGCCATAA
* * * ** * *
44302802 CGGTCATTTCATCTTCTGGAGGTATAACAGTCATTTTATCTTATGGGGGTATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* * * *
44302856 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGAGGATATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* * * * * * * *
44302910 CAGTCATTTTACCCTATGAGGGCATTTTGGTCATTCTACCTTATGGCGGTATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* *
44302964 TGATCATTT
1 CGGTCATTT
44302973 ATTGATCACT
Statistics
Matches: 91, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
Found at i:44302900 original size:27 final size:27
Alignment explanation
Indices: 44302831--44302972 Score: 140
Period size: 27 Copynumber: 5.3 Consensus size: 27
44302821 AGGTATAACA
* *
44302831 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
44302858 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
44302885 GTCATCTTACCCTATGAGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
44302912 GTCATTTTACCCTATGAGGGCATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
44302939 GTCATTCTACCTTATGGCGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
44302966 ATCATTT
1 GTCATTT
44302973 ATTGATCACT
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:44305564 original size:69 final size:69
Alignment explanation
Indices: 44305491--44305645 Score: 265
Period size: 69 Copynumber: 2.2 Consensus size: 69
44305481 TCCATAGCTG
* *
44305491 AGCTATGGTCTTATACCCTACAATCCTAGTGTTTACTATCTTGGAAGACTCTTTTGGTTGCCATA
1 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
44305556 ACCA
66 ACCA
*
44305560 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTGTCCTGGAAGACTCTTTTGGTTGCCATA
1 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
*
44305625 ATCA
66 ACCA
*
44305629 GGCTATGGTCTTATACC
1 AGCTATGGTCTTATACC
44305646 TTATACCTCT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (69 bp):
AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
ACCA
Found at i:44307757 original size:89 final size:90
Alignment explanation
Indices: 44307604--44307984 Score: 285
Period size: 90 Copynumber: 4.3 Consensus size: 90
44307594 TTTAATTGCA
* * * *
44307604 AAAACTGGTGGTTTAT-C--CAAACTTACTGGC-AACTTTTATCTGCAAACTTGTTGTGTATGT-
1 AAAACTGGTGGTTCATCCATCAAACTTACT-GCTAGCTTTTATCTACAAACCTGTTGTGTAT-TC
* *
44307664 ACAACTACTGACAACGTATTAACTTGC
64 ACAACTACTGACAATGTATTAACCTGC
* * *
44307691 AAAACTGGTGGTTTATCCA-CAAACTTATTGCTAGTTTTTATCTACAAACCTGTTGTGTATTCAC
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
* * *
44307755 AACTACTAATAGTGTATTAACCTGC
66 AACTACTGACAATGTATTAACCTGC
* * * * *** * * *
44307780 AACATTAGTGGTTCATCCATGATTTTTACTGGTAGTTTTTATCTACAAA-CTCGTTTTGTATTCA
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCT-GTTGTGTATTCA
* * *
44307844 CAACTAATGGCAATGTATTAACCTAC
65 CAACTACTGACAATGTATTAACCTGC
* * * *** * ** *
44307870 AATACCGGTGGTTCATCCATGATTTTTACTGGTAGCTTTTATCTACAAACCCATTGTGTACTCAC
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
* ** *
44307935 AACTAGTGGTAGTGTATTAACCTG-
66 AACTACTGACAATGTATTAACCTGC
* * *
44307959 AAATATTGTTAGTTCATCCA-CAAACT
1 AAA-ACTGGTGGTTCATCCATCAAACT
44307985 AGAGTGTCTG
Statistics
Matches: 237, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
87 16 0.07
88 4 0.02
89 76 0.32
90 140 0.59
91 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (90 bp):
AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
AACTACTGACAATGTATTAACCTGC
Found at i:44307861 original size:90 final size:89
Alignment explanation
Indices: 44307722--44307958 Score: 312
Period size: 90 Copynumber: 2.6 Consensus size: 89
44307712 AACTTATTGC
* ** **
44307722 TAGTTTTTATCTACAAACCTGTTGTGTATTCACAACTACTAATAGTGTATTAACCTGCAACATTA
1 TAGTTTTTATCTACAAACC-GTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCA
44307787 GTGGTTCATCCATGATTTTTACTGG
65 GTGGTTCATCCATGATTTTTACTGG
* * * * * *
44307812 TAGTTTTTATCTACAAACTCGTTTTGTATTCACAACTAATGGCAATGTATTAACCTACAATACCG
1 TAGTTTTTATCTACAAAC-CGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCA
44307877 GTGGTTCATCCATGATTTTTACTGG
65 GTGGTTCATCCATGATTTTTACTGG
* * * *
44307902 TAGCTTTTATCTACAAACCCATTGTGTACTCACAACTAGTGGTAGTGTATTAACCTG
1 TAGTTTTTATCTACAAA-CCGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTG
44307959 AAATATTGTT
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
90 124 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (89 bp):
TAGTTTTTATCTACAAACCGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCAG
TGGTTCATCCATGATTTTTACTGG
Done.