Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 40 of 295
Found at i:11756163 original size:29 final size:30
Alignment explanation
Indices: 11756131--11756191 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
11756121 TAGTAATAGT
11756131 AAAATTATAATTT-A-TTCTTAAAAATGATA
1 AAAATT-TAATTTAATTTCTTAAAAATGATA
* * *
11756160 AAAATTTGATTTAATTTTTTAAAAATTATA
1 AAAATTTAATTTAATTTCTTAAAAATGATA
11756190 AA
1 AA
11756192 GATATAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 7 0.26
30 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (30 bp):
AAAATTTAATTTAATTTCTTAAAAATGATA
Found at i:11761125 original size:40 final size:40
Alignment explanation
Indices: 11761079--11761161 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
11761069 AAAATGAATT
11761079 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
1 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
11761119 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
1 TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
11761159 TAA
1 TAA
11761162 TTATTTTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (40 bp):
TAAAAAATATAATACATCAAATACACTAAAAATATTAAAA
Found at i:11761397 original size:25 final size:22
Alignment explanation
Indices: 11761346--11761388 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11761336 TAAAATGGCA
*
11761346 AAAAATGGCAACAAAACAACAT
1 AAAAATAGCAACAAAACAACAT
*
11761368 AAAAATAGCAGCAAAACAACA
1 AAAAATAGCAACAAAACAACA
11761389 ATGGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAATAGCAACAAAACAACAT
Found at i:11762367 original size:16 final size:16
Alignment explanation
Indices: 11762345--11762382 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11762335 AATTATATTC
11762345 AATAATTTTATAGATT
1 AATAATTTTATAGATT
* *
11762361 TATAATTTTATTGATT
1 AATAATTTTATAGATT
11762377 AATAAT
1 AATAAT
11762383 ATATTATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
AATAATTTTATAGATT
Found at i:11763915 original size:11 final size:11
Alignment explanation
Indices: 11763901--11763943 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
11763891 AGTTAAAAAT
11763901 TATTTTATTAA
1 TATTTTATTAA
11763912 TATTTTACTT-A
1 TATTTTA-TTAA
*
11763923 TATGTTTATTAT
1 TAT-TTTATTAA
11763935 TATTTTATT
1 TATTTTATT
11763944 TAGGAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:11764741 original size:18 final size:19
Alignment explanation
Indices: 11764718--11764754 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11764708 GATATGATAC
*
11764718 TAAAAT-TATTAAAAAAAT
1 TAAAATATATAAAAAAAAT
11764736 TAAAATATATAAAAAAAAT
1 TAAAATATATAAAAAAAAT
11764755 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATATAAAAAAAAT
Found at i:11765043 original size:22 final size:21
Alignment explanation
Indices: 11765008--11765090 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 21
11764998 AAAAGGTATC
* *
11765008 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11765029 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11765052 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11765071 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
11765089 TA
1 TA
11765091 TATCATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11765051 original size:23 final size:22
Alignment explanation
Indices: 11765008--11765065 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11764998 AAAAGGTATC
* *
11765008 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11765029 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11765052 TGCATATCATATCT
1 TACAAATCATATCT
11765066 AAGATTGCAA
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:11765068 original size:19 final size:19
Alignment explanation
Indices: 11765044--11765134 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
11765034 AATCATATCT
11765044 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11765063 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11765081 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
*
11765098 TCTATGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11765117 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11765135 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 15 0.22
19 37 0.55
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11765117 original size:54 final size:53
Alignment explanation
Indices: 11765044--11765146 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
11765034 AATCATATCT
*
11765044 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCTAAGATTATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT-T-GAAGATTATATCATA
*
11765098 TCTATGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
11765147 TTCCATATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 10 0.22
54 31 0.67
55 5 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (53 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATATCATA
Found at i:11765299 original size:22 final size:22
Alignment explanation
Indices: 11765261--11765302 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11765251 CGTTTATTTT
*
11765261 TTTATTTTTATTTTTTTTGGGG
1 TTTATTTTTATTATTTTTGGGG
11765283 TTTATTATTT-TTATTTTTGG
1 TTTATT-TTTATTATTTTTGG
11765303 ACTTATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (22 bp):
TTTATTTTTATTATTTTTGGGG
Found at i:11770563 original size:23 final size:23
Alignment explanation
Indices: 11770533--11770580 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11770523 GTGCTCTAAT
* *
11770533 AAAAAAATAT-AAATACTTAATTA
1 AAAAAAAT-TCAAAAACTAAATTA
11770556 AAAAAAATTCAAAAACTAAATTA
1 AAAAAAATTCAAAAACTAAATTA
11770579 AA
1 AA
11770581 CATTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAAATTCAAAAACTAAATTA
Found at i:11774943 original size:4 final size:4
Alignment explanation
Indices: 11774934--11774959 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11774924 ACACAAGTGT
11774934 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
11774960 TGTACGTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:11781442 original size:22 final size:22
Alignment explanation
Indices: 11781417--11781462 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11781407 TGCATAAGAA
11781417 TATATCACATACCTGGCCAACT
1 TATATCACATACCTGGCCAACT
11781439 TATATCACATACCTGGCCAACT
1 TATATCACATACCTGGCCAACT
11781461 TA
1 TA
11781463 ATGCATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (22 bp):
TATATCACATACCTGGCCAACT
Found at i:11781745 original size:26 final size:26
Alignment explanation
Indices: 11781716--11781775 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
11781706 TCCCTTTGAA
* * *
11781716 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
11781742 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
11781770 CCATTC
1 TCATTC
11781776 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:11781761 original size:28 final size:28
Alignment explanation
Indices: 11781730--11781801 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
11781720 TCGATATTTT
*
11781730 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
11781758 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
11781786 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
11781802 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:11786792 original size:57 final size:57
Alignment explanation
Indices: 11786733--11787088 Score: 561
Period size: 57 Copynumber: 6.2 Consensus size: 57
11786723 TCTCATTTCA
* * * *
11786733 CACACTCAGTGCCTCAACAACCGATCTCGCACACACAATGCTCGGTTACGAAAATCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
11786790 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCAGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
11786847 CACACACAGTGCCTCAACAACCGATCTCGTACACACAGTGCTCGGTTAC-AGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
*
11786904 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* *
11786961 CACACACAGTGCCTCAACAACCGATCTCGTACACACAGTGCTCAGTTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
11787018 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
11787075 CACACATAGTGCCT
1 CACACACAGTGCCT
11787089 ATGTTCACTT
Statistics
Matches: 275, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
57 275 1.00
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:11787700 original size:45 final size:45
Alignment explanation
Indices: 11787627--11787721 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
11787617 TACTTACTCA
*
11787627 ACTTTACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
* *
11787672 ACTTAACAACCCTATACATGCCATAGACTCGAAACACTAAGATTT
1 ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
11787717 ACTTA
1 ACTTA
11787722 CGCCGATAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.24
Consensus pattern (45 bp):
ACTTAACAACCCTACACATGCCAAAGACTCGAAACACTAAGATTT
Found at i:11792333 original size:40 final size:40
Alignment explanation
Indices: 11792289--11792431 Score: 227
Period size: 39 Copynumber: 3.6 Consensus size: 40
11792279 TAACTTACGA
*
11792289 ACCTTAAGTCTGGATTATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
* *
11792329 ACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTACGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
*
11792368 ACCTTAAGTCC-GAATATAATTCCAGCATATAGCCTGCGG
1 ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
*
11792407 ACCTTAAATCCGGATTATAATTCCA
1 ACCTTAAGTCCGGATTATAATTCCA
11792432 AATATCATGC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 2 0.02
39 67 0.71
40 25 0.27
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
ACCTTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGG
Found at i:11800678 original size:17 final size:18
Alignment explanation
Indices: 11800656--11800695 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11800646 CCTGGGTGTG
*
11800656 TGGGCC-ACACGGGCGTA
1 TGGGCCTACACGGACGTA
*
11800673 TGGGCCTACACGGACGTG
1 TGGGCCTACACGGACGTA
11800691 TGGGC
1 TGGGC
11800696 TCATATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.15, C:0.28, G:0.42, T:0.15
Consensus pattern (18 bp):
TGGGCCTACACGGACGTA
Found at i:11803000 original size:122 final size:121
Alignment explanation
Indices: 11802776--11803021 Score: 411
Period size: 122 Copynumber: 2.0 Consensus size: 121
11802766 ATTATTTGAT
* * *
11802776 TCTGACTTTGTTTCTGTAAGGACTTAGGTTCGAATCTGTATCTGTTCTACATACGAGAATTTTGT
1 TCTGACTTTGTTTCTGTAAGGACTTACGTCCGAATCTGTATCTGTTCTACATACGAGAATTTTAT
* *
11802841 GTTTATTTGTATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAGACTCACA
66 GTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
*
11802897 TCTGACATTTGTTTCTGTAAGGACTTACGTCCGAATCTGTATCTGTTCTGCATACGAGAATTTTA
1 TCTGAC-TTTGTTTCTGTAAGGACTTACGTCCGAATCTGTATCTGTTCTACATACGAGAATTTTA
* *
11802962 TGTTTGTTTGCATGACTATCTCTGTTGGGTTACGCACTGAGTTTACGAAAACTCACA
65 TGTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
11803019 TCT
1 TCT
11803022 ATTTGTCTGT
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
121 6 0.05
122 110 0.95
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (121 bp):
TCTGACTTTGTTTCTGTAAGGACTTACGTCCGAATCTGTATCTGTTCTACATACGAGAATTTTAT
GTTTATTTGCATGACTATCTCTGTTGGGTTACACACTGAGTTTACGAAAACTCACA
Found at i:11803781 original size:20 final size:20
Alignment explanation
Indices: 11803740--11803783 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11803730 AGTTAGAAAC
* *
11803740 TGAAACTTCTAAAATATTTT
1 TGAAAATTCTAAAATATATT
11803760 TGAAAATTCTAATAA-ATATT
1 TGAAAATTCTAA-AATATATT
11803780 TGAA
1 TGAA
11803784 GTATAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TGAAAATTCTAAAATATATT
Found at i:11808502 original size:27 final size:27
Alignment explanation
Indices: 11808450--11808502 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
11808440 AGATAATATC
* *
11808450 TTTAATAAAATTTATAAATTATTTTTA
1 TTTAATAAAATCTATAAATTAGTTTTA
*
11808477 TTTAATAAAATACTATTAA-TAGTTTT
1 TTTAATAAAAT-CTATAAATTAGTTTT
11808503 TTATGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAATAAAATCTATAAATTAGTTTTA
Found at i:11812461 original size:146 final size:142
Alignment explanation
Indices: 11812278--11812551 Score: 329
Period size: 145 Copynumber: 1.9 Consensus size: 142
11812268 AACAAACAAT
* * * * *
11812278 AACAAAAAAAAAAGGTTGATCTCCGTACTTCAAAACATTTTAATTAAGTCCTCAAAATAT-GAGT
1 AACAAAAAAAAAAGGGTGATCCCCGTACTTCAAAACATTCTAATTAAGTCCTCAAAAT-TCAAGC
* * *
11812342 TAATTGATTAATATGATATTGATGCTTT-AAGAACTCAATCAGAA-GATTATGAAATTTAAGGAC
65 TAA-CG-TTAATATGATACTGATGCTTTCAAGAACTCAATCAAAACG-TTATGAAATTTAAGGAC
11812405 CAATAAATTAACAAGA
127 CAATAAATTAACAAGA
* * *
11812421 AACAACAACAAAAAAGGGTGATCCCCATTACTTCATAACATTCTAATTAAGTGCTCAAAATTCAA
1 AACAA-AA-AAAAAAGGGTGATCCCC-GTACTTCAAAACATTCTAATTAAGTCCTCAAAATTCAA
* * * *
11812486 GCTAACGTTAATATGATACTGATGCTTTCGAGGACTTAATCAAAACGTTATGAAATTTAGGGACC
63 GCTAACGTTAATATGATACTGATGCTTTCAAGAACTCAATCAAAACGTTATGAAATTTAAGGACC
11812551 A
128 A
11812552 GAAAGAAGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
143 5 0.05
144 22 0.20
145 47 0.43
146 36 0.33
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (142 bp):
AACAAAAAAAAAAGGGTGATCCCCGTACTTCAAAACATTCTAATTAAGTCCTCAAAATTCAAGCT
AACGTTAATATGATACTGATGCTTTCAAGAACTCAATCAAAACGTTATGAAATTTAAGGACCAAT
AAATTAACAAGA
Found at i:11813460 original size:29 final size:33
Alignment explanation
Indices: 11813398--11813460 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
11813388 GATCTAAACT
*
11813398 AATGGTTCGATTAGAATATTAATTAACCAAATTG
1 AATGGTTCGATTAGAATATAAATTAA-CAAATTG
11813432 AATGGTTCGATTA-AA-A-AAATTAA-AAATTG
1 AATGGTTCGATTAGAATATAAATTAACAAATTG
11813461 GAAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 6 0.21
31 6 0.21
32 1 0.04
33 2 0.07
34 13 0.46
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.33
Consensus pattern (33 bp):
AATGGTTCGATTAGAATATAAATTAACAAATTG
Found at i:11818006 original size:24 final size:24
Alignment explanation
Indices: 11817974--11818021 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11817964 AATGCAATCC
11817974 AACTCTTAATACTAAGGCTTCCGT
1 AACTCTTAATACTAAGGCTTCCGT
11817998 AACTCTTAATACTAAGGCTTCCGT
1 AACTCTTAATACTAAGGCTTCCGT
11818022 GGTAGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (24 bp):
AACTCTTAATACTAAGGCTTCCGT
Found at i:11818648 original size:23 final size:23
Alignment explanation
Indices: 11818562--11818649 Score: 59
Period size: 23 Copynumber: 3.6 Consensus size: 23
11818552 CATCTTTTGA
* *
11818562 CCAAAACAACAAAAACCCAGAAA
1 CCAAAACATCAAAAACCCAGAAT
* * *
11818585 CCAAAACATCTAAAGATCAAGAATT
1 CCAAAACATC-AAAAACCCAGAA-T
* * *
11818610 AGACTAAAATACCAAAAACCCAGAAT
1 ---CCAAAACATCAAAAACCCAGAAT
11818636 CCAAAACATCAAAA
1 CCAAAACATCAAAA
11818650 TAAGATAATA
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
23 20 0.43
24 9 0.20
26 1 0.02
27 9 0.20
28 7 0.15
ACGTcount: A:0.59, C:0.25, G:0.06, T:0.10
Consensus pattern (23 bp):
CCAAAACATCAAAAACCCAGAAT
Found at i:11821021 original size:19 final size:19
Alignment explanation
Indices: 11820999--11821046 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
11820989 ATATTAAATG
*
11820999 TAAAAATGTGATTTTTTAA
1 TAAAAATGTGATTTTTAAA
11821018 TAAAAAT-T-ATTTTTAAA
1 TAAAAATGTGATTTTTAAA
*
11821035 GATAAAATGTGA
1 TA-AAAATGTGA
11821047 AATTGATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 8 0.33
20 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (19 bp):
TAAAAATGTGATTTTTAAA
Found at i:11821333 original size:18 final size:17
Alignment explanation
Indices: 11821272--11821333 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
11821262 TAAAGAGTGA
11821272 AAAGTAAAAGTTTAGGGG
1 AAAGTAAAAGTTTA-GGG
* *
11821290 TAAAATAAAAAGTTT-TGG
1 -AAAGT-AAAAGTTTAGGG
*
11821308 AGAGTAAAAGTTTGAGGG
1 AAAGTAAAAGTTT-AGGG
11821326 AAAGTAAA
1 AAAGTAAA
11821334 TAGGGAGAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 11 0.32
19 4 0.12
20 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGTAAAAGTTTAGGG
Found at i:11821444 original size:30 final size:29
Alignment explanation
Indices: 11821410--11821467 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
11821400 CGGGGTGGGA
* *
11821410 TGGGAAGAAAGTAAAAGTTTTGGGGGAAAG
1 TGGG-AGAAAGTAAAAATTTAGGGGGAAAG
**
11821440 TGGGAGGGAGTAAAAATTTAGGGGGAAA
1 TGGGAGAAAGTAAAAATTTAGGGGGAAA
11821468 ATAAAAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.41, T:0.19
Consensus pattern (29 bp):
TGGGAGAAAGTAAAAATTTAGGGGGAAAG
Found at i:11830023 original size:20 final size:18
Alignment explanation
Indices: 11829989--11830029 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
11829979 ATTTGATTAC
*
11829989 TAAAATATTATTTTTTAA
1 TAAAATATTATTTTTAAA
11830007 TAAAATATTAAATTTTTAAA
1 TAAAATATT--ATTTTTAAA
11830027 TAA
1 TAA
11830030 GGTAGTCCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATATTATTTTTAAA
Found at i:11830024 original size:19 final size:18
Alignment explanation
Indices: 11829989--11830025 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11829979 ATTTGATTAC
*
11829989 TAAAATATTATTTTTTAA
1 TAAAATATTAATTTTTAA
11830007 TAAAATATTAAATTTTTAA
1 TAAAATATT-AATTTTTAA
11830026 ATAAGGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATATTAATTTTTAA
Found at i:11837615 original size:18 final size:19
Alignment explanation
Indices: 11837572--11837617 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11837562 TAGCGTATAG
*
11837572 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
11837591 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
11837609 GTAATAATA
1 GTAATAATA
11837618 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:11837754 original size:11 final size:11
Alignment explanation
Indices: 11837740--11837831 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
11837730 TATTAAAAGC
*
11837740 ATATGCATAAT
1 ATATACATAAT
11837751 ATATACATAAT
1 ATATACATAAT
* *
11837762 ATACAAAACAAAAT
1 AT---ATACATAAT
*
11837776 ATACACATAAT
1 ATATACATAAT
11837787 ATATTA-A-AAT
1 ATA-TACATAAT
11837797 ATATACAT-A-
1 ATATACATAAT
*
11837806 ATATACATAAA
1 ATATACATAAT
*
11837817 ATATATAT-AT
1 ATATACATAAT
11837827 ATATA
1 ATATA
11837832 ATGTTTAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
9 10 0.15
10 15 0.23
11 30 0.46
12 1 0.02
14 9 0.14
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.33
Consensus pattern (11 bp):
ATATACATAAT
Found at i:11837777 original size:23 final size:22
Alignment explanation
Indices: 11837751--11837831 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 22
11837741 TATGCATAAT
11837751 ATATACATAATATACAAAACAAA
1 ATATACATAATATACAAAA-AAA
** *
11837774 ATATACACATAATATA-TTAAAAT
1 ATAT--ACATAATATACAAAAAAA
* *
11837797 ATATACATAATATACATAAAAT
1 ATATACATAATATACAAAAAAA
*
11837819 ATATATAT-ATATA
1 ATATACATAATATA
11837832 ATGTTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 15 0.30
22 13 0.26
23 10 0.20
24 2 0.04
25 10 0.20
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATACATAATATACAAAAAAA
Found at i:11837797 original size:21 final size:22
Alignment explanation
Indices: 11837748--11837821 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 22
11837738 GCATATGCAT
* *
11837748 AATATATACATAATATACAAAACAA
1 AATATACACATAATATAC---ATAA
*
11837773 AATATACACATAATATA-TTAA
1 AATATACACATAATATACATAA
*
11837794 AATATATACATAATATACATAA
1 AATATACACATAATATACATAA
11837816 AATATA
1 AATATA
11837822 TATATATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 18 0.42
22 9 0.21
25 16 0.37
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AATATACACATAATATACATAA
Found at i:11840646 original size:7 final size:7
Alignment explanation
Indices: 11840630--11840668 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
11840620 TGATAATGCG
*
11840630 TGATAGA
1 TGATAAA
11840637 TGATAAA
1 TGATAAA
11840644 TGATAAA
1 TGATAAA
*
11840651 TGATGAA
1 TGATAAA
*
11840658 TGATGAA
1 TGATAAA
11840665 TGAT
1 TGAT
11840669 GCGAATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (7 bp):
TGATAAA
Found at i:11841849 original size:16 final size:17
Alignment explanation
Indices: 11841818--11841850 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11841808 TTCATAAGTA
11841818 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
*
11841835 TATATTAAT-ATTTCAT
1 TATATCAATCATTTCAT
11841851 GCTCTATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:11842196 original size:46 final size:46
Alignment explanation
Indices: 11842131--11842538 Score: 500
Period size: 46 Copynumber: 8.9 Consensus size: 46
11842121 TTATCTTTGA
* * * * * * *
11842131 CATGATGCCATAGTGTCTTTCGACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *** *
11842177 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
* ** ** * **
11842223 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
11842268 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
11842314 CCTGTTGCCATGGTATCTTTTAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
11842360 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * *
11842406 CCTGTTGCCATGGTGTCTTTCAACCATGGTCTTACATA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
11842452 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
*
11842498 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
11842539 CATTTCAGAA
Statistics
Matches: 318, Mismatches: 38, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
45 45 0.14
46 267 0.84
47 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:11842392 original size:92 final size:92
Alignment explanation
Indices: 11842136--11842541 Score: 557
Period size: 92 Copynumber: 4.4 Consensus size: 92
11842126 TTTGACATGA
* * * * * * *
11842136 TGCCATAGTGTCTTTCGACTATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
*** * * * *
11842200 CCATGGTCTTGTTCATTTCATGTTAC-AT
65 CCATGGTCTTACACATTTTAT-ATCCTGT
** ***
11842228 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
11842292 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
*
11842319 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
11842384 CATGGTCTTACACATTTTATATCCTGT
66 CATGGTCTTACACATTTTATATCCTGT
* *
11842411 TGCCATGGTGTCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
11842476 CATGGTCTTACACATTTTATATCATGT
66 CATGGTCTTACACATTTTATATCCTGT
*
11842503 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
11842542 TTCAGAAAGC
Statistics
Matches: 286, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
90 5 0.02
91 72 0.25
92 209 0.73
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTTATATCCTGT
Found at i:11846165 original size:20 final size:20
Alignment explanation
Indices: 11846140--11846179 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11846130 TGGAAATAGG
11846140 AAAAGAGAGAATAATCCAAT
1 AAAAGAGAGAATAATCCAAT
*
11846160 AAAAGAGAGAATAATTCAAT
1 AAAAGAGAGAATAATCCAAT
11846180 TCCAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.15, T:0.17
Consensus pattern (20 bp):
AAAAGAGAGAATAATCCAAT
Found at i:11846303 original size:14 final size:14
Alignment explanation
Indices: 11846284--11846317 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11846274 CTAATTTAAT
11846284 AAAATAAAAACAAA
1 AAAATAAAAACAAA
*
11846298 AAAATAAAAATAAA
1 AAAATAAAAACAAA
*
11846312 ATAATA
1 AAAATA
11846318 TTTTCCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAAAACAAA
Found at i:11846997 original size:45 final size:45
Alignment explanation
Indices: 11846945--11847197 Score: 235
Period size: 45 Copynumber: 5.6 Consensus size: 45
11846935 TAATTTCAAC
* *
11846945 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGTCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCT-ATCTTCAGT
* * * ** **
11846990 CTACTCCATTGCAACTTTAGGGAGATAAGACTTGCTA-CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGT
** *
11847034 CTGCTTTACTGCAACTTCAGAGAGATAAGGTTTGCTATCTTC-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAG-T
** * * * * * *
11847079 CTATTCCGCTGTAACTTCAGAGAGAT-AGGATATGTTATCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGCTATCTTCAGT
* * * *
11847124 TTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGT
11847169 CTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
11847198 ACATGCTACT
Statistics
Matches: 161, Mismatches: 41, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
44 36 0.22
45 122 0.76
46 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGT
Found at i:11847097 original size:179 final size:177
Alignment explanation
Indices: 11846701--11847237 Score: 536
Period size: 179 Copynumber: 3.0 Consensus size: 177
11846691 TTTTAGGGAA
* *
11846701 AAGAGATTTGTAGCTTCGATCTACTCTGCTGAAACTTCAAGGAGATAAGAATTGGTAATTTCAAT
1 AAGAGATTTGTAGCTTCGATCTATTCCGCTGAAACTTCAAGGAGATAAG-ATTGGTAATTTCAAT
* * * *
11846766 CTGCTCCACTGCAACTTTAGGG-GAATAAGGTTTGTGTATTTTTA-TCCTGCTCTACTACAACTT
65 CTGCTCCACTGCAACTTCAGGGAG-ATAAGGTTTGTG-ATCTTTAGT-CTGCTCCACTGCAACTT
* ** * * * * * *
11846829 TAGAGAGATAAGGA-TTG-TGGTTTCGATCTGCTCTAATGTAATTTCAG-GTAG
127 TAGGGAGATAA-GACTTGCT-ACTTCAACCTGCTTTACTGCAACTTCAGAG-AG
* * * *
11846880 AAGAGATTTGTAGCTTTGATATACTT-CGCTGGAACTTCAAGGAGGTAAGAGTTGGTAATTTCAA
1 AAGAGATTTGTAGCTTCGATCTA-TTCCGCTGAAACTTCAAGGAGATAAGA-TTGGTAATTTCAA
* * * *
11846944 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGTCTTTAGTCTACTCCATTGCAACTTTA
64 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTTAGTCTGCTCCACTGCAACTTTA
11847009 GGGAGATAAGACTTGCTACTTCAACCTGCTTTACTGCAACTTCAGAGAG
129 GGGAGATAAGACTTGCTACTTCAACCTGCTTTACTGCAACTTCAGAGAG
* * * * *
11847058 ATA-AGGTTTGCTATCTTCGATCTATTCCGCTGTAACTTC-AGAGAGATAGGATAT-GTTATCTT
1 A-AGAGATTTG-TAGCTTCGATCTATTCCGCTGAAACTTCAAG-GAGATAAGAT-TGGTAAT-TT
* * * * *
11847120 CAATTTGCTCCACTACAACTTCAGGGAGATAAGATCTGCT-ATCTTCAGTCTGCTCCACTGCAAC
61 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGATCTTTAGTCTGCTCCACTGCAAC
* * * *
11847184 TTCAGGGAGATAAGACATGCTACTTTAACCTGCTTTACTACAACTTCAGAGAG
125 TTTAGGGAGATAAGACTTGCTACTTCAACCTGCTTTACTGCAACTTCAGAGAG
11847237 A
1 A
11847238 CTGTCTTCAG
Statistics
Matches: 300, Mismatches: 44, Indels: 28
0.81 0.12 0.08
Matches are distributed among these distances:
177 2 0.01
178 70 0.23
179 225 0.75
180 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (177 bp):
AAGAGATTTGTAGCTTCGATCTATTCCGCTGAAACTTCAAGGAGATAAGATTGGTAATTTCAATC
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTTAGTCTGCTCCACTGCAACTTTAGG
GAGATAAGACTTGCTACTTCAACCTGCTTTACTGCAACTTCAGAGAG
Found at i:11847185 original size:90 final size:89
Alignment explanation
Indices: 11846912--11847237 Score: 316
Period size: 89 Copynumber: 3.6 Consensus size: 89
11846902 ACTTCGCTGG
* * * * *
11846912 AACTTCAAGGAGGTAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT
* * *
11846977 TG-TGGTCTTTAGTCTACTCCATTGC
65 TGCT-ATCTTCAGTCTACTCCACTGC
* ** *
11847002 AACTTTAGGGAGATAAGACTTGCTACTTCAACCTGCTTTACTGCAACTTCAGAGAGATAAGGTTT
1 AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT
* * *
11847067 GCTATCTTC-GATCTATTCCGCTGT
66 GCTATCTTCAG-TCTACTCCACTGC
* * * ** * *
11847091 AACTTCAGAGAGATAGGA-TATGTTATCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGAT
1 AACTTCAGGGAGATAAGACT-TGCTA-CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGT
* *
11847155 CTGCTATCTTCAGTCTGCTCCACTGC
64 TTGCTATCTTCAGTCTACTCCACTGC
* * ** * *
11847181 AACTTCAGGGAGATAAGACATGCTACTTTAACCTGCTTTACTACAACTTCAGAGAGA
1 AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
11847238 CTGTCTTCAG
Statistics
Matches: 189, Mismatches: 41, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
88 2 0.01
89 96 0.51
90 90 0.48
91 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (89 bp):
AACTTCAGGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT
GCTATCTTCAGTCTACTCCACTGC
Found at i:11847419 original size:10 final size:9
Alignment explanation
Indices: 11847402--11847447 Score: 58
Period size: 10 Copynumber: 5.0 Consensus size: 9
11847392 TACTAATTTT
11847402 AAAAAATAA
1 AAAAAATAA
11847411 AATAAAATAA
1 AA-AAAATAA
11847421 AAATAAATAA
1 AAA-AAATAA
*
11847431 AAACAA-AA
1 AAAAAATAA
11847439 AAAAAATAA
1 AAAAAATAA
11847448 TATCTTCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.22
9 7 0.22
10 18 0.56
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:11847424 original size:16 final size:16
Alignment explanation
Indices: 11847403--11847447 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
11847393 ACTAATTTTA
*
11847403 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAC
11847419 AAAAAT-AAATAAAAAC
1 AAAAATAAAAT-AAAAC
*
11847435 AAAAAAAAAATAA
1 AAAAATAAAATAA
11847448 TATCTTCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAATAAAATAAAAC
Found at i:11847438 original size:21 final size:20
Alignment explanation
Indices: 11847405--11847447 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
11847395 TAATTTTAAA
* *
11847405 AAATAAAATAAAATAAAAAT
1 AAATAAAACAAAAAAAAAAT
11847425 AAATAAAAACAAAAAAAAAAT
1 AAAT-AAAACAAAAAAAAAAT
11847446 AA
1 AA
11847448 TATCTTCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (20 bp):
AAATAAAACAAAAAAAAAAT
Found at i:11849317 original size:26 final size:26
Alignment explanation
Indices: 11849281--11849330 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
11849271 TGGATGACTC
*
11849281 TCTACCTTGTATCGCCCAACTGGTTT
1 TCTACCTTGTATCACCCAACTGGTTT
11849307 TCTACCTTGTATCACCCAACTGGT
1 TCTACCTTGTATCACCCAACTGGT
11849331 AGCATCTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (26 bp):
TCTACCTTGTATCACCCAACTGGTTT
Found at i:11853869 original size:29 final size:29
Alignment explanation
Indices: 11853789--11853869 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
11853779 GAAGAGGTGG
**
11853789 AGAACTTGTTTGTTGAGT-ATTCGCGATGA
1 AGAACTTGTTCATTGA-TAATTCGCGATGA
* * *
11853818 AGACCTTGTTCATTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGATAATTCGCGATGA
11853847 AGAACTTGTTCATTGATAATTCG
1 AGAACTTGTTCATTGATAATTCG
11853870 TGTCAAGGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (29 bp):
AGAACTTGTTCATTGATAATTCGCGATGA
Found at i:11854834 original size:17 final size:16
Alignment explanation
Indices: 11854808--11854843 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
11854798 AAAACATTGC
*
11854808 CATAAAGTGTTAAGGT
1 CATAAAGTGTGAAGGT
11854824 CATATAAGTGTGAAGGT
1 CATA-AAGTGTGAAGGT
11854841 CAT
1 CAT
11854844 GGTATCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (16 bp):
CATAAAGTGTGAAGGT
Found at i:11870025 original size:9 final size:8
Alignment explanation
Indices: 11870010--11870034 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11870000 TCTTAAAGTT
11870010 TAAAAAAA
1 TAAAAAAA
11870018 TAAAAAAA
1 TAAAAAAA
11870026 TAAAAAAA
1 TAAAAAAA
11870034 T
1 T
11870035 TTAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:11870040 original size:16 final size:16
Alignment explanation
Indices: 11870010--11870066 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
11870000 TCTTAAAGTT
*
11870010 TAAAAAAATAAAAAAA
1 TAAAAAAATATAAAAA
*
11870026 TAAAAAAATTTAAAAA
1 TAAAAAAATATAAAAA
11870042 TCTAAAAAAAGTAT--AAA
1 --TAAAAAAA-TATAAAAA
11870059 TAAAAAAA
1 TAAAAAAA
11870067 CTAAAGCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 8 0.23
16 14 0.40
17 3 0.09
18 8 0.23
19 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (16 bp):
TAAAAAAATATAAAAA
Found at i:11872167 original size:39 final size:39
Alignment explanation
Indices: 11872113--11872192 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
11872103 TTACAATCAC
11872113 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
1 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
*
11872152 TAACATTCACCTAGCTTGTTTAACCTCTGCTAACTCTTG
1 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
11872191 TA
1 TA
11872193 CCCTTGCTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (39 bp):
TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
Found at i:11874053 original size:18 final size:18
Alignment explanation
Indices: 11874020--11874054 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11874010 TAATGTTCCA
* *
11874020 CTTATTATTATTTATTAT
1 CTTATTATCATATATTAT
11874038 CTTATTATCATATATTA
1 CTTATTATCATATATTA
11874055 CTCGCGTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
CTTATTATCATATATTAT
Found at i:11878091 original size:17 final size:17
Alignment explanation
Indices: 11878066--11878102 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11878056 TGAGACACAC
*
11878066 TCCATAGAGTAGTTTTG
1 TCCACAGAGTAGTTTTG
11878083 TCCACAGAGTAGTTTTG
1 TCCACAGAGTAGTTTTG
11878100 TCC
1 TCC
11878103 TCAAGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (17 bp):
TCCACAGAGTAGTTTTG
Found at i:11879604 original size:13 final size:13
Alignment explanation
Indices: 11879573--11879614 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
11879563 CTTTGCCTAC
*
11879573 TTATTTTTTTATTT
1 TTATTTTATTA-TT
11879587 GTTATTTTATTATT
1 -TTATTTTATTATT
11879601 TTATTTTATTATT
1 TTATTTTATTATT
11879614 T
1 T
11879615 CCATCACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 14 0.54
14 2 0.08
15 10 0.38
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:11880653 original size:21 final size:21
Alignment explanation
Indices: 11880624--11880672 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11880614 AGATATTGAA
* *
11880624 GAAAGTAGTTTGTGAAATAAT
1 GAAAATAGTTTGCGAAATAAT
*
11880645 GAAAATAGTTTGCGAATTAAT
1 GAAAATAGTTTGCGAAATAAT
11880666 GAAAATA
1 GAAAATA
11880673 AAGGACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (21 bp):
GAAAATAGTTTGCGAAATAAT
Found at i:11886670 original size:137 final size:137
Alignment explanation
Indices: 11886507--11886942 Score: 696
Period size: 137 Copynumber: 3.2 Consensus size: 137
11886497 CGGCCAAGAT
*
11886507 AAAGTGTATATATGAGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
11886572 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
11886637 GAATGTG
131 GAATGTG
11886644 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
*
11886709 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
66 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
11886774 GAATGTG
131 GAATGTG
11886781 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G----TATGTGAT
* * * * * * *
11886846 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAA
60 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
* *
11886909 CGTGATGGATGTG
125 TGTGATGAATGTG
*
11886922 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
11886943 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
137 185 0.66
139 1 0.00
141 53 0.19
143 41 0.15
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (137 bp):
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTG
Found at i:11886677 original size:47 final size:47
Alignment explanation
Indices: 11886507--11886942 Score: 599
Period size: 47 Copynumber: 9.4 Consensus size: 47
11886497 CGGCCAAGAT
* *
11886507 AAAGTGTATATATGAGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
11886554 AAA--G----TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
11886595 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
11886644 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
11886691 AAA--G----TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
11886732 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
11886781 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
11886828 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * *
11886875 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
11886922 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
11886943 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
41 73 0.21
43 2 0.01
45 2 0.01
47 189 0.54
49 81 0.23
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:11895613 original size:79 final size:79
Alignment explanation
Indices: 11895463--11895691 Score: 293
Period size: 79 Copynumber: 2.9 Consensus size: 79
11895453 GTCACATCTT
* * * *
11895463 ATGTAACTGTAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCT-GCCACCTTAAGTTATCATA
1 ATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
*
11895526 AGGAATCATATATC
66 ATGAATCATATATC
* *
11895540 GTGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCATA
1 ATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
11895605 ATGAATCATATATC
66 ATGAATCATATATC
* ** * ** *
11895619 ATGGAACCGTAGCGAATCTA-GATTACTGTTTTCAGGTAAAATCCTATCTGCCTTAAGTTACCGT
1 ATGTAACCGTAGCGAATC-AGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
11895683 AGTGAATCA
65 AATGAATCA
11895692 CGAATAAATC
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 22 0.17
78 19 0.14
79 90 0.68
80 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (79 bp):
ATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
ATGAATCATATATC
Found at i:11895772 original size:40 final size:40
Alignment explanation
Indices: 11895657--11895833 Score: 167
Period size: 40 Copynumber: 4.4 Consensus size: 40
11895647 TTTTCAGGTA
** * * * * *
11895657 AAATCCTATCTGCCTTAAGTTACCGTAGTGAATCACGAAT
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
* * *
11895697 AAATCCCATTCACTTTAAATTA-CAGTAGTGAATCAGGAAT
1 AAATCCTATCCACTTTAAATTACCA-TAGTGAATCAGGAAC
*
11895737 AAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAAC
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
* * ** ***
11895777 AAAACCTATCCACTTTGAGGTATTTTAGTGAATCAGGAAC
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
*
11895817 GAATCCTATCCACTTTA
1 AAATCCTATCCACTTTA
11895834 TATTCTCGAA
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 111 0.97
41 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (40 bp):
AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
Found at i:11896825 original size:18 final size:18
Alignment explanation
Indices: 11896795--11896872 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
11896785 CAGTCAGTCA
*
11896795 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAGTTAT
* *
11896813 TCAATAATAATCATTTAT
1 TCAGTAATAATCAGTTAT
* * *
11896831 TCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTAT
11896849 TCAGTAATAATCAGTTAT
1 TCAGTAATAATCAGTTAT
11896867 TCAGTA
1 TCAGTA
11896873 CCTTTATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:11897225 original size:16 final size:15
Alignment explanation
Indices: 11897204--11897260 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
11897194 AACTTTCAGT
11897204 TTTCAATCAGTATATA
1 TTTCAATCAG-ATATA
11897220 TTTCAATTATCAGATATA
1 TTTC-A--ATCAGATATA
11897238 TTCTCAATTCA-ATATA
1 TT-TCAA-TCAGATATA
11897254 TTTCAAT
1 TTTCAAT
11897261 TCACTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 12 0.33
17 4 0.11
18 8 0.22
19 7 0.19
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.46
Consensus pattern (15 bp):
TTTCAATCAGATATA
Found at i:11897244 original size:19 final size:18
Alignment explanation
Indices: 11897209--11897261 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
11897199 TCAGTTTTCA
11897209 ATCAGTATATATTTCAATT
1 ATCAG-ATATATTTCAATT
11897228 ATCAGATATATTCTCAA-T
1 ATCAGATATATT-TCAATT
11897246 -TCA-ATATATTTCAATT
1 ATCAGATATATTTCAATT
11897262 CACTTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.12
16 8 0.25
17 3 0.09
18 8 0.25
19 9 0.28
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (18 bp):
ATCAGATATATTTCAATT
Found at i:11900352 original size:11 final size:10
Alignment explanation
Indices: 11900336--11900369 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
11900326 TTATATATTA
11900336 AATAAATTAAT
1 AATAAA-TAAT
11900347 AATAAAATAAT
1 AAT-AAATAAT
11900358 AATAAATAAT
1 AATAAATAAT
11900368 AA
1 AA
11900370 AATATCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:11902977 original size:14 final size:13
Alignment explanation
Indices: 11902949--11902985 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
11902939 ATCCTGGAAT
11902949 ATTAA-AACAATA
1 ATTAAGAACAATA
11902961 ATTAAGAACACATA
1 ATTAAGAACA-ATA
11902975 ATTAAGAACAA
1 ATTAAGAACAA
11902986 ATCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:11904113 original size:10 final size:10
Alignment explanation
Indices: 11904094--11904125 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11904084 TTTTAGGATT
11904094 TTAT-TTTAA
1 TTATCTTTAA
11904103 TTATCTTTAA
1 TTATCTTTAA
11904113 TTATCTTTAA
1 TTATCTTTAA
11904123 TTA
1 TTA
11904126 AATGTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:11905817 original size:45 final size:45
Alignment explanation
Indices: 11905721--11905817 Score: 176
Period size: 45 Copynumber: 2.2 Consensus size: 45
11905711 AATAATGGGT
* *
11905721 TAAGGGAAAATCAATGATTGGGTTGTTAGGCTCAAGGGGGTTCAC
1 TAAGGGTAAATCAATAATTGGGTTGTTAGGCTCAAGGGGGTTCAC
11905766 TAAGGGTAAATCAATAATTGGGTTGTTAGGCTCAAGGGGGTTCAC
1 TAAGGGTAAATCAATAATTGGGTTGTTAGGCTCAAGGGGGTTCAC
11905811 TAAGGGT
1 TAAGGGT
11905818 TAATTGTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.28
Consensus pattern (45 bp):
TAAGGGTAAATCAATAATTGGGTTGTTAGGCTCAAGGGGGTTCAC
Found at i:11907504 original size:21 final size:21
Alignment explanation
Indices: 11907479--11907520 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11907469 TTTCTCCATT
11907479 AGGTTCAGAGGTGGCAATCCG
1 AGGTTCAGAGGTGGCAATCCG
11907500 AGGTTCAGAGGTGGCAATCCG
1 AGGTTCAGAGGTGGCAATCCG
11907521 TATGGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.38, T:0.19
Consensus pattern (21 bp):
AGGTTCAGAGGTGGCAATCCG
Found at i:11907990 original size:30 final size:30
Alignment explanation
Indices: 11907956--11908015 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
11907946 ACTTAATAAG
11907956 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
11907986 CAAATTCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
11908016 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:11912557 original size:44 final size:44
Alignment explanation
Indices: 11912494--11912579 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
11912484 ATCAAATTAG
11912494 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
1 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
11912538 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAAC
1 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAAC
11912580 ACACTTCGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (44 bp):
AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
Found at i:11912676 original size:15 final size:15
Alignment explanation
Indices: 11912628--11912711 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
11912618 CAAAGATAAC
*
11912628 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
11912642 AAGAAA-TCAAAGATA
1 AAGAAACCCAGA-ATA
*
11912657 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
**
11912672 AAGAAATACAGAATA
1 AAGAAACCCAGAATA
* * *
11912687 AAGAGATCCAGGATA
1 AAGAAACCCAGAATA
11912702 AAGAAACCCA
1 AAGAAACCCA
11912712 AGATACGATA
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 43 0.80
16 3 0.06
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:11917257 original size:4 final size:4
Alignment explanation
Indices: 11917248--11917275 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
11917238 TTTGAATGTA
11917248 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
11917276 CTATATTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:11917592 original size:13 final size:13
Alignment explanation
Indices: 11917574--11917599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11917564 GCCATTCGGG
11917574 TGCAAGGGAGGCA
1 TGCAAGGGAGGCA
11917587 TGCAAGGGAGGCA
1 TGCAAGGGAGGCA
11917600 GTCCTCGGGC
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:0.31, C:0.15, G:0.46, T:0.08
Consensus pattern (13 bp):
TGCAAGGGAGGCA
Found at i:11918048 original size:44 final size:42
Alignment explanation
Indices: 11917968--11918124 Score: 125
Period size: 44 Copynumber: 3.6 Consensus size: 42
11917958 TGCATTCAAC
** * * *
11917968 CTACTGCAACTTTAGGAGGATAAGAATTGTCACTTCAATCTTCT
1 CTACTGCAACTCCAGGA-GATAAG-ATTATTACTTCAATCTGCT
* *
11918012 CTACTGCAACTTCAGGTAGATAAGATTATTAGCTTCAGTCTGCT
1 CTACTGCAACTCCAGG-AGATAAGATTATTA-CTTCAATCTGCT
* * * * ***
11918056 CCACTACAACTCCAGGGAAAGAAGATCCGTATCTTCAATCTGCT
1 CTACTGCAACTCCA-GGAGATAAGATTATTA-CTTCAATCTGCT
11918100 CTACTGCAACTCCAGAGAGATAAGA
1 CTACTGCAACTCCAG-GAGATAAGA
11918125 CTTGTAACTT
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
43 6 0.07
44 81 0.90
45 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
CTACTGCAACTCCAGGAGATAAGATTATTACTTCAATCTGCT
Found at i:11918209 original size:33 final size:33
Alignment explanation
Indices: 11918167--11918232 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
11918157 AAACTTCAGG
11918167 GAAATAAGATTCACATCTTCAATCTGCTCCACT
1 GAAATAAGATTCACATCTTCAATCTGCTCCACT
11918200 GAAATAAGATTCACATCTTCAATCTGCTCCACT
1 GAAATAAGATTCACATCTTCAATCTGCTCCACT
11918233 ACAACTTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (33 bp):
GAAATAAGATTCACATCTTCAATCTGCTCCACT
Found at i:11918330 original size:44 final size:44
Alignment explanation
Indices: 11918282--11918632 Score: 249
Period size: 44 Copynumber: 8.0 Consensus size: 44
11918272 ATAAAACTTG
* * *
11918282 TAACTTCAACCTGCTCTACTGCAACTTCAAGGAGATAAGGTTTA
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
* *** * ** *
11918326 TAACTTTAATCTGCTTTGCTGTAA-TTTTAGAGAGATAAGATTTCC
1 TAACTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTT-A
* * * * * *
11918371 TATCTTCAATCTGCTCTACTGCATCTTCAGGGGGATAAGATTTG
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
* * * *
11918415 TAACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGGTTTA
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
** * * ** * * * *
11918459 TAGTTTTAATCCGCT-TTCTACAATTTCAAAGAGATAAGATTTGC
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTT-A
* * * * * *
11918503 TATCTTTAATCTGCTCCACTGCATCTTCAGGGAGATAGGATTTG
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
* * *
11918547 TAACTTTAATCTGCTCCACTGCAAC-TCTAGGGAGATAAGATTAA
1 TAACTTCAATCTGCTCCACTGCAACTTC-AAGGAGATAAGATTTA
** * *
11918591 TGGCTTCAATATGCTCCATTGCAACTTCAAGGAGATAAGATT
1 TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
11918633 CGCCATAGTC
Statistics
Matches: 237, Mismatches: 63, Indels: 14
0.75 0.20 0.04
Matches are distributed among these distances:
43 26 0.11
44 158 0.67
45 50 0.21
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTA
Found at i:11918545 original size:132 final size:133
Alignment explanation
Indices: 11918279--11918585 Score: 436
Period size: 132 Copynumber: 2.3 Consensus size: 133
11918269 GATATAAAAC
* * * * *
11918279 TTGTAACTTCAACCTGCTCTACTGCAACTTCAAGGAGATAAGGTTTATAACTTTAATCTGCTTTG
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCCGCTTTG
** * * * *
11918344 CTGTAATTTTAGAGAGATAAGATTTCCTATCTTCAATCTGCTCTACTGCATCTTCAGGGGGATAA
66 CTACAATTTCAAAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAA
11918409 GAT
131 GAT
* **
11918412 TTGTAACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGGTTTATAGTTTTAATCCGCTTT-
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCCGCTTTG
* * *
11918476 CTACAATTTCAAAGAGATAAGATTTGCTATCTTTAATCTGCTCCACTGCATCTTCAGGGAGATAG
66 CTACAATTTCAAAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAA
11918541 GAT
131 GAT
* *
11918544 TTGTAACTTTAATCTGCTCCACTGCAACTCTAGGGAGATAAG
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAG
11918586 ATTAATGGCT
Statistics
Matches: 154, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 98 0.64
133 56 0.36
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (133 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCCGCTTTG
CTACAATTTCAAAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAA
GAT
Found at i:11924788 original size:12 final size:12
Alignment explanation
Indices: 11924771--11924796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11924761 TTCCCATATT
11924771 AATGAACTTTTC
1 AATGAACTTTTC
11924783 AATGAACTTTTC
1 AATGAACTTTTC
11924795 AA
1 AA
11924797 ATGCGATGCA
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
AATGAACTTTTC
Found at i:11926325 original size:19 final size:20
Alignment explanation
Indices: 11926309--11926353 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11926299 TTATGAAACT
*
11926309 TAATGCATATG-ATGAAATA
1 TAATGCAGATGAATGAAATA
11926328 TAATGCAGATGAATGAAATA
1 TAATGCAGATGAATGAAATA
11926348 -AATGCA
1 TAATGCA
11926354 AAAAGAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATA
Found at i:11927764 original size:86 final size:86
Alignment explanation
Indices: 11927674--11927846 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
11927664 TGGTGTAGCC
11927674 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACATTTTCTACCTTCCAA
1 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACATTTTCTACCTTCCAA
11927739 AAGTAGCTATAGAACCATGCT
66 AAGTAGCTATAGAACCATGCT
*
11927760 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
1 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACATTTTCTACCTTCCAA
11927825 AAGTAGCTATAGAACCATGCT
66 AAGTAGCTATAGAACCATGCT
11927846 A
1 A
11927847 ACAAAAGTTG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (86 bp):
ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACATTTTCTACCTTCCAA
AAGTAGCTATAGAACCATGCT
Found at i:11930442 original size:12 final size:11
Alignment explanation
Indices: 11930415--11930459 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
11930405 TATAAAAAGG
*
11930415 ATAAAAAATA-
1 ATAAATAATAT
11930425 ATAAATAGATAT
1 ATAAATA-ATAT
11930437 ATAAATAA-AT
1 ATAAATAATAT
11930447 A-AAATAATAT
1 ATAAATAATAT
11930457 ATA
1 ATA
11930460 TGAAATCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.20
10 12 0.40
11 5 0.17
12 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:11933259 original size:102 final size:103
Alignment explanation
Indices: 11933085--11933292 Score: 251
Period size: 102 Copynumber: 2.0 Consensus size: 103
11933075 AAAATGAGCA
*
11933085 TTCTTATTTTCAGGGATTCGAGACTCATACCCTAACTTACGGGACATGATTCTCTTCCCAATTAA
1 TTCTTATTTTCAGGGATTCGAGACTCATACCCTAACTTACAGGACATGATTCTCTTCCCAATTAA
*
11933150 CTCAAAATATGAAG-A-TATCATAAAATTTGATTTAAT
66 CTCAAAATACGAAGAATTATCATAAAATTTGATTTAAT
* * * * * * * * *
11933186 TTCTTATTTTCGGGGATTCGAGACATCGTTCCTTAATTTACAAGG-CGTGATTTTCTTCTCGATT
1 TTCTTATTTTCAGGGATTCGAGAC-TCATACCCTAACTTAC-AGGACATGATTCTCTTCCCAATT
*
11933250 AACTCAAAATACGAAGACATTTTTCATAAAATTTGATTTAAT
64 AACTCAAAATACGAAGA-A-TTATCATAAAATTTGATTTAAT
11933292 T
1 T
11933293 AGCGATATTT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
101 23 0.26
102 42 0.47
103 2 0.02
104 1 0.01
106 21 0.24
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (103 bp):
TTCTTATTTTCAGGGATTCGAGACTCATACCCTAACTTACAGGACATGATTCTCTTCCCAATTAA
CTCAAAATACGAAGAATTATCATAAAATTTGATTTAAT
Found at i:11937803 original size:20 final size:21
Alignment explanation
Indices: 11937780--11937823 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11937770 TCGTTATTTA
*
11937780 TTTTATCTTTTTA-ATTTAAT
1 TTTTATCTTTTTAGAATTAAT
*
11937800 TTTTATTTTTTTAGAATTAAT
1 TTTTATCTTTTTAGAATTAAT
11937821 TTT
1 TTT
11937824 AAGTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATCTTTTTAGAATTAAT
Found at i:11937830 original size:22 final size:20
Alignment explanation
Indices: 11937787--11937839 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
11937777 TTATTTTATC
* *
11937787 TTTTTAATTTAATTTTTATT
1 TTTTTAAATTAATTTTAATT
11937807 TTTTTAGAATTAATTTTAAGTT
1 TTTTTA-AATTAATTTTAA-TT
11937829 TTCTTTAAATT
1 TT-TTTAAATT
11937840 GGGAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 8 0.29
23 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTAAATTAATTTTAATT
Found at i:11937975 original size:21 final size:21
Alignment explanation
Indices: 11937942--11937989 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11937932 CTTGTAACAG
*
11937942 CGAAAAACTTGAAATTTTATA
1 CGAAAAACCTGAAATTTTATA
* *
11937963 CGAAATACCTGAATTTTTATA
1 CGAAAAACCTGAAATTTTATA
11937984 -GAAAAA
1 CGAAAAA
11937990 GTTTGGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (21 bp):
CGAAAAACCTGAAATTTTATA
Found at i:11939626 original size:29 final size:29
Alignment explanation
Indices: 11939584--11939650 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
11939574 TATAAAGATC
* * *
11939584 AGATCAAATTAGTTCTTTTACTATT-AAA
1 AGATCAATTTAGTTCATGTACTATTGAAA
11939612 TAGATCAATTTAGTTCATGTACTATTGAAA
1 -AGATCAATTTAGTTCATGTACTATTGAAA
*
11939642 AAATCAATT
1 AGATCAATT
11939651 GAGGTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (29 bp):
AGATCAATTTAGTTCATGTACTATTGAAA
Found at i:11940354 original size:11 final size:11
Alignment explanation
Indices: 11940338--11940363 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11940328 CAATTAACCT
11940338 GTTAGCTGTTA
1 GTTAGCTGTTA
11940349 GTTAGCTGTTA
1 GTTAGCTGTTA
11940360 GTTA
1 GTTA
11940364 ATCTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.27, T:0.46
Consensus pattern (11 bp):
GTTAGCTGTTA
Found at i:11945530 original size:30 final size:29
Alignment explanation
Indices: 11945496--11945563 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
11945486 ATTAATAAAA
* *
11945496 AAATTACATTTTGACCCCTAAACTTTCTTT
1 AAATTACATTTAGACCCCTAAAC-TTCCTT
* * *
11945526 AAATTTCACTTAGACCCTTAAACTTCCTT
1 AAATTACATTTAGACCCCTAAACTTCCTT
11945555 AAATTACAT
1 AAATTACAT
11945564 CTTAACTCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
AAATTACATTTAGACCCCTAAACTTCCTT
Found at i:11945831 original size:15 final size:15
Alignment explanation
Indices: 11945811--11945844 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11945801 AAAAAAGAGC
11945811 AAAAAATTCCAACAA
1 AAAAAATTCCAACAA
*
11945826 AAAAAATTCCAGCAA
1 AAAAAATTCCAACAA
11945841 AAAA
1 AAAA
11945845 TTTTTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.18, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAAAATTCCAACAA
Found at i:11957842 original size:72 final size:72
Alignment explanation
Indices: 11957639--11958147 Score: 529
Period size: 72 Copynumber: 7.1 Consensus size: 72
11957629 TTTTACTTCC
* *
11957639 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
*
11957704 AATTTAT
66 AATTTCT
* * *
11957711 GTTTTCAAAATTCAACTCATTTTGCGAG--A--AGTTGAGCTTCAAGACACGTTGAGGTAATTTT
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
11957772 AATTTCT
66 AATTTCT
* * * *
11957779 GTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCTTCAAGACACGTTGAGGTAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
11957844 AATTTCT
66 AATTTCT
*
11957851 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT-ATTTT
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
11957915 CAATTTCT
66 -AATTTCT
* * *
11957923 GTTTTTCAAACAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
1 G-TTTT----C--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* *
11957988 T-A-TGT-CTTTC-
59 TAATTTTAATTTCT
**** * ** *
11957998 --AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
11958061 AATTTCT
66 AATTTCT
* * * *** * *
11958068 GTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT-AT
1 GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTAAT
*
11958132 TTTCAATTTCC
63 TTT-AATTTCT
11958143 GTTTT
1 GTTTT
11958148 TCAATTTCTA
Statistics
Matches: 379, Mismatches: 36, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
66 48 0.13
67 1 0.00
68 64 0.17
69 4 0.01
70 2 0.01
71 4 0.01
72 128 0.34
73 43 0.11
74 5 0.01
75 21 0.06
76 4 0.01
77 1 0.00
78 2 0.01
79 52 0.14
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT
AATTTCT
Found at i:11958225 original size:92 final size:92
Alignment explanation
Indices: 11958074--11958243 Score: 243
Period size: 92 Copynumber: 1.8 Consensus size: 92
11958064 TTCTGTTGTC
* *
11958074 AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
*
11958139 TTCCGTTTTTCAATTTCTACCTTTCAA
66 TTCCGTCTTTCAATTTCTACCTTTCAA
* * * * *
11958166 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCAA
*
11958230 TTTCTGTCTTTCAA
65 TTTCCGTCTTTCAA
11958244 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
91 2 0.03
92 66 0.97
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (92 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
TTCCGTCTTTCAATTTCTACCTTTCAA
Found at i:11958346 original size:80 final size:78
Alignment explanation
Indices: 11958144--11958511 Score: 286
Period size: 80 Copynumber: 4.7 Consensus size: 78
11958134 TCAATTTCCG
* * * *
11958144 TTTTTCAATTTCTACCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGAT
* * *
11958209 CACGCGCTGAGCTA
65 CACACACTGAGATA
*
11958223 -TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGAT
11958286 CACACACTGAGATA
65 CACACACTGAGATA
* * * * ** *
11958300 TTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA-CCTCGGG
1 --TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
** *
11958364 TCACA-TGTCGAGGTA
64 TCACACACT-GAGATA
** * * * * *
11958379 -TTTTCAAAATCTGT-TTTC--AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
*** *
11958440 ACGTGCTGAGCTA
66 ACACACTGAGATA
* * *** *
11958453 -TTTTCAATTTCTGGTTTTTTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
11958512 TTTTTAATTT
Statistics
Matches: 236, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
73 30 0.13
74 23 0.10
75 5 0.02
76 13 0.06
77 50 0.21
78 21 0.09
79 11 0.05
80 83 0.35
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (78 bp):
TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
ACACACTGAGATA
Found at i:11958455 original size:153 final size:153
Alignment explanation
Indices: 11958144--11958618 Score: 406
Period size: 153 Copynumber: 3.0 Consensus size: 153
11958134 TCAATTTCCG
** * *
11958144 TTTTTCAATTTCTACCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTTCAATTT-TATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCT
* * *
11958209 CACGCG-CTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
64 CACACGTC-GAGCTATTTTCAAATTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAAGTGAG
* * *** *
11958273 TTGAG-CTTCAGATCACACACTGAGATATT
125 TTGAGCCTT-GGCTCACGTGCTGAGCTATT
* * * *
11958302 TTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA-CCTCGGGTC
1 TTTTTCAATTT-TATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTC
* * * *
11958366 ACATGTCGAGGTATTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAG
65 ACACGTCGAGCTATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
11958431 CCTTGGCTCACGTGCTGAGCTATT
130 CCTTGGCTCACGTGCTGAGCTATT
** * * *
11958455 TTCAATTTCTGGTTTT-TTTTT--TAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TT---TTTC-AATTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC---CT
** * * *
11958517 AATTTCTACGAGAGGT-GAGTTGAGCCTTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGC
59 -A-GGCT-C-ACACGTCGAGCT-A---TTTT-CAAATTCTGTTTTCAAAAATCAACTCATATTGC
11958581 GAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
115 GAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
11958619 GTTCAATTTC
Statistics
Matches: 261, Mismatches: 37, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
153 78 0.30
154 4 0.02
155 9 0.03
156 32 0.12
157 37 0.14
158 17 0.07
159 1 0.00
160 5 0.02
161 5 0.02
164 4 0.02
165 69 0.26
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (153 bp):
TTTTTCAATTTTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTCA
CACGTCGAGCTATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
CTTGGCTCACGTGCTGAGCTATT
Found at i:11958917 original size:29 final size:28
Alignment explanation
Indices: 11958867--11958955 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
11958857 ATTAATAAAA
* *
11958867 AAATTTCATTTTGACCCCTAAACTTTTTT
1 AAATTTCA-TTTGAACCTTAAACTTTTTT
* *
11958896 AAATTTCACTTAGAACCTTAAACTTTCCTT
1 AAATTTCA-TTTGAACCTTAAACTTT-TTT
* * *
11958926 AAATTACATTTTAACCTTAAA-TTTTCT
1 AAATTTCATTTGAACCTTAAACTTTTTT
11958953 AAA
1 AAA
11958956 AATTACATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 4 0.08
28 3 0.06
29 33 0.67
30 9 0.18
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTTCATTTGAACCTTAAACTTTTTT
Found at i:11958958 original size:29 final size:29
Alignment explanation
Indices: 11958909--11958965 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
11958899 TTTCACTTAG
*
11958909 AACCTTAAACTTTCCTTAAATTACATTTT
1 AACCTTAAACTTTCCTAAAATTACATTTT
*
11958938 AACCTTAAA-TTTTCTAAAAATTACATTT
1 AACCTTAAACTTTCCT-AAAATTACATTT
11958966 AGCCCCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.44
Consensus pattern (29 bp):
AACCTTAAACTTTCCTAAAATTACATTTT
Found at i:11959202 original size:15 final size:15
Alignment explanation
Indices: 11959182--11959216 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11959172 AAAAAAGAGC
11959182 AAAAAAATTCCAACA
1 AAAAAAATTCCAACA
*
11959197 AAAAAAATTCCAGCA
1 AAAAAAATTCCAACA
11959212 AAAAA
1 AAAAA
11959217 TTTTTCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.17, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAATTCCAACA
Found at i:11962021 original size:13 final size:14
Alignment explanation
Indices: 11961998--11962033 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
11961988 GAAGAACAGT
*
11961998 AACATCAAAAACCA
1 AACATCAAAAACAA
11962012 AACA-CAAAAACAA
1 AACATCAAAAACAA
11962025 AACATCAAA
1 AACATCAAA
11962034 CCTTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.25, G:0.00, T:0.06
Consensus pattern (14 bp):
AACATCAAAAACAA
Found at i:11975128 original size:34 final size:34
Alignment explanation
Indices: 11975085--11975154 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
11975075 TACATGTATT
11975085 ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
1 ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
11975119 ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
1 ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
11975153 AT
1 AT
11975155 GCAATGTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (34 bp):
ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
Found at i:11976934 original size:15 final size:15
Alignment explanation
Indices: 11976914--11976943 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11976904 AAAATGTCAA
11976914 GTATCGATACCTTAG
1 GTATCGATACCTTAG
*
11976929 GTATCGATACTTTAG
1 GTATCGATACCTTAG
11976944 TGCCAAAAAT
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:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (15 bp):
GTATCGATACCTTAG
Found at i:11982665 original size:28 final size:27
Alignment explanation
Indices: 11982633--11982879 Score: 158
Period size: 26 Copynumber: 9.3 Consensus size: 27
11982623 TGTTATTTAT
*
11982633 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAA-TTTTTTTCATATA
*
11982661 TTATTTATTTTAAATTGTTTT-AT-TA
1 TTATTTATTTTAAATTTTTTTCATATA
* * *
11982686 TTATTTACTTT-AA-GTTTTTCACATA
1 TTATTTATTTTAAATTTTTTTCATATA
* ** *
11982711 TTATGTATTTTAAA-TCATTTCAAACTA
1 TTATTTATTTTAAATTTTTTTCATA-TA
**
11982738 TTATCCATTTTAAA--TTTTT-ATATA
1 TTATTTATTTTAAATTTTTTTCATATA
* * *
11982762 TTAATTATTTTAAATTATTTT-ACATA
1 TTATTTATTTTAAATTTTTTTCATATA
* *
11982788 TTATTTATTTTAAATATTTTTTTATATG
1 TTATTTATTTTAAAT-TTTTTTCATATA
*
11982816 CTATTTATTTTAAACTATTTTATAT-ATATA
1 TTATTTATTTTAAA-T-TTTT-T-TCATATA
* *
11982846 TTTTATCTATTTTAAA-TTTTTT-ATATG
1 --TTATTTATTTTAAATTTTTTTCATATA
11982873 TTATTTA
1 TTATTTA
11982880 CTTAAACGAT
Statistics
Matches: 174, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.02
24 16 0.09
25 30 0.17
26 35 0.20
27 30 0.17
28 31 0.18
29 10 0.06
30 5 0.03
31 1 0.01
32 12 0.07
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTATTTTAAATTTTTTTCATATA
Found at i:11982697 original size:25 final size:28
Alignment explanation
Indices: 11982633--11982698 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
11982623 TGTTATTTAT
*
11982633 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAACTTGTTTTCATACA
*
11982661 TTATTTATTTTAAA-TTGTTTT-AT-TA
1 TTATTTATTTTAAACTTGTTTTCATACA
*
11982686 TTATTTACTTTAA
1 TTATTTATTTTAA
11982699 GTTTTTCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.37
26 2 0.06
27 6 0.17
28 14 0.40
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATTTATTTTAAACTTGTTTTCATACA
Found at i:11982776 original size:51 final size:51
Alignment explanation
Indices: 11982694--11982807 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
11982684 TATTATTTAC
*
11982694 TTTAAGTTTTTCACATATTATGTATTTTAAATCATTTCAAACTATTATCCAT
1 TTTAAATTTTTCACATATTATGTATTTTAAATCATTTCAAA-TATTATCCAT
* * * * **
11982746 TTTAAATTTTT-ATATATTAAT-TATTTTAAATTATTTTACATATTATTTAT
1 TTTAAATTTTTCACATATT-ATGTATTTTAAATCATTTCAAATATTATCCAT
11982796 TTTAAATATTTT
1 TTTAAAT-TTTT
11982808 TTTATATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 15 0.28
51 26 0.49
52 12 0.23
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (51 bp):
TTTAAATTTTTCACATATTATGTATTTTAAATCATTTCAAATATTATCCAT
Found at i:11982835 original size:14 final size:14
Alignment explanation
Indices: 11982789--11982835 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
11982779 TTTTACATAT
11982789 TATTTATTTTAAA-
1 TATTTATTTTAAAC
*
11982802 TATTT-TTTTATATGC
1 TATTTATTTTA-A-AC
11982817 TATTTATTTTAAAC
1 TATTTATTTTAAAC
11982831 TATTT
1 TATTT
11982836 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTTATTTTAAAC
Found at i:11982837 original size:26 final size:25
Alignment explanation
Indices: 11982633--11983152 Score: 186
Period size: 24 Copynumber: 20.6 Consensus size: 25
11982623 TGTTATTTAT
* *
11982633 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAA--TATTTT-ATATA
*
11982661 TTATTTATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAA-TATTTTATATA
* * *
11982686 TTATTTACTTTAAGT-TTTTCACATA
1 TTATTTATTTTAAATATTTT-ATATA
* * *
11982711 TTATGTATTTTAAATCATTTCAAACTA
1 TTATTTATTTTAAAT-ATTTTATA-TA
**
11982738 TTATCCATTTTAAAT-TTTTATATA
1 TTATTTATTTTAAATATTTTATATA
* *
11982762 TTAATTATTTTAAATTATTTTACATA
1 TTATTTATTTTAAA-TATTTTATATA
*
11982788 TTATTTATTTTAAATATTTTTTTATA
1 TTATTTATTTTAAATA-TTTTATATA
11982814 TGCTATTTATTTTAAACTATTTTATATA
1 T--TATTTATTTTAAA-TATTTTATATA
* *
11982842 TATATTTTATCTATTTTAAATTTTTTATATG
1 T-TA---T-T-TATTTTAAATATTTTATATA
* * *
11982873 TTATTTA-CTTAAACGATTTTATATG
1 TTATTTATTTTAAA-TATTTTATATA
* *
11982898 TTAACTT-TTTTAAAT-TCTTT-TTTA
1 TT-ATTTATTTTAAATAT-TTTATATA
* **
11982922 TTATTTATTGTAAACCCTTTTAT-TA
1 TTATTTATTTTAAA-TATTTTATATA
* * *
11982947 TTATTAATTTT-AAGATTTCATATA
1 TTATTTATTTTAAATATTTTATATA
* * ** *
11982971 TTACTTATATT-AAGCTTATATATA
1 TTATTTATTTTAAATATTTTATATA
*
11982995 -TA-TTATTTTAAATTTATTTTTCACATA
1 TTATTTATTTTAAA--TA-TTTT-ATATA
* *
11983022 TTATTT-TTTTAAA-CTTTT-CATA
1 TTATTTATTTTAAATATTTTATATA
* * * *
11983044 -T-GTTATCTTAAATTGTTTTATAAA
1 TTATTTATTTTAAA-TATTTTATATA
* * ** *
11983068 TCATTTATTTTAAGT-TGCTCTATA
1 TTATTTATTTTAAATATTTTATATA
* * *
11983092 -CA-TTATTTT-ATTGTTTTATATA
1 TTATTTATTTTAAATATTTTATATA
* *
11983114 TTAATGATTTTAAAT-TGTTT-TATA
1 TTATTTATTTTAAATAT-TTTATATA
11983138 TTATTTATTTTAAAT
1 TTATTTATTTTAAAT
11983153 CGCTTTTTAT
Statistics
Matches: 374, Mismatches: 75, Indels: 90
0.69 0.14 0.17
Matches are distributed among these distances:
20 2 0.01
21 9 0.02
22 23 0.06
23 23 0.06
24 88 0.24
25 71 0.19
26 55 0.15
27 31 0.08
28 45 0.12
29 4 0.01
30 3 0.01
31 11 0.03
32 9 0.02
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (25 bp):
TTATTTATTTTAAATATTTTATATA
Found at i:11982876 original size:25 final size:25
Alignment explanation
Indices: 11982842--11982918 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
11982832 ATTTTATATA
*
11982842 TATATTTTATCTATTTTAAATTTTT
1 TATATGTTATCTATTTTAAATTTTT
* * **
11982867 TATATGTTATTTA-CTTAAACGATTT
1 TATATGTTATCTATTTTAAA-TTTTT
* *
11982892 TATATGTTAACTTTTTTAAATTCTTT
1 TATATGTTATCTATTTTAAATT-TTT
11982918 T
1 T
11982919 TTATTATTTA
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
24 5 0.13
25 24 0.63
26 9 0.24
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (25 bp):
TATATGTTATCTATTTTAAATTTTT
Found at i:11983011 original size:22 final size:21
Alignment explanation
Indices: 11982940--11983011 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 21
11982930 TGTAAACCCT
11982940 TTTAT-TATTATTAATTTTAAGA
1 TTTATATATTATT-ATTTTAA-A
* *
11982962 TTTCATATATTACTTATATTAAG
1 TTT-ATATATTA-TTATTTTAAA
*
11982985 CTTATATATATATTATTTTAAA
1 TTTATATAT-TATTATTTTAAA
11983007 TTTAT
1 TTTAT
11983012 TTTTCACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 21 0.52
23 6 0.15
24 11 0.28
25 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTATATATTATTATTTTAAA
Found at i:11983160 original size:26 final size:25
Alignment explanation
Indices: 11983104--11983194 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 25
11983094 TTATTTTATT
* * *
11983104 GTTTTATATATTAATGATTTTAAATT
1 GTTTT-TATATTATTTATTTTAAATC
11983130 G-TTTTATATTATTTATTTTAAATC
1 GTTTTTATATTATTTATTTTAAATC
* *
11983154 GCTTTTTATAGTATCTATTTTAAA-C
1 G-TTTTTATATTATTTATTTTAAATC
*
11983179 GTGTTTTTTATATATT
1 GT-TTTTATAT-TATT
11983195 ATTCACTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
24 19 0.36
25 11 0.21
26 23 0.43
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (25 bp):
GTTTTTATATTATTTATTTTAAATC
Found at i:11984668 original size:5 final size:6
Alignment explanation
Indices: 11984630--11984672 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
11984620 CTATATCTAT
* *
11984630 TTTTGC TTTTGC TTTTTC TTTTAC TTTTGC TTTTG- TTTTGC TT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TT
11984673 ATGATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.72
Consensus pattern (6 bp):
TTTTGC
Found at i:11985214 original size:19 final size:19
Alignment explanation
Indices: 11985173--11985216 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11985163 GTCTTTTTTT
*
11985173 TGCATTCATTTCATGCATT
1 TGCATTCATTTCATGCATA
*
11985192 TGCATTGCATTTCAT-CGTA
1 TGCATT-CATTTCATGCATA
11985211 TGCATT
1 TGCATT
11985217 AAATTTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (19 bp):
TGCATTCATTTCATGCATA
Found at i:11989425 original size:45 final size:44
Alignment explanation
Indices: 11989327--11989425 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
11989317 GAGGTAGCAA
*
11989327 CGGAACAGATCAAAGACGACAAATCTTATCTCCCTAAGCAGTAG
1 CGGAACAGATCAAAGACGACAAATCTTATCTCCCGAAGCAGTAG
* * * * * * *
11989371 CGGAGCAGATCGAATACGGCGAATCTTATCTTCCCGAGGTAGTAG
1 CGGAACAGATCAAAGACGACAAATCTTATC-TCCCGAAGCAGTAG
*
11989416 GGGAACAGAT
1 CGGAACAGAT
11989426 TTAAGACACC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 25 0.57
45 19 0.43
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (44 bp):
CGGAACAGATCAAAGACGACAAATCTTATCTCCCGAAGCAGTAG
Found at i:11989543 original size:44 final size:44
Alignment explanation
Indices: 11989438--11989553 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 44
11989428 AAGACACCAG
*
11989438 TCTTATCTTCCTGAAGTAGCAAG-GGAGCAAAATGAAGATTGTAGA
1 TCTTATC-TCCTGAAGTAGC-AGTGGAGCAAAATGAAGATTGAAGA
** *
11989483 TCCCATCTCCCTGAAGTAGCAGTGGAGCAAATTGAAG-TTGAAGA
1 TCTTATCT-CCTGAAGTAGCAGTGGAGCAAAATGAAGATTGAAGA
* *
11989527 TCTTATCTCCTTGAAGTTGCAATGGAG
1 TCTTATCTCC-TGAAGTAGCAGTGGAG
11989554 TAGATCAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.03
44 29 0.48
45 29 0.48
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCTGAAGTAGCAGTGGAGCAAAATGAAGATTGAAGA
Found at i:11993327 original size:3 final size:3
Alignment explanation
Indices: 11993319--11993598 Score: 134
Period size: 3 Copynumber: 93.7 Consensus size: 3
11993309 ATCATTTTAC
* *
11993319 TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTTA -TA TTA CTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA
* * * * * *
11993365 TTA -TA TTA TCA TTA TTA TTA TGA CTA TTA TTA TTA CTA CTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** **
11993412 TTT TTA TTA ACA -TA TTA TTA TTA TTA TT- TTA CCA -TA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
11993456 TCCTA TT- TT- TTA TATA TTA TTA TTG TTA TTA ACA TATA TTA TTA TTAA
1 T--TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A
* * * * *
11993504 TGTA CTA TTA GTT- TCTA TTA TTA TTA TTA TTA CTA ATA TCA CTA TTA
1 T-TA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
11993551 TCA TT- TT- TTA TCA CCA TCA TTA TTT TTA TTTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
11993594 TTA TT
1 TTA TT
11993599 TATTTATTCG
Statistics
Matches: 213, Mismatches: 44, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
2 20 0.09
3 170 0.80
4 21 0.10
5 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:11993605 original size:11 final size:11
Alignment explanation
Indices: 11993570--11993606 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11993560 ATCACCATCA
11993570 TTATT-TTTAT
1 TTATTATTTAT
11993580 TTATTATTT-T
1 TTATTATTTAT
11993590 ATTATTATTTAT
1 -TTATTATTTAT
11993602 TTATT
1 TTATT
11993607 CGTACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 17 0.71
12 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:12009765 original size:196 final size:196
Alignment explanation
Indices: 12009508--12009866 Score: 458
Period size: 196 Copynumber: 1.8 Consensus size: 196
12009498 TCTAGGATCA
* * *
12009508 AATATATGTACCAATAAATACAAAAACATTTAAACGAAATATTATATAAAATATTAAAATAATAT
1 AATATAGGTACAAATAAATACAAAAACATTTAAACGAAATATTATACAAAATATTAAAATAATAT
* * *
12009573 GATATAAAAAGAACTTCAAAATGA-TGATTTTATAAAAACAAAGTAAAGTTATTAAAAT-AGCTC
66 -A-ATAAAAA-AACTTCAAAATAAGT-ATTTT-TAAAAACAAAGTAAAATTATTAAAATAACCTC
* * *
12009636 AACACATAT-ATACAAATATT-AA-GAACTTTAAAATAATATGTATTACCAATAGAAAACTAAAT
126 AACAAATATAAAAAAAATATTAAATGAACTTTAAAATAATATGTATTACCAATAGAAAACTAAAT
12009698 TAAAAT
191 TAAAAT
* * * * * *
12009704 AATATAGGTACAAATATATATAAAAATATTTAAATGAAATGTTATACAAGATATTAAAATAATAT
1 AATATAGGTACAAATAAATACAAAAACATTTAAACGAAATATTATACAAAATATTAAAATAATAT
* * * *
12009769 AATATAAAAACTTTAAAATAAGTATTTTTTAAAACAAAGTAAAATTATTAAAGTAACCTCAACAA
66 AATAAAAAAACTTCAAAATAAGTATTTTTAAAAACAAAGTAAAATTATTAAAATAACCTCAACAA
*
12009834 ATATAAAAAAAATATTAAATGAATTTTAAAATA
131 ATATAAAAAAAATATTAAATGAACTTTAAAATA
12009867 GTAAGTTATA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
192 23 0.17
193 28 0.20
194 16 0.12
195 3 0.02
196 68 0.49
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (196 bp):
AATATAGGTACAAATAAATACAAAAACATTTAAACGAAATATTATACAAAATATTAAAATAATAT
AATAAAAAAACTTCAAAATAAGTATTTTTAAAAACAAAGTAAAATTATTAAAATAACCTCAACAA
ATATAAAAAAAATATTAAATGAACTTTAAAATAATATGTATTACCAATAGAAAACTAAATTAAAA
T
Found at i:12011096 original size:7 final size:7
Alignment explanation
Indices: 12011084--12011109 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12011074 TTTATTATTA
12011084 TTTTTGG
1 TTTTTGG
12011091 TTTTTGG
1 TTTTTGG
12011098 TTTTTGG
1 TTTTTGG
12011105 TTTTT
1 TTTTT
12011110 TTGGGCCCGG
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (7 bp):
TTTTTGG
Found at i:12015216 original size:18 final size:18
Alignment explanation
Indices: 12015189--12015227 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12015179 TTGGACTTAG
*
12015189 AAGAAGGAAA-AAAATAAA
1 AAGAAAGAAACAAAA-AAA
12015207 AAGAAAGAAACAAAAAAA
1 AAGAAAGAAACAAAAAAA
12015225 AAG
1 AAG
12015228 GAAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (18 bp):
AAGAAAGAAACAAAAAAA
Found at i:12022442 original size:23 final size:24
Alignment explanation
Indices: 12022389--12022444 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
12022379 AAATTGTGAA
* *
12022389 TTTAATTTTTTTACTTTAATTATC
1 TTTAACTTTTTGACTTTAATTATC
12022413 TTT-ACTTTTTGA-TTTAATTAAT-
1 TTTAACTTTTTGACTTTAATT-ATC
12022435 TTTAACTTTT
1 TTTAACTTTT
12022445 AATATTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 10 0.36
23 15 0.54
24 3 0.11
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTAACTTTTTGACTTTAATTATC
Found at i:12022451 original size:15 final size:14
Alignment explanation
Indices: 12022432--12022470 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
12022422 TGATTTAATT
12022432 AATTTTAACTTTTAA
1 AATTTTAA-TTTTAA
*
12022447 TATTTTGAATTTTAA
1 AATTTT-AATTTTAA
12022462 AATTTTAAT
1 AATTTTAAT
12022471 ATTAGCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.76
16 2 0.10
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
AATTTTAATTTTAA
Done.