Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 37 of 185
Found at i:10902468 original size:27 final size:27
Alignment explanation
Indices: 10902438--10902614 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
10902428 ATATTGAGCC
* * *
10902438 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
10902465 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
10902492 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
10902520 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
10902547 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
10902574 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
10902601 CGCACACTTAGTGC
1 CGCACACTTAGTGC
10902615 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:10904445 original size:34 final size:34
Alignment explanation
Indices: 10904372--10904467 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 34
10904362 TTATTCAGCT
* * * * * *
10904372 TAAGGCTATTCGTCCAGATCAATAGAAATAGCAA
1 TAAGGCTGTTCGTGCACATCAATAGACACAACAA
*
10904406 CAAGGCTGTTCGTGCACATCAATAGACACAACAA
1 TAAGGCTGTTCGTGCACATCAATAGACACAACAA
* * *
10904440 TAAGGCTGTTCGGGCACCTCAATGGACA
1 TAAGGCTGTTCGTGCACATCAATAGACA
10904468 ACCAATCATT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (34 bp):
TAAGGCTGTTCGTGCACATCAATAGACACAACAA
Found at i:10910713 original size:34 final size:34
Alignment explanation
Indices: 10910643--10910730 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
10910633 AGCTCAAGGC
* *
10910643 TGTTCGTGAACATCAATGGACACAGCAACTAGGT
1 TGTTCGTGCACATCAATGGACACAGCAACTAAGT
* *
10910677 TGTTTGTGCACATCAATGGACACATCAA-TAAAGT
1 TGTTCGTGCACATCAATGGACACAGCAACT-AAGT
* *
10910711 TGTTCGGGCACCTCAATGGA
1 TGTTCGTGCACATCAATGGA
10910731 TAGCCAATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
33 1 0.02
34 45 0.98
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (34 bp):
TGTTCGTGCACATCAATGGACACAGCAACTAAGT
Found at i:10914320 original size:12 final size:13
Alignment explanation
Indices: 10914296--10914324 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10914286 AGGCTATAAC
10914296 TATTGCATTTATT
1 TATTGCATTTATT
10914309 TATTGC-TTTATT
1 TATTGCATTTATT
10914321 TATT
1 TATT
10914325 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:10937728 original size:16 final size:16
Alignment explanation
Indices: 10937707--10937737 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10937697 TCCCAATCCC
*
10937707 ATGCAGTATGTCATGA
1 ATGCAGTATGCCATGA
10937723 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
10937738 CTTAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGTATGCCATGA
Found at i:10953422 original size:49 final size:49
Alignment explanation
Indices: 10953341--10953450 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
10953331 AATGGAGGAA
* * * * * * *
10953341 GTATCTGGCAGTAAATTTGCACTATCTGGTGGCTTGTCCACCATATTTT
1 GTATTTGGCAGTAAATTTACACTATCTAGTGGCTAGACCACAATATTCT
* *
10953390 GTATTTGGCAGTGAATTTACATTATCTAGTGGCTAGACCACAATATTCT
1 GTATTTGGCAGTAAATTTACACTATCTAGTGGCTAGACCACAATATTCT
* *
10953439 ATTTTTGGCAGT
1 GTATTTGGCAGT
10953451 TCGACTCCAC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (49 bp):
GTATTTGGCAGTAAATTTACACTATCTAGTGGCTAGACCACAATATTCT
Found at i:10953906 original size:19 final size:20
Alignment explanation
Indices: 10953862--10953907 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
10953852 ATGTTTATTT
* * *
10953862 ACTTTGGACTTTGGTTTTGG
1 ACTTTGGACTTTGCTCTTAG
10953882 AC-TTGGACTTT-CTCTTAG
1 ACTTTGGACTTTGCTCTTAG
10953900 ACTTTGGA
1 ACTTTGGA
10953908 TTTATTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.27
19 14 0.64
20 2 0.09
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
ACTTTGGACTTTGCTCTTAG
Found at i:10954086 original size:23 final size:21
Alignment explanation
Indices: 10954031--10954070 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10954021 ACAATCATAG
10954031 TGTTTTC-AAACTCAACACTC
1 TGTTTTCAAAACTCAACACTC
10954051 TGTTTTCAAAACTCAACACT
1 TGTTTTCAAAACTCAACACT
10954071 ACTTGTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (21 bp):
TGTTTTCAAAACTCAACACTC
Found at i:10960932 original size:40 final size:39
Alignment explanation
Indices: 10960901--10961110 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
10960891 GGACTAAGAT
* *
10960901 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
10960941 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
10960981 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
10961021 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
10961061 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
10961100 CCGAAGGCATT
1 CCGAAGGCATT
10961111 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:10961064 original size:120 final size:120
Alignment explanation
Indices: 10960848--10961110 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
10960838 TTGAATGCTG
* *
10960848 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
10960912 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
10960968 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
10961031 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
10961087 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
10961111 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:10961130 original size:79 final size:80
Alignment explanation
Indices: 10960849--10961145 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
10960839 TGAATGCTGT
* ** * * * **
10960849 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
10960912 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
10960929 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
10960993 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
10961009 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
10961073 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
10961088 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
10961146 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:10969005 original size:39 final size:39
Alignment explanation
Indices: 10968801--10969023 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
10968791 TTGAATGCTG
* * * * *
10968801 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
10968841 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
10968880 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
10968921 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
10968961 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
10969000 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
10969024 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:10970851 original size:21 final size:21
Alignment explanation
Indices: 10970826--10970881 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
10970816 CAACACTTTC
*
10970826 CTTTTTTTTTCAATAACTTCAA
1 CTTTTTTTTTCAATAACGT-AA
**
10970848 -TTTTTTTTT-AATTTCGTAA
1 CTTTTTTTTTCAATAACGTAA
10970867 CTTTTTTTTTCAATA
1 CTTTTTTTTTCAATA
10970882 CAAATACATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 12 0.43
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (21 bp):
CTTTTTTTTTCAATAACGTAA
Found at i:10970941 original size:11 final size:10
Alignment explanation
Indices: 10970919--10970954 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
10970909 CGCCAAAAAA
10970919 TTTTTTAATT
1 TTTTTTAATT
*
10970929 TTTTTCAATT
1 TTTTTTAATT
10970939 TTTTTTGAATT
1 TTTTTT-AATT
10970950 TTTTT
1 TTTTT
10970955 AAACACTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:10974076 original size:51 final size:51
Alignment explanation
Indices: 10974010--10974243 Score: 283
Period size: 51 Copynumber: 4.6 Consensus size: 51
10974000 TTGGTTCACG
*
10974010 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTAT-CGATACACA
* * * ** * *
10974061 TAGTAGTCTGTACATAGTACTACACATGTGACCATTATCTATCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTATCGATACACA
*
10974112 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTAT-CGATACACA
* * * ** * *
10974163 TAGTAGTCTGTACATAGTACTACACATGTGACCATTATCTATCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTATCGATACACA
*
10974214 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACATAGTACTACACACGTG
10974244 TTTATAGGCA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 149 0.98
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTATCGATACACA
Found at i:10974182 original size:102 final size:102
Alignment explanation
Indices: 10974006--10974243 Score: 467
Period size: 102 Copynumber: 2.3 Consensus size: 102
10973996 CTTTTTGGTT
10974006 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGGTACACATAGTAGTCTG
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGGTACACATAGTAGTCTG
10974071 TACATAGTACTACACATGTGACCATTATCTATCGATA
66 TACATAGTACTACACATGTGACCATTATCTATCGATA
10974108 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGGTACACATAGTAGTCTG
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGGTACACATAGTAGTCTG
10974173 TACATAGTACTACACATGTGACCATTATCTATCGATA
66 TACATAGTACTACACATGTGACCATTATCTATCGATA
*
10974210 CACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 CACGTAGTAGCCTGCACATAGTACTACACACGTG
10974244 TTTATAGGCA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 135 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (102 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGGTACACATAGTAGTCTG
TACATAGTACTACACATGTGACCATTATCTATCGATA
Found at i:10974831 original size:81 final size:81
Alignment explanation
Indices: 10974696--10974856 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 81
10974686 CATTTATCAA
10974696 AATAATCCTCGACTCAACTTTTTACAAAATTATAATTTTGTCCCTAAACTTTTGCATATTTACAT
1 AATAATCCTCGACTCAACTTTTTACAAAATTATAATTTTGTCCCTAAACTTTTGCATATTTACAT
10974761 TTTTGCCCCAAAGTTC
66 TTTTGCCCCAAAGTTC
* * *
10974777 AATAATCCTCGACTCAACTTTTTACAAAATTATAATTTTGTCCCTAAAGTTTTGCATTTTTATAT
1 AATAATCCTCGACTCAACTTTTTACAAAATTATAATTTTGTCCCTAAACTTTTGCATATTTACAT
10974842 TTTTGCCCCAAAGTT
66 TTTTGCCCCAAAGTT
10974857 TGGAAATTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (81 bp):
AATAATCCTCGACTCAACTTTTTACAAAATTATAATTTTGTCCCTAAACTTTTGCATATTTACAT
TTTTGCCCCAAAGTTC
Found at i:10979834 original size:6 final size:6
Alignment explanation
Indices: 10979819--10979912 Score: 71
Period size: 6 Copynumber: 15.7 Consensus size: 6
10979809 TAATGGAATC
* ** * **
10979819 GAAAAA GAAAAC GAAAAA GAAAAA GAAATT GCAAAA GAAAAA GAAATC
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
** * * * **
10979867 GAAAAA GTGAGA GAAAAA GAAAAA GAGAAA TAAATC GAAAAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA
10979913 TTGAGATTGA
Statistics
Matches: 62, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:10979842 original size:18 final size:18
Alignment explanation
Indices: 10979819--10979912 Score: 98
Period size: 18 Copynumber: 5.2 Consensus size: 18
10979809 TAATGGAATC
*
10979819 GAAAAAGAAAACGAAAAA
1 GAAAAAGAAATCGAAAAA
* *
10979837 GAAAAAGAAATTGCAAAA
1 GAAAAAGAAATCGAAAAA
10979855 GAAAAAGAAATCGAAAAA
1 GAAAAAGAAATCGAAAAA
** * **
10979873 GTGAGAGAAAAAGAAAAA
1 GAAAAAGAAATCGAAAAA
* *
10979891 GAGAAATAAATCGAAAAA
1 GAAAAAGAAATCGAAAAA
10979909 GAAA
1 GAAA
10979913 TTGAGATTGA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (18 bp):
GAAAAAGAAATCGAAAAA
Found at i:10992434 original size:25 final size:25
Alignment explanation
Indices: 10992404--10992486 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 25
10992394 ATTCAACGCA
10992404 AACAGCAAGAAAACTTAAAAGAACG
1 AACAGCAAGAAAACTTAAAAGAACG
* * * *
10992429 AACAGCAATAAAA-AT-CAAG-A-T
1 AACAGCAAGAAAACTTAAAAGAACG
*
10992450 AA-AGAAAGAAAACTTAAAAGAACG
1 AACAGCAAGAAAACTTAAAAGAACG
* *
10992474 AACAACAATAAAA
1 AACAGCAAGAAAA
10992487 ATCAAGATAA
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
20 8 0.20
21 3 0.07
22 4 0.10
23 4 0.10
24 3 0.07
25 19 0.46
ACGTcount: A:0.65, C:0.13, G:0.12, T:0.10
Consensus pattern (25 bp):
AACAGCAAGAAAACTTAAAAGAACG
Found at i:10992462 original size:45 final size:45
Alignment explanation
Indices: 10992410--10992498 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
10992400 CGCAAACAGC
*
10992410 AAGAAAACTTAAAAGAACGAACAGCAATAAAAATCAAGATAAAGA
1 AAGAAAACTTAAAAGAACGAACAACAATAAAAATCAAGATAAAGA
10992455 AAGAAAACTTAAAAGAACGAACAACAATAAAAATCAAGATAAAG
1 AAGAAAACTTAAAAGAACGAACAACAATAAAAATCAAGATAAAG
10992499 TCCTAAGGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.65, C:0.11, G:0.12, T:0.11
Consensus pattern (45 bp):
AAGAAAACTTAAAAGAACGAACAACAATAAAAATCAAGATAAAGA
Found at i:11018032 original size:143 final size:143
Alignment explanation
Indices: 11017855--11018140 Score: 572
Period size: 143 Copynumber: 2.0 Consensus size: 143
11017845 GTAATAATGG
11017855 ATTATAGTGTATTGTTGTTTTTTAAAAAATAAATAAATAAATTATGTATGGATTATACAATAAAT
1 ATTATAGTGTATTGTTGTTTTTTAAAAAATAAATAAATAAATTATGTATGGATTATACAATAAAT
11017920 TTAAAATTTTCATGTTAATGATATTTACTTTTTTTGTATTATATTGTTGATAATATAAGTAATGA
66 TTAAAATTTTCATGTTAATGATATTTACTTTTTTTGTATTATATTGTTGATAATATAAGTAATGA
11017985 GTTGCTTATATTT
131 GTTGCTTATATTT
11017998 ATTATAGTGTATTGTTGTTTTTTAAAAAATAAATAAATAAATTATGTATGGATTATACAATAAAT
1 ATTATAGTGTATTGTTGTTTTTTAAAAAATAAATAAATAAATTATGTATGGATTATACAATAAAT
11018063 TTAAAATTTTCATGTTAATGATATTTACTTTTTTTGTATTATATTGTTGATAATATAAGTAATGA
66 TTAAAATTTTCATGTTAATGATATTTACTTTTTTTGTATTATATTGTTGATAATATAAGTAATGA
11018128 GTTGCTTATATTT
131 GTTGCTTATATTT
11018141 CTAAATATAA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (143 bp):
ATTATAGTGTATTGTTGTTTTTTAAAAAATAAATAAATAAATTATGTATGGATTATACAATAAAT
TTAAAATTTTCATGTTAATGATATTTACTTTTTTTGTATTATATTGTTGATAATATAAGTAATGA
GTTGCTTATATTT
Found at i:11018156 original size:20 final size:21
Alignment explanation
Indices: 11018133--11018172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11018123 AATGAGTTGC
11018133 TTATATTTC-TAAATATAATT
1 TTATATTTCTTAAATATAATT
* *
11018153 TTATGTTTCTTATATATAAT
1 TTATATTTCTTAAATATAAT
11018173 AAAAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATATTTCTTAAATATAATT
Found at i:11024939 original size:13 final size:13
Alignment explanation
Indices: 11024921--11024945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11024911 GTGAATTTAC
11024921 TTGTGTGAAAATG
1 TTGTGTGAAAATG
11024934 TTGTGTGAAAAT
1 TTGTGTGAAAAT
11024946 TTTATCGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (13 bp):
TTGTGTGAAAATG
Found at i:11026076 original size:41 final size:41
Alignment explanation
Indices: 11026019--11026171 Score: 225
Period size: 41 Copynumber: 3.7 Consensus size: 41
11026009 TTTTGTAAGT
*
11026019 TCAGGCTTTATGCCTAGCAAGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
*
11026060 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * * * *
11026101 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
11026142 TCGGGCTTTGTGCCTAGCAGGCTTTATGCC
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCC
11026172 AGTTTTTTAT
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:11027027 original size:69 final size:69
Alignment explanation
Indices: 11026940--11027578 Score: 1008
Period size: 69 Copynumber: 9.3 Consensus size: 69
11026930 TTATTTTTAA
*
11026940 GCCTATTTGCTGTATATATGCTGTTATATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027005 TGCT
66 TGCT
*
11027009 GCCTATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027074 TGCT
66 TGCT
* * * *
11027078 GCCTATTTACTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAACTTTGGTATCTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
*
11027143 TGTT
66 TGCT
* * *
11027147 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAGAAGTGCTGTTACATTTGATATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027212 TGCT
66 TGCT
* * *
11027216 GCCTATTTACTGTATATATGCTGTTAAATTTTGATGTAAAAATGCTGTTAAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027281 TGCT
66 TGCT
* * * * * ***
11027285 GCCCATTTGTTGTATATATGTTGATAAATTTTGGTGTAAAAATGCTGCCCAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027350 TGCT
66 TGCT
* *
11027354 GCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027419 TGCT
66 TGCT
* *
11027423 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAGAAGTGCTGTTAAATTTGATATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
11027488 TGCT
66 TGCT
* *
11027492 GCCTATTTACTGTGTATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
1 GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
*
11027557 TGTT
66 TGCT
* *
11027561 GCCCATTTGTTGTATATA
1 GCCTATTTGCTGTATATA
11027579 AGAGTTGTCC
Statistics
Matches: 522, Mismatches: 48, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 522 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (69 bp):
GCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATA
TGCT
Found at i:11027371 original size:22 final size:22
Alignment explanation
Indices: 11027267--11027376 Score: 85
Period size: 22 Copynumber: 4.9 Consensus size: 22
11027257 ATGCTGTTAA
* *
11027267 ATTTGGTATGTATATGCTGCCC
1 ATTTGGTGTATATATGCTGCCC
* * ***
11027289 ATTTGTTGTATATATGTTGATAA
1 ATTTGGTGTATATATGCTG-CCC
* *
11027312 ATTTTGGTGTAAAAATGCTGCCC
1 A-TTTGGTGTATATATGCTGCCC
* *
11027335 AATTTGGTATGTATATGCTGCCC
1 -ATTTGGTGTATATATGCTGCCC
*
11027358 ATTTGTTGTATATATGCTG
1 ATTTGGTGTATATATGCTG
11027377 TTAAATTTTG
Statistics
Matches: 64, Mismatches: 21, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
22 31 0.48
23 18 0.28
24 15 0.23
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (22 bp):
ATTTGGTGTATATATGCTGCCC
Found at i:11033771 original size:41 final size:41
Alignment explanation
Indices: 11033714--11033830 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
11033704 TTTTGTAAGT
11033714 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
11033755 TCAGGCTTGATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
11033796 TCAGACTTTATGTCTAGCAGGCTTTGTGCC-GTGAA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAA
11033831 ATGTATTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 5 0.07
41 65 0.93
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:11034726 original size:45 final size:45
Alignment explanation
Indices: 11034675--11034778 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
11034665 GTAAAAGTGC
*
11034675 TGTTAAATTTGGTATGTATATGCTGCCTATTTACTGTATATATGT
1 TGTTAAATTTGGTATGTATATGCTGCCCATTTACTGTATATATGT
**
11034720 TGTTAAATTTGGTATGTATATGCTGCCCATTTGTTGTATATATGT
1 TGTTAAATTTGGTATGTATATGCTGCCCATTTACTGTATATATGT
*
11034765 TGATAAAATTTGGT
1 TG-TTAAATTTGGT
11034779 GTAACAATGC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 44 0.81
46 10 0.19
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (45 bp):
TGTTAAATTTGGTATGTATATGCTGCCCATTTACTGTATATATGT
Found at i:11034791 original size:46 final size:44
Alignment explanation
Indices: 11034679--11034791 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 44
11034669 AAGTGCTGTT
* * *
11034679 AAATTTGGTATGTATATGCTGCCTATTTACTGTATATATGTTGTT
1 AAATTTGG-ATGTAAATGCTGCCCATTTACTGTATATATGTTGTA
* **
11034724 AAATTTGGTATGTATATGCTGCCCATTTGTTGTATATATGTTGATA
1 AAATTTGG-ATGTAAATGCTGCCCATTTACTGTATATATGTTG-TA
11034770 AAATTTGG-TGTAACAATGCTGC
1 AAATTTGGATGT-A-AATGCTGC
11034792 TTAATTTGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 3 0.05
45 41 0.68
46 16 0.27
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (44 bp):
AAATTTGGATGTAAATGCTGCCCATTTACTGTATATATGTTGTA
Found at i:11034804 original size:69 final size:69
Alignment explanation
Indices: 11034720--11034984 Score: 383
Period size: 69 Copynumber: 3.9 Consensus size: 69
11034710 GTATATATGT
* * *
11034720 TGTTAAATTTGGTATGTATATGCTGCCCATTTGTTGTATATATGTTGATAAAATTTGGTGTAACA
1 TGTTAAATTTGGTATGTATATGCTGCCCATTTGCTGTATATATGCTGTTAAAATTTGGTGTAA-A
11034785 A-TGC
65 AGTGC
* * *
11034789 TGCTT-AATTTGGTATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTAGTGTAAA
1 TG-TTAAATTTGGTATGTATATGCTGCCCATTTGCTGTATATATGCTGTTAAAATTTGGTGTAAA
*
11034853 AGTGT
65 AGTGC
* * *
11034858 TGTTAAAGTTGGTATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAA
1 TGTTAAATTTGGTATGTATATGCTGCCCATTTGCTGTATATATGCTGTTAAAATTTGGTGTAAAA
11034923 GTGC
66 GTGC
* *
11034927 TGTTAAATTTGGTATGTATATGCTGCCTATTTACTGTATATATGCTGTT-AAATTTGGT
1 TGTTAAATTTGGTATGTATATGCTGCCCATTTGCTGTATATATGCTGTTAAAATTTGGT
11034985 ATGTATATGG
Statistics
Matches: 180, Mismatches: 13, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
68 12 0.07
69 166 0.92
70 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (69 bp):
TGTTAAATTTGGTATGTATATGCTGCCCATTTGCTGTATATATGCTGTTAAAATTTGGTGTAAAA
GTGC
Found at i:11034835 original size:45 final size:45
Alignment explanation
Indices: 11034770--11035013 Score: 133
Period size: 45 Copynumber: 5.4 Consensus size: 45
11034760 TATGTTGATA
*
11034770 AAATTTGGTGTA-ACAATGCTGCTT-AATTTGGTATGTATATGCTGC
1 AAATTTGGTGTATA-TATGCTG-TTAAATTTGGTATGTATATGCTGC
** * * * *
11034815 CCATTTGTTGTATATATGCTGTTAAATTT--TAGTGTAAAAGTGTTGTT
1 AAATTTGGTGTATATATGCTGTTAAATTTGGTA-TGT-ATA-TGCTG-C
* * * * * * * *
11034862 AAAGTTGGTATGTATATGCTGCCT--ATTTGCTGTATATATGCTGTT
1 AAATTTGGTGTATATATGCTG-TTAAATTTGGTATGTATATGCTG-C
*
11034907 AAATTTTGGTGTA-AAAGTGCTGTTAAATTTGGTATGTATATGCTGC
1 AAA-TTTGGTGTATATA-TGCTGTTAAATTTGGTATGTATATGCTGC
** ** *
11034953 CTATTTACTGTATATATGCTGTTAAATTTGGTATGTATATGGTGC
1 AAATTTGGTGTATATATGCTGTTAAATTTGGTATGTATATGCTGC
** *
11034998 TCATTTGTTGTATATA
1 AAATTTGGTGTATATA
11035014 AAAGCTGTCC
Statistics
Matches: 148, Mismatches: 37, Indels: 28
0.69 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 5 0.03
45 81 0.55
46 25 0.17
47 33 0.22
48 2 0.01
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (45 bp):
AAATTTGGTGTATATATGCTGTTAAATTTGGTATGTATATGCTGC
Found at i:11034850 original size:24 final size:23
Alignment explanation
Indices: 11034640--11034993 Score: 158
Period size: 23 Copynumber: 15.4 Consensus size: 23
11034630 CCTATTTTTC
*
11034640 TGTATATATGATGTTAAATTTTGG
1 TGTATATATGCTGTTAAA-TTTGG
*
11034664 TGTA-AAAGTGCTGTTAAATTTGG
1 TGTATATA-TGCTGTTAAATTTGG
* * * **
11034687 TATGTATATGCTGCCT--ATTTAC
1 TGTATATATGCTG-TTAAATTTGG
*
11034709 TGTATATATGTTGTTAAATTTGG
1 TGTATATATGCTGTTAAATTTGG
* * *** *
11034732 TATGTATATGCTG-CCCATTTGT
1 TGTATATATGCTGTTAAATTTGG
* *
11034754 TGTATATATGTTGATAAAATTTGG
1 TGTATATATGCTG-TTAAATTTGG
*
11034778 TGTA-ACAATGCTGCTT-AATTTGG
1 TGTATA-TATGCTG-TTAAATTTGG
* * *** *
11034801 TATGTATATGCTG-CCCATTTGT
1 TGTATATATGCTGTTAAATTTGG
*
11034823 TGTATATATGCTGTTAAATTTTAG
1 TGTATATATGCTGTTAAA-TTTGG
* * *
11034847 TGTA-AAAGTGTTGTTAAAGTTGG
1 TGTATATA-TGCTGTTAAATTTGG
* * * *
11034870 TATGTATATGCTGCCT--ATTTGC
1 TGTATATATGCTG-TTAAATTTGG
11034892 TGTATATATGCTGTTAAATTTTGG
1 TGTATATATGCTGTTAAA-TTTGG
*
11034916 TGTA-AAAGTGCTGTTAAATTTGG
1 TGTATATA-TGCTGTTAAATTTGG
* * * **
11034939 TATGTATATGCTGCCT--ATTTAC
1 TGTATATATGCTG-TTAAATTTGG
11034961 TGTATATATGCTGTTAAATTTGG
1 TGTATATATGCTGTTAAATTTGG
* *
11034984 TATGTATATG
1 TGTATATATG
11034994 GTGCTCATTT
Statistics
Matches: 233, Mismatches: 74, Indels: 47
0.66 0.21 0.13
Matches are distributed among these distances:
21 3 0.01
22 75 0.32
23 83 0.36
24 72 0.31
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (23 bp):
TGTATATATGCTGTTAAATTTGG
Found at i:11037390 original size:19 final size:19
Alignment explanation
Indices: 11037342--11037391 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
11037332 CATTTTCCAT
*
11037342 TATGTTAAA-ATTTACTGA
1 TATGGTAAATATTTACTGA
11037360 TAT-G-ACAATATTTACTGA
1 TATGGTA-AATATTTACTGA
11037378 TATGGTAAATATTT
1 TATGGTAAATATTT
11037392 TTTTAAGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.04
17 2 0.07
18 15 0.56
19 8 0.30
20 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (19 bp):
TATGGTAAATATTTACTGA
Found at i:11045188 original size:45 final size:45
Alignment explanation
Indices: 11045124--11045249 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
11045114 ACGATATAAA
* * * *
11045124 AATGTAGAAGACCATGGTTGACAGACACTATAACATCAAGACGAG
1 AATGTATAAGACTATGGTTGAAAGACACTATGACATCAAGACGAG
* * *
11045169 AATGTATAAGACTATGGTTGAAATACATTATGGCATCAAGACGAG
1 AATGTATAAGACTATGGTTGAAAGACACTATGACATCAAGACGAG
* * * *
11045214 AATGAATAAGATTATGATTGAAAGACTCTATGACAT
1 AATGTATAAGACTATGGTTGAAAGACACTATGACAT
11045250 GCTTCAATCA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.25
Consensus pattern (45 bp):
AATGTATAAGACTATGGTTGAAAGACACTATGACATCAAGACGAG
Found at i:11045968 original size:22 final size:21
Alignment explanation
Indices: 11045920--11045968 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
11045910 CTTTGATTAG
11045920 ATAAAACAATTAAAATAAAGA
1 ATAAAACAATTAAAATAAAGA
* *
11045941 ACTAAAATAATTAAAATAGAATA
1 A-TAAAACAATTAAAATA-AAGA
11045964 ATAAA
1 ATAAA
11045969 TCTACGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.79
23 4 0.17
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
ATAAAACAATTAAAATAAAGA
Found at i:11058879 original size:17 final size:17
Alignment explanation
Indices: 11058844--11058894 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
11058834 TCTTTTAATG
* **
11058844 TTTATTTTATTTTGATT
1 TTTATTTTCTTTTCTTT
*
11058861 TTGATTTT-TTTTCTTT
1 TTTATTTTCTTTTCTTT
*
11058877 TTTCTTTTCTTTTCTTT
1 TTTATTTTCTTTTCTTT
11058894 T
1 T
11058895 GGCACGTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTATTTTCTTTTCTTT
Found at i:11061499 original size:22 final size:20
Alignment explanation
Indices: 11061464--11061522 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
11061454 TTTTTCTTGC
11061464 AAAATCAAAGTTTTATTTTTAA
1 AAAATCAAA-TTTTATTTTT-A
*
11061486 AAAATC-AATATTT-TTCTTA
1 AAAATCAAAT-TTTATTTTTA
11061505 AAAATCAAATCTTTATTT
1 AAAATCAAAT-TTTATTT
11061523 CGAAATAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 7 0.23
20 11 0.35
21 7 0.23
22 6 0.19
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (20 bp):
AAAATCAAATTTTATTTTTA
Found at i:11061719 original size:148 final size:151
Alignment explanation
Indices: 11061496--11061785 Score: 403
Period size: 148 Copynumber: 1.9 Consensus size: 151
11061486 AAAATCAATA
* * * *
11061496 TTTTTCTTAAAAATCAAATCTTTATTTCGAAATAGTTGAAAAAGATTAAAACTTTGTTTTAGAAA
1 TTTTTCTTAAAAATCAAATCTTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGAAA
*
11061561 ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTA-TTTTAAAAATCTAAACTTTCTC
66 ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTTAAAAATCTAAACTTTCGC
*
11061625 TTTTTTAAAAAAACCGCTATTT
131 -TTTTAAAAAAAACCGCTATTT
*
11061647 TTTTTCTTAAAAATCATAA-CTTTTATTTCAAAATAATT-AAAAA-ATCAAAAGTTTATTTTA-A
1 TTTTTCTTAAAAATCA-AATC-TTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGA
* ** * *
11061708 AAAT-TAAACTTTCTTTTGAAATGACTAAAAAAACAAATTTTTATTTTTAAAAATCTAAACTTTC
64 AAATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTTAAAAATCTAAACTTTC
11061772 GCTTTTAAAAAAAA
129 GCTTTTAAAAAAAA
11061786 TCAAAACTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
148 45 0.36
149 26 0.21
150 14 0.11
151 22 0.18
152 17 0.14
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (151 bp):
TTTTTCTTAAAAATCAAATCTTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGAAA
ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTTAAAAATCTAAACTTTCGC
TTTTAAAAAAAACCGCTATTT
Found at i:11061756 original size:50 final size:51
Alignment explanation
Indices: 11061552--11061771 Score: 156
Period size: 50 Copynumber: 4.4 Consensus size: 51
11061542 TAAAACTTTG
* * * * *
11061552 TTTTAGAAAATGTAAACTTTC-CTTAAAAATGACAAAAAAAACAAACTTTTA
1 TTTTA-AAAATCTAAACTTTCTATTTAAAATGACTAAAAAAACAAATTTTTA
* * ** *
11061603 TTTTAAAAATCTAAACTTTCTCTTT----T--TTAAAAAAACCGCTATTTTTT
1 TTTTAAAAATCTAAACTTTCTATTTAAAATGACTAAAAAAA-C-AAATTTTTA
* * * **
11061650 TTCTTAAAAATC-ATAACTTT-TATTTCAAAATAATTAAAAAATCAAAAGTTTA
1 TT-TTAAAAATCTA-AACTTTCTATTT-AAAATGACTAAAAAAACAAATTTTTA
*
11061702 TTTTAAAAAT-TAAACTTTCT-TTTGAAATGACTAAAAAAACAAATTTTTA
1 TTTTAAAAATCTAAACTTTCTATTTAAAATGACTAAAAAAACAAATTTTTA
11061751 TTTTTAAAAATCTAAACTTTC
1 -TTTTAAAAATCTAAACTTTC
11061772 GCTTTTAAAA
Statistics
Matches: 132, Mismatches: 21, Indels: 32
0.71 0.11 0.17
Matches are distributed among these distances:
45 7 0.05
46 1 0.01
47 13 0.10
48 15 0.11
49 20 0.15
50 33 0.25
51 27 0.20
52 7 0.05
53 1 0.01
54 8 0.06
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (51 bp):
TTTTAAAAATCTAAACTTTCTATTTAAAATGACTAAAAAAACAAATTTTTA
Found at i:11061785 original size:149 final size:151
Alignment explanation
Indices: 11061496--11061785 Score: 401
Period size: 149 Copynumber: 1.9 Consensus size: 151
11061486 AAAATCAATA
* * * *
11061496 TTTTTCTTAAAAATCAAATCTTTATTTCGAAATAGTTGAAAAAGATTAAAACTTTGTTTTAGAAA
1 TTTTTCTTAAAAATCAAATCTTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGAAA
*
11061561 ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTAAAAATCTAAACTTTCTCT
66 ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTAAAAATCTAAACTTTCGCT
**
11061626 TTTTTAAAAAAACCGCTATTT
131 TTTAAAAAAAAACCGCTATTT
*
11061647 TTTTTCTTAAAAATCATAA-CTTTTATTTCAAAATAATT-AAAAA-ATCAAAAGTTTATTTTA-A
1 TTTTTCTTAAAAATCA-AATC-TTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGA
* ** * *
11061708 AAAT-TAAACTTTCTTTTGAAATGACTAAAAAAACAAATTTTTATTTTTAAAAATCTAAACTTTC
64 AAATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTA-TTTTAAAAATCTAAACTTTC
11061772 GCTTTTAAAAAAAA
128 GCTTTTAAAAAAAA
11061786 TCAAAACTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
148 34 0.28
149 36 0.29
150 14 0.11
151 22 0.18
152 17 0.14
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (151 bp):
TTTTTCTTAAAAATCAAATCTTTATTTCAAAATAATTGAAAAAGATCAAAACTTTATTTTAGAAA
ATGTAAACTTTCCTTAAAAATGACAAAAAAAACAAACTTTTATTTTAAAAATCTAAACTTTCGCT
TTTAAAAAAAAACCGCTATTT
Found at i:11062640 original size:42 final size:42
Alignment explanation
Indices: 11062584--11062724 Score: 185
Period size: 42 Copynumber: 3.4 Consensus size: 42
11062574 CTTCATATAC
*
11062584 AATGCAATGCAAAGTAAATGGACCTCCACACCTGGGCTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCTTCTA
* * * * *
11062626 AATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCTTCTA
* * *
11062668 AATACAATAAAAAGTAAATGAACCTCCACACCTGGGCCTT-TA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGG-CTTCTA
11062710 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
11062725 CACCTGGGCT
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 80 0.98
43 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCTTCTA
Found at i:11062730 original size:29 final size:29
Alignment explanation
Indices: 11062696--11062753 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
11062686 TGAACCTCCA
11062696 CACCTGGGCCTT-TAAATGCAATGAAAAGT
1 CACCTGGG-CTTCTAAATGCAATGAAAAGT
11062725 CACCTGGGCTTCTAAATGCAATGAAAAGT
1 CACCTGGGCTTCTAAATGCAATGAAAAGT
11062754 AAACGGGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (29 bp):
CACCTGGGCTTCTAAATGCAATGAAAAGT
Found at i:11062770 original size:71 final size:71
Alignment explanation
Indices: 11062654--11062795 Score: 176
Period size: 71 Copynumber: 2.0 Consensus size: 71
11062644 CGGGCCTGCA
* * * * *
11062654 CACCTAGGCCTCTAAATACAATAAAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATG
1 CACCTAGGCCTCTAAATACAATAAAAAGTAAACGAACCTCCACACCTAGGCCTCTAAATACAATA
11062719 AAAAGT
66 AAAAGT
* * * * ** *
11062725 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
1 CACCTAGGCCTCTAAATACAATAAAAAGTAAACGAACCTCCACACCTAGGCCTCTAAATACAATA
11062790 AAAAGT
66 AAAAGT
11062796 AAATGAACCT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.20
Consensus pattern (71 bp):
CACCTAGGCCTCTAAATACAATAAAAAGTAAACGAACCTCCACACCTAGGCCTCTAAATACAATA
AAAAGT
Found at i:11062794 original size:42 final size:42
Alignment explanation
Indices: 11062725--11063043 Score: 415
Period size: 42 Copynumber: 7.6 Consensus size: 42
11062715 AATGAAAAGT
* * * * *
11062725 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* * *
11062767 CACCTAGGCCTCTAAATACAATAAAAAGTAAATGAACCTCCA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* * *
11062809 CACCTGGGCCTTTAAATGCAATGAAAAGTGAATGGACCTCCA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* *
11062851 CACCT-GAGCCTTTAAATGCAATGAAAAGTGAATGGACCTCCA
1 CACCTAG-GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* * *
11062893 CACCTAGGACTTTAAATGCAATGAAAAGTAAATGGACCTCTA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* * *
11062935 CACCTAGGCCTCTAAATGCAATAAAAAGTAAATAGACCTCTA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
* * *
11062977 CGCCCAGGCCTCTAAATGTAATGAAAAGTAAATGGACCTCCA
1 CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
*
11063019 CACCTGGGCCTCTAAATGCAATGAA
1 CACCTAGGCCTCTAAATGCAATGAA
11063044 TGCTTTCTTT
Statistics
Matches: 244, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
41 1 0.00
42 242 0.99
43 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
CACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCA
Found at i:11062810 original size:113 final size:113
Alignment explanation
Indices: 11062612--11062837 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
11062602 TGGACCTCCA
11062612 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
1 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
11062677 AAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGT
66 AAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGT
11062725 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
1 CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
11062790 AAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGT
66 AAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGT
11062838 GAATGGACCT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (113 bp):
CACCTGGGCTTCTAAATGCAATGAAAAGTAAACGGGCCTGCACACCTAGGCCTCTAAATACAATA
AAAAGTAAATGAACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGT
Found at i:11076535 original size:144 final size:145
Alignment explanation
Indices: 11076253--11076545 Score: 400
Period size: 144 Copynumber: 2.0 Consensus size: 145
11076243 TTATTTTTTT
* *
11076253 AAAATCACTACTTTTCTTAAAAATCAAAGCTCTATTTCGAAATAGTTGAAAAAGATCAAAACTTC
1 AAAATCACTACTTTTCTTAAAAATCAAAACTCTATTTCGAAATAGTTGAAAAAGATCAAAAATTC
*
11076318 TTTTAAAAATATTTAGACTTTTCCTTAAAATGACTAAAAAATAGATTTTTATTTTAAAAATATAA
66 TTTTAAAAATATTTAAACTTTTCCTTAAAATGACTAAAAAATAGATTTTTATTTTAAAAATATAA
11076383 ACTTTCTCTTTTTAAA
131 ACTTTCTC-TTTTAAA
* * * *
11076399 AAAATCACTATTTTTCTTAAAAATCAAAACTTTTATTTCTAAATAGTT-AAAAA-ATTAAAAATT
1 AAAATCACTACTTTTCTTAAAAATCAAAAC-TCTATTTCGAAATAGTTGAAAAAGATCAAAAATT
* * *
11076462 -TGTTTTAAAA-A-TTAAAC-TTTCCTTTGAAATGACTAAAAAAATAGATTTTTATTTTTAAAAT
65 CT-TTTAAAAATATTTAAACTTTTCC-TTAAAATGACT-AAAAAATAGATTTTTATTTTAAAAAT
*
11076523 CTAAACTTTCTCTTTTAAA
127 ATAAACTTTCTCTTTTAAA
11076542 AAAA
1 AAAA
11076546 GAAACTAGAA
Statistics
Matches: 132, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
142 5 0.04
143 26 0.20
144 38 0.29
145 15 0.11
146 33 0.25
147 15 0.11
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (145 bp):
AAAATCACTACTTTTCTTAAAAATCAAAACTCTATTTCGAAATAGTTGAAAAAGATCAAAAATTC
TTTTAAAAATATTTAAACTTTTCCTTAAAATGACTAAAAAATAGATTTTTATTTTAAAAATATAA
ACTTTCTCTTTTAAA
Found at i:11077196 original size:35 final size:35
Alignment explanation
Indices: 11077150--11077220 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
11077140 CTATTGTTAG
11077150 TATGAGTGTACAAATATAGACATTAAATGTGTGAT
1 TATGAGTGTACAAATATAGACATTAAATGTGTGAT
* *
11077185 TATGAGTGTACAAATGTGGACATTAAATGTGTGAT
1 TATGAGTGTACAAATATAGACATTAAATGTGTGAT
11077220 T
1 T
11077221 TCAAAGGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (35 bp):
TATGAGTGTACAAATATAGACATTAAATGTGTGAT
Found at i:11077643 original size:21 final size:21
Alignment explanation
Indices: 11077613--11077652 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11077603 ATTTATTTGT
*
11077613 AAAATGTGTAATATACATGATA
1 AAAATGTGTAAAATA-ATGATA
11077635 AAAAT-TGTAAAATAATGA
1 AAAATGTGTAAAATAATGA
11077653 ATTGTATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAATGTGTAAAATAATGATA
Found at i:11093817 original size:15 final size:14
Alignment explanation
Indices: 11093785--11093822 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11093775 TTAGTGAAAG
11093785 AAAAATTTAATGTT
1 AAAAATTTAATGTT
11093799 AAAAATTTAAT-TAT
1 AAAAATTTAATGT-T
*
11093813 AAAAAATTAA
1 AAAAATTTAA
11093823 ATATCAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAAAATTTAATGTT
Found at i:11097042 original size:12 final size:12
Alignment explanation
Indices: 11097025--11097050 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11097015 AAACAAAAAC
11097025 AATTTTTTTTTG
1 AATTTTTTTTTG
11097037 AATTTTTTTTTG
1 AATTTTTTTTTG
11097049 AA
1 AA
11097051 AAATGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:11097752 original size:209 final size:210
Alignment explanation
Indices: 11097370--11097789 Score: 691
Period size: 209 Copynumber: 2.0 Consensus size: 210
11097360 TGCAACACAA
*
11097370 ATCCAAATTTTGTTTAATAGTTTACATGTCGCATAAAAAAATAAAAAATAAATGTAAAAGCATGT
1 ATCCAAAATTTGTTTAATAGTTTACATGTCGCATAAAAAAATAAAAAATAAATGTAAAAGCATGT
* *
11097435 AACTAGGCATTGGACGTGTCGTCCCCCAATCTGTTTCGTCAACTCTCGGTATGTTCCTTCTGTTA
66 AACTAGGCATTGGACGTGTCATCCCCCAATCTGTTTCGTCAACTCTCCGTATGTTCCTTCTGTTA
*
11097500 AGCACTATTTTATTCACACGCATCCGACGAATGGGCGTGCTTTGCTCTCTAGGATCAACATCCCC
131 AGCACTATTTTATTCACACGCATCCGACGAATGGGCATGCTTTGCTCTCTAGGATCAACATCCCC
11097565 GATCATAGGGCATGT
196 GATCATAGGGCATGT
* *
11097580 ATCCAAAATTTGTTTAATATTTTACATGTCGCAT-AAAAAATAAATAATAAATGTAAAAGCATGT
1 ATCCAAAATTTGTTTAATAGTTTACATGTCGCATAAAAAAATAAAAAATAAATGTAAAAGCATGT
* *
11097644 AACTATGCATTGGACGTGTCATCCCCTAAGTC-GTTTCGTCAACTCTCCGTATGTTCCTTCTGTT
66 AACTAGGCATTGGACGTGTCATCCCCCAA-TCTGTTTCGTCAACTCTCCGTATGTTCCTTCTGTT
* * * * *
11097708 AAGCACTATTTTCTTCACACGGATCCGATGGATGGGCATGCTTTGCTCTCTGGGATCAACATCCC
130 AAGCACTATTTTATTCACACGCATCCGACGAATGGGCATGCTTTGCTCTCTAGGATCAACATCCC
*
11097773 TGATCATAGGGCATGT
195 CGATCATAGGGCATGT
11097789 A
1 A
11097790 GGTGTAGCTA
Statistics
Matches: 195, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
209 161 0.83
210 34 0.17
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (210 bp):
ATCCAAAATTTGTTTAATAGTTTACATGTCGCATAAAAAAATAAAAAATAAATGTAAAAGCATGT
AACTAGGCATTGGACGTGTCATCCCCCAATCTGTTTCGTCAACTCTCCGTATGTTCCTTCTGTTA
AGCACTATTTTATTCACACGCATCCGACGAATGGGCATGCTTTGCTCTCTAGGATCAACATCCCC
GATCATAGGGCATGT
Found at i:11099613 original size:50 final size:50
Alignment explanation
Indices: 11099542--11099725 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
11099532 GGTAAAGAGG
* * **
11099542 TCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGACATGAGAAA
* * * * *
11099592 TCCC-TCTTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAT
1 TCCCAT-GTAAGACCATATCTGGGACATGGCATTGGCACCGACATGAGAAA
*
11099642 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATGA-AACA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCG-ACATGAGAA-A
* *
11099691 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGG
11099726 TATGTTATTA
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
48 3 0.03
49 38 0.33
50 72 0.63
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGACATGAGAAA
Found at i:11106195 original size:35 final size:35
Alignment explanation
Indices: 11106149--11106222 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
11106139 ATAAGTATTT
11106149 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
11106184 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
11106219 AGTT
1 AGTT
11106223 CATCTTAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
Found at i:11106227 original size:19 final size:19
Alignment explanation
Indices: 11106203--11106241 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11106193 AATAAATTAC
11106203 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
11106222 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
11106241 T
1 T
11106242 GTTTAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:11107549 original size:12 final size:11
Alignment explanation
Indices: 11107532--11107563 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11107522 GGAGGTTTGT
11107532 AAAAAAATTCA
1 AAAAAAATTCA
*
11107543 AAAAAAATTTA
1 AAAAAAATTCA
11107554 AAAAAAATTC
1 AAAAAAATTC
11107564 GTGCACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:11109725 original size:18 final size:18
Alignment explanation
Indices: 11109681--11109743 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
11109671 AAATGAGAGA
*
11109681 AAAAGAAGAAAATGAAA-
1 AAAAGAAGAAAAAGAAAG
11109698 ATGAAA-AAGAAAAAGAAAG
1 A--AAAGAAGAAAAAGAAAG
*
11109717 AAAAGAAGAAAAATTAAGAG
1 AAAAGAAGAAAAA-GAA-AG
11109737 AAAAGAA
1 AAAAGAA
11109744 ATCGATTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 4 0.11
18 19 0.50
19 6 0.16
20 9 0.24
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAGAAGAAAAAGAAAG
Found at i:11110688 original size:19 final size:19
Alignment explanation
Indices: 11110664--11110702 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11110654 AATAAATTAC
*
11110664 TCATCTTAGTCAATTGAGT
1 TCATCTTAGTCAATTAAGT
*
11110683 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTCAATTAAGT
11110702 T
1 T
11110703 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTCAATTAAGT
Found at i:11110738 original size:54 final size:54
Alignment explanation
Indices: 11110645--11110759 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
11110635 ATAAGTATTT
* *
11110645 AGTTACTGGAATAAATTACTCATCTTAGTCAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTCAATTAAGTTCATCTTAGTTAATTA
* *
11110699 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTCAATTAAGTTCATCTTAGTTAATTA
11110753 AGTTGCT
1 AGTTGCT
11110760 TAAATCATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTCAATTAAGTTCATCTTAGTTAATTA
Found at i:11110742 original size:19 final size:19
Alignment explanation
Indices: 11110718--11110756 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11110708 AATAAATTAC
11110718 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
11110737 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
11110756 T
1 T
11110757 GCTTAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:11115128 original size:275 final size:275
Alignment explanation
Indices: 11114637--11115185 Score: 1044
Period size: 275 Copynumber: 2.0 Consensus size: 275
11114627 ACTTGGATCA
* *
11114637 ACTCTGATGCCTTTAGCCTACACTATATGTCCCAGAAAATCGACTTCTCAGAGCTAGAACTCGCA
1 ACTCTGATGCCTTCAGCCTACACTATATGTCCCAGAAAATCAACTTCTCAGAGCTAGAACTCGCA
* *
11114702 TTTGCTAAACTTAGCAAACAGTTGTTTATCTTGTGGAGTTTGTAAAACAATTCTCAATTGTTCAG
66 TTTGCTAAACTTAGCAAACAGTTGTTTATCTTGCGGAGTTTGTAAAACAATTCTCAATTGCTCAG
11114767 CATGCTCAGATTCATCTCGGGAATATATTAGAATATCATAAAATCCATAAATATCGCAGGGGCAT
131 CATGCTCAGATTCATCTCGGGAATATATTAGAATATCATAAAATCCATAAATATCGCAGGGGCAT
11114832 TAGTTAAACCAAATGGCATCATAAGAAATTCATAGTGTTCGTACCTAGTTCTAAATGTAGTTTTC
196 TAGTTAAACCAAATGGCATCATAAGAAATTCATAGTGTTCGTACCTAGTTCTAAATGTAGTTTTC
11114897 AGCATATCCAAATCG
261 AGCATATCCAAATCG
11114912 ACTCTGATGCCTTCAGCCTACACTATATGTCCCAGAAAATCAACTTCTCAGAGCTAGAACTCGCA
1 ACTCTGATGCCTTCAGCCTACACTATATGTCCCAGAAAATCAACTTCTCAGAGCTAGAACTCGCA
11114977 TTTGCTAAACTTAGCAAACAGTTGTTTATCTTGCGGAGTTTGTAAAACAATTCTCAATTGCTCAG
66 TTTGCTAAACTTAGCAAACAGTTGTTTATCTTGCGGAGTTTGTAAAACAATTCTCAATTGCTCAG
*
11115042 CATGCTCAGATTCATCTCGGGAATATATTAGAATATCATAAAATCCATAAATATCGCAGGTGCAT
131 CATGCTCAGATTCATCTCGGGAATATATTAGAATATCATAAAATCCATAAATATCGCAGGGGCAT
11115107 TAGTTAAACCAAATGGCATCATAAGAAATTCATAGTGTTCGTACCTAGTTCTAAATGTAGTTTTC
196 TAGTTAAACCAAATGGCATCATAAGAAATTCATAGTGTTCGTACCTAGTTCTAAATGTAGTTTTC
*
11115172 AGCATATCTAAATC
261 AGCATATCCAAATC
11115186 TTTCACTCGT
Statistics
Matches: 268, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
275 268 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (275 bp):
ACTCTGATGCCTTCAGCCTACACTATATGTCCCAGAAAATCAACTTCTCAGAGCTAGAACTCGCA
TTTGCTAAACTTAGCAAACAGTTGTTTATCTTGCGGAGTTTGTAAAACAATTCTCAATTGCTCAG
CATGCTCAGATTCATCTCGGGAATATATTAGAATATCATAAAATCCATAAATATCGCAGGGGCAT
TAGTTAAACCAAATGGCATCATAAGAAATTCATAGTGTTCGTACCTAGTTCTAAATGTAGTTTTC
AGCATATCCAAATCG
Found at i:11119530 original size:9 final size:9
Alignment explanation
Indices: 11119516--11119575 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
11119506 TTCACATCTT
11119516 TCTCTCAAC
1 TCTCTCAAC
* *
11119525 TCTCTCGAT
1 TCTCTCAAC
*
11119534 TCTCTCAAAT
1 TCTCTC-AAC
11119544 TCTCTCAAAC
1 TCTCTC-AAC
* *
11119554 CCTCTCAAG
1 TCTCTCAAC
11119563 TCTCTCAAC
1 TCTCTCAAC
11119572 TCTC
1 TCTC
11119576 ATGTTTTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
9 26 0.62
10 16 0.38
ACGTcount: A:0.22, C:0.40, G:0.03, T:0.35
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:11125724 original size:112 final size:113
Alignment explanation
Indices: 11125516--11125725 Score: 325
Period size: 112 Copynumber: 1.9 Consensus size: 113
11125506 CATTTTAAAG
* * *
11125516 GAAAATTTATATTTTGAAAACAACGTTTTGATTTTTTTTTTCAACTATTTTGAAATAAAAGCTTT
1 GAAAATTTAGATTTTGAAAACAACGTTTTGATTTTTTTTCTCAACTATTTCGAAATAAAAGCTTT
* *
11125581 GATCTTTAAGACAAGTAATGATTTTTTAAAAGACGGAAAAAAACAAGA
66 GATCATTAAGAAAAGTAATGATTTTTTAAAAGACGGAAAAAAACAAGA
* *
11125629 GAAAGTTTAGATTTTTAAAACAAAC-TTTTGA-TTTTTTTCTCAACTATTTCGAAATAAAAGCTT
1 GAAAATTTAGATTTTGAAAAC-AACGTTTTGATTTTTTTTCTCAACTATTTCGAAATAAAAGCTT
*
11125692 TGATCATTAAGAAAAGTAGTGATTTTTTAAAAGA
65 TGATCATTAAGAAAAGTAATGATTTTTTAAAAGA
11125726 AAAAAATATA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
112 61 0.69
113 24 0.27
114 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (113 bp):
GAAAATTTAGATTTTGAAAACAACGTTTTGATTTTTTTTCTCAACTATTTCGAAATAAAAGCTTT
GATCATTAAGAAAAGTAATGATTTTTTAAAAGACGGAAAAAAACAAGA
Found at i:11125820 original size:156 final size:156
Alignment explanation
Indices: 11125629--11126042 Score: 552
Period size: 156 Copynumber: 2.6 Consensus size: 156
11125619 AAAAACAAGA
* *
11125629 GAAAGTTTAGATTTTTAAAACAAACTTTTGATTTTTTTCTCAACTATTTCGAAATAAAAGCTTTG
1 GAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTT-TCAACTATTTCGAAATAAAAGCTTTG
* * *
11125694 ATCATTAAGAAAAGTAGTGA-TTTTTTAAAAGAAAAAAATATAAA-TTTTAGATTTTTAAAAAT-
65 ATCTTTAAGAAAAGTAGTGATTTTTTTAAAA-AAAAAAAGAAAAAGTTTT-GATTTTTAAAAATA
* * *
11125756 AAAAATATGTTTTTTTAATCATTTTAAAG
128 AAAAAAATATTTTTTTAATAATTTTAAAG
*
11125785 GAAAGTATAAATTTTTAAAACAAAATTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGCTTT-
1 GAAAGTTTAAATTTTTAAAACAAAATTTTGA-TTTTTTTTCAACTATTTCGAAATAAAAGCTTTG
*
11125849 ATTCTTTAAGAAAAGTAGTGATTTTTTTAATAAAAAAAAAGAAAAAGTTTTTATTTTTAAAAATA
65 A-TCTTTAAGAAAAGTAGTGATTTTTTTAA-AAAAAAAAAGAAAAAGTTTTGATTTTTAAAAAT-
*
11125914 AAAAAAAATATTTTTTTAGTAATTTTAAAG
127 AAAAAAAATATTTTTTTAATAATTTTAAAG
* * * *
11125944 GAAAAGTTTAAATTTTTAAAATAAAGTTTTGA-TCTTTTTCAACTATTTCGAAAT-AAAGTTTTG
1 G-AAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCGAAATAAAAGCTTTG
* * *
11126007 ATTTTTAAGAAAAGTAGTTATTTTTTTAAAATAAAA
65 ATCTTTAAGAAAAGTAGTGATTTTTTTAAAAAAAAA
11126043 CTTTAATTTT
Statistics
Matches: 230, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
155 1 0.00
156 77 0.33
157 71 0.31
158 28 0.12
159 26 0.11
160 27 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (156 bp):
GAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCGAAATAAAAGCTTTGA
TCTTTAAGAAAAGTAGTGATTTTTTTAAAAAAAAAAAGAAAAAGTTTTGATTTTTAAAAATAAAA
AAAATATTTTTTTAATAATTTTAAAG
Found at i:11126017 original size:157 final size:156
Alignment explanation
Indices: 11125629--11126042 Score: 552
Period size: 157 Copynumber: 2.6 Consensus size: 156
11125619 AAAAACAAGA
* *
11125629 GAAAGTTTAGATTTTTAAAACAAACTTTTGATTTTTTTCTCAACTATTTCGAAATAAAAGCTTTG
1 GAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTT-TCAACTATTTCGAAATAAAAGCTTTG
** * *
11125694 ATCATTAAGAAAAGTAGTGA-TTTTTTAAAAGAAAAAAATATAAATTTTAGATTTTTAAAAATAA
65 ATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAGAAAAATTTTAGATTTTTAAAAATAA
* * *
11125758 AAATATGTTTTTTTAATCATTTTAAAG
130 AAAAATATTTTTTTAATAATTTTAAAG
*
11125785 GAAAGTATAAATTTTTAAAACAAAATTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGCTTT-
1 GAAAGTTTAAATTTTTAAAACAAAATTTTGA-TTTTTTTTCAACTATTTCGAAATAAAAGCTTTG
*
11125849 ATTCTTTAAGAAAAGTAGTGATTTTTTTAATAA-AAAAAAAGAAAAAGTTTT-TATTTTTAAAAA
65 ATT-TTTAAGAAAAGTAGTGATTTTTTTAA-AAGAAAAAAAGAAAAA-TTTTAGATTTTTAAAAA
*
11125912 TAAAAAAAAATATTTTTTTAGTAATTTTAAAG
127 T--AAAAAAATATTTTTTTAATAATTTTAAAG
* * * *
11125944 GAAAAGTTTAAATTTTTAAAATAAAGTTTTGA-TCTTTTTCAACTATTTCGAAAT-AAAGTTTTG
1 G-AAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCGAAATAAAAGCTTTG
* *
11126007 ATTTTTAAGAAAAGTAGTTATTTTTTTAAAATAAAA
65 ATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAA
11126043 CTTTAATTTT
Statistics
Matches: 230, Mismatches: 18, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
155 2 0.01
156 71 0.31
157 74 0.32
158 30 0.13
159 26 0.11
160 27 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (156 bp):
GAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCGAAATAAAAGCTTTGA
TTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAGAAAAATTTTAGATTTTTAAAAATAAA
AAAATATTTTTTTAATAATTTTAAAG
Found at i:11126165 original size:12 final size:12
Alignment explanation
Indices: 11126148--11126172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11126138 CATGGCCAAC
11126148 ATAGAAGGATGA
1 ATAGAAGGATGA
11126160 ATAGAAGGATGA
1 ATAGAAGGATGA
11126172 A
1 A
11126173 GATTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
ATAGAAGGATGA
Found at i:11127749 original size:20 final size:20
Alignment explanation
Indices: 11127724--11127762 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11127714 TTGTTTCTTC
11127724 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
11127744 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
11127763 AAATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:11128030 original size:49 final size:49
Alignment explanation
Indices: 11127977--11128148 Score: 222
Period size: 49 Copynumber: 3.5 Consensus size: 49
11127967 CAAAGCCATG
11127977 TCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATA
1 TCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATA
* * * * * * * *
11128026 TCCCAGATATGGTCTTACATGGGA-GTTCTCAT-AACGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGATGTT-TCCTGTA--TTGTCAATGTCATA
11128076 TCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATA
1 TCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATA
*
11128125 TCCCAGATATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
11128149 GTTCTCATAA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
48 4 0.04
49 58 0.57
50 35 0.35
51 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATA
Found at i:11128092 original size:50 final size:50
Alignment explanation
Indices: 11127964--11128304 Score: 237
Period size: 50 Copynumber: 6.7 Consensus size: 50
11127954 GATAATAACA
* * * *
11127964 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTA--T
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-AACGG
* * * *
11128013 TGTCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAACGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAACGG
* * * *
11128063 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTA--T
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-AACGG
* * * *
11128112 TGTCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAACGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAACGG
* * ** **
11128162 TGCCCATGCCATGTCCCAGACATAGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATAACGG
* * * * * ** **
11128212 TGCCAACGCCATGTCCTACACATGATCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAA---C---GG
* *
11128268 TGTCAATGCTATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
11128305 TCTCATCCCT
Statistics
Matches: 224, Mismatches: 52, Indels: 25
0.74 0.17 0.08
Matches are distributed among these distances:
48 8 0.04
49 70 0.31
50 110 0.49
51 5 0.02
53 1 0.00
56 30 0.13
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAACGG
Found at i:11128142 original size:99 final size:99
Alignment explanation
Indices: 11127971--11128192 Score: 435
Period size: 99 Copynumber: 2.2 Consensus size: 99
11127961 ACATGCCAAA
11127971 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATATCCCAGATAT
11128036 GGTCTTACATGGGAGTTCTCATAACGGTGCCCAT
66 GGTCTTACATGGGAGTTCTCATAACGGTGCCCAT
11128070 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATATCCCAGATAT
11128135 GGTCTTACATGGGAGTTCTCATAACGGTGCCCAT
66 GGTCTTACATGGGAGTTCTCATAACGGTGCCCAT
*
11128169 GCCATGTCCCAGACATAGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
11128193 GAGGGACCTC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 122 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTATTGTCAATGTCATATCCCAGATAT
GGTCTTACATGGGAGTTCTCATAACGGTGCCCAT
Found at i:11133634 original size:13 final size:13
Alignment explanation
Indices: 11133616--11133642 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11133606 CGCTCTGCAA
11133616 GCCGAAGACGTAT
1 GCCGAAGACGTAT
11133629 GCCGAAGACGTAT
1 GCCGAAGACGTAT
11133642 G
1 G
11133643 TGAATAGATT
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:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCGAAGACGTAT
Found at i:11143683 original size:20 final size:20
Alignment explanation
Indices: 11143630--11143683 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
11143620 TTAAATCAAG
11143630 AAAAAAAAAGAAAAAACAAC
1 AAAAAAAAAGAAAAAACAAC
* *
11143650 GAAACAAAAGAAAAAAC--C
1 AAAAAAAAAGAAAAAACAAC
11143668 AAAAAAAGAAGAAAAA
1 AAAAAAA-AAGAAAAA
11143684 TTAGAGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 15 0.52
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAACAAC
Found at i:11144145 original size:42 final size:42
Alignment explanation
Indices: 11144086--11144222 Score: 195
Period size: 42 Copynumber: 3.3 Consensus size: 42
11144076 AAGGAAAGCA
** *
11144086 TTCATTGCATTTAGAGGCCCAAGCATGTAGGTCCATTTA-TAT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACT-T
* *
11144128 TTCATTGCATTTAGAGGCCCAAGTGTGGATGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* *
11144170 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
11144212 TTCATTGCATT
1 TTCATTGCATT
11144223 GTACACGAAG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 84 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
Found at i:11145178 original size:53 final size:53
Alignment explanation
Indices: 11145120--11145288 Score: 155
Period size: 53 Copynumber: 3.2 Consensus size: 53
11145110 ACTAAGTTTA
*
11145120 GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGT
1 GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
* ** ***** * * **
11145173 GA--TTTTTTAAAAGAAAAAAAAAGAGAAAGTTTAGACTTTTTTAA-AAAAGTTTT
1 GATTTTTTTTCAACTATTTCGAAATA-AAAGTTTTGA--TTTTTAAGAAAAGTAGT
*
11145226 GATTTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGT
1 GA-TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
11145280 GATTTTTTT
1 GATTTTTTT
11145289 AAAGGAAAAA
Statistics
Matches: 83, Mismatches: 26, Indels: 14
0.67 0.21 0.11
Matches are distributed among these distances:
51 13 0.16
52 9 0.11
53 23 0.28
54 16 0.19
55 9 0.11
56 13 0.16
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (53 bp):
GATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGT
Found at i:11145256 original size:107 final size:107
Alignment explanation
Indices: 11145113--11145328 Score: 339
Period size: 107 Copynumber: 2.0 Consensus size: 107
11145103 TTTGAAAACT
*
11145113 AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGTGA-TT
1 AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATTT
*
11145177 TTTTAAA-AGAAAAAAA-AAGAGAAAGTTTAGACTTTTTTAAAA
66 TTTTAAAGAAAAAAAAAGAAGAGAAAGTTTAGA--TTTTTAAAA
* *
11145219 AAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATT
1 AAGTTTAGA-TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATT
11145284 TTTTTAAAGGAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
65 TTTTTAAA-GAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
11145328 A
1 A
11145329 TAAAAATTTG
Statistics
Matches: 101, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
106 8 0.08
107 51 0.50
108 9 0.09
109 10 0.10
110 8 0.08
111 15 0.15
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (107 bp):
AAGTTTAGATTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAATAGTGATTT
TTTTAAAGAAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAAA
Found at i:11145283 original size:54 final size:54
Alignment explanation
Indices: 11145122--11145288 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 54
11145112 TAAGTTTAGA
*
11145122 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAATAGTGA-
1 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
* ** ***** * * **
11145175 --TTTTTTAAAAGAAAAAAAAAGAGAAAGTTTAGACTTTTTTAA-AAAAGTTTTGAT
1 TTTTTTTTCAACTATTTCGAAATA-AAAGTTTTGA--TTTTTAAGAAAAGTAGTGAT
*
11145229 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGAT
1 TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
11145283 TTTTTT
1 TTTTTT
11145289 AAAGGAAAAA
Statistics
Matches: 81, Mismatches: 26, Indels: 13
0.68 0.22 0.11
Matches are distributed among these distances:
51 13 0.16
52 9 0.11
53 14 0.17
54 23 0.28
55 9 0.11
56 13 0.16
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (54 bp):
TTTTTTTTCAACTATTTCGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTGAT
Found at i:11145589 original size:21 final size:21
Alignment explanation
Indices: 11145565--11145622 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
11145555 ATTTCGAAAT
*
11145565 AAAGCTTTGATTTTT-TTAAGA
1 AAAG-TTTGATTTTTCTAAAGA
*
11145586 AAAGTAGTGATTTTTCTAAAGA
1 AAAGT-TTGATTTTTCTAAAGA
*
11145608 AAATTTTGATTTTTC
1 AAAGTTTGATTTTTC
11145623 AAAATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.68
22 9 0.29
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (21 bp):
AAAGTTTGATTTTTCTAAAGA
Found at i:11145600 original size:153 final size:153
Alignment explanation
Indices: 11145192--11145610 Score: 531
Period size: 160 Copynumber: 2.7 Consensus size: 153
11145182 AAAGAAAAAA
* *
11145192 AAAGAGAAAGTTTAGACTTTTTTAAAAAAGTTTTGATTTTTTTTTCAACTATTTCGAAATAAAAG
1 AAAGA-AAAGTTTA-AATTTTTAAAAAAAGTTTTGA--TTTTTTTCAACTATTTCGAAATAAAAG
* *
11145257 TTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAGGAAAAAAAAAGAAGAGAAAGTTTAGATTT
62 CTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAG-AAAAAAAAGAAGAGAAAGTTTAGATTT
** *
11145322 TTAAAAATAAAAATTTGTTTTATTAGTCATTTT
126 TTAAAAATAAAAA-----TAAATTAGTAATTTT
* * * * *
11145355 AAAGGAAATTTTAAATTTTTAAAATAAAATTTTAATTTTTTTCTACTATTTCGAAATAAAAGCTT
1 AAAGAAAAGTTTAAATTTTTAAAA-AAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTT
*
11145420 TGATCTTTAAGAAAATTAGTGATTTTTTTAAAAGAAAAAAAA-AAGAGAAAGTTTAGATTTTTAA
65 TGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAGAAGAGAAAGTTTAGATTTTTAA
11145484 AAATAAAAA-AAATTAGTAATTTT
130 AAATAAAAATAAATTAGTAATTTT
*
11145507 CAAGCAAAAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCGAAAT-AAAGCT
1 AAAG-AAAAGTTTAAATTTTTAAAA-AAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCT
* *
11145571 TTGATTTTTTTAAGAAAAGTAGTGATTTTTCT-AAAGAAAA
64 TTGA--TCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAA
11145611 TTTTGATTTT
Statistics
Matches: 229, Mismatches: 23, Indels: 18
0.85 0.09 0.07
Matches are distributed among these distances:
152 24 0.10
153 55 0.24
154 23 0.10
158 31 0.14
159 8 0.03
160 60 0.26
161 9 0.04
162 15 0.07
163 4 0.02
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (153 bp):
AAAGAAAAGTTTAAATTTTTAAAAAAAGTTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTT
GATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAGAAGAGAAAGTTTAGATTTTTAAA
AATAAAAATAAATTAGTAATTTT
Found at i:11151749 original size:20 final size:20
Alignment explanation
Indices: 11151706--11151792 Score: 56
Period size: 20 Copynumber: 4.3 Consensus size: 20
11151696 CGCTTTTTTG
* * *
11151706 CTCTCAATCCCTTTTTGCTCT
1 CTCTCATTCTCTTTTT-CTTT
11151727 CTCTCATTCTCTTTTTCTTT
1 CTCTCATTCTCTTTTTCTTT
* *
11151747 CTC-GA-TCTCTTTTACTTTTT
1 CTCTCATTCTCTTTT--TCTTT
11151767 CTCTCATT-TCCTTTTT-TCTT
1 CTCTCATTCT-CTTTTTCT-TT
11151787 CTCTCA
1 CTCTCA
11151793 ATTTCATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.15
19 2 0.04
20 22 0.41
21 16 0.30
22 6 0.11
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.57
Consensus pattern (20 bp):
CTCTCATTCTCTTTTTCTTT
Found at i:11152777 original size:22 final size:21
Alignment explanation
Indices: 11152736--11152786 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
11152726 CTTTCAAGAC
*
11152736 TTTTTTTTAACTTCATAATAAA
1 TTTTTTTTAACTTCAGAAT-AA
*
11152758 TTTTTTTTATACTTC-GAATAT
1 TTTTTTTTA-ACTTCAGAATAA
11152779 TTTTTTTT
1 TTTTTTTT
11152787 CAATTACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 12 0.46
23 5 0.19
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTTTAACTTCAGAATAA
Found at i:11165685 original size:110 final size:111
Alignment explanation
Indices: 11165473--11165685 Score: 261
Period size: 110 Copynumber: 1.9 Consensus size: 111
11165463 GAATTATAGA
* *
11165473 TAATATAATTCGCTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTGATACACAAT
1 TAATATAATTCACTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTAATACACAAT
* * * *
11165538 TTACTCGTAACATCAATTCAATTAGCAACGTAAATATAATACACAT
66 TAACTCGTAAAATCAACTCAATTAACAACGTAAATATAATACACAT
* * * ***
11165584 TAATATAATTTACTTTGTATAT-AAAATAATATTTTAGTTATTT-TTAGCTAAATTAATATTGAA
1 TAATATAATTCACTTTGTATATAAAAAT-ATATTTTAATTATTTCTCAGCTAAATTAATACACAA
* *
11165647 TTAACTCGTAATAAT-AACTCAATTAATAACTTAAATATA
65 TTAACTCGTAA-AATCAACTCAATTAACAACGTAAATATA
11165686 TTATAAAAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
110 50 0.58
111 36 0.42
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (111 bp):
TAATATAATTCACTTTGTATATAAAAATATATTTTAATTATTTCTCAGCTAAATTAATACACAAT
TAACTCGTAAAATCAACTCAATTAACAACGTAAATATAATACACAT
Found at i:11172015 original size:16 final size:15
Alignment explanation
Indices: 11171976--11172021 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
11171966 ACTACTCAAG
*
11171976 TATTAAAATTTGTTAT
1 TATT-AAATTTGTTAC
11171992 TATTAAATTGTGTTAC
1 TATTAAATT-TGTTAC
11172008 TATTAAATTCTGTT
1 TATTAAATT-TGTT
11172022 TAGATTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (15 bp):
TATTAAATTTGTTAC
Found at i:11175051 original size:21 final size:20
Alignment explanation
Indices: 11175026--11175078 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
11175016 TTTAATGTTT
11175026 AAAAATTATGAGTGATA-TACC
1 AAAAATTATGAG-GA-AGTACC
* * *
11175047 AAAAAATACGAGGAAGTGCC
1 AAAAATTATGAGGAAGTACC
11175067 AAAAATTATGAG
1 AAAAATTATGAG
11175079 AGAGAACTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 10 0.38
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAAATTATGAGGAAGTACC
Found at i:11175839 original size:20 final size:20
Alignment explanation
Indices: 11175811--11176072 Score: 195
Period size: 20 Copynumber: 13.2 Consensus size: 20
11175801 AAAAAAATAT
11175811 AAAAA-TATGAGAGAATACA
1 AAAAATTATGAGAGAATACA
* * *
11175830 AAAAATTATGGGAAAATACC
1 AAAAATTATGAGAGAATACA
* *
11175850 AAAAATT-T-AGGGAATACC
1 AAAAATTATGAGAGAATACA
11175868 AAAAATTATGAGAGAATACA
1 AAAAATTATGAGAGAATACA
* *
11175888 AAAATTTATGAGA-AAGTAAAA
1 AAAAATTATGAGAGAA-T-ACA
*
11175909 AAAAATTATGA-AGGAATATA
1 AAAAATTATGAGA-GAATACA
*
11175929 AAAAAATATGAG-GAAGTACA
1 AAAAATTATGAGAGAA-TACA
* * * *
11175949 AAAAAATATGTTG-TAATACC
1 AAAAATTATG-AGAGAATACA
* * *
11175969 AGAAA-TATGAGAAAATACT
1 AAAAATTATGAGAGAATACA
*
11175988 AAAAATTATGAGAGGATACA
1 AAAAATTATGAGAGAATACA
*
11176008 AAAAATTATGAGGGAATATCA
1 AAAAATTATGAGAGAATA-CA
* *
11176029 AAAAATGATGAGGGAATATCA
1 AAAAATTATGAGAGAATA-CA
11176050 AAAAATT-TGAG-GAAGTA-A
1 AAAAATTATGAGAGAA-TACA
11176068 AAAAA
1 AAAAA
11176073 AAAAAAGAAA
Statistics
Matches: 200, Mismatches: 29, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
18 21 0.10
19 28 0.14
20 105 0.52
21 44 0.22
22 2 0.01
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAAATTATGAGAGAATACA
Found at i:11175847 original size:30 final size:30
Alignment explanation
Indices: 11175775--11175834 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11175765 AGTTATGAGC
11175775 AAATATCAAAAAT-TGAGAGGAATTACAAAA
1 AAATAT-AAAAATATGAGAGGAATTACAAAA
11175805 AAATATAAAAATATGAGA-GAA-TACAAAA
1 AAATATAAAAATATGAGAGGAATTACAAAA
11175833 AA
1 AA
11175835 TTATGGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 9 0.31
29 9 0.31
30 11 0.38
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.18
Consensus pattern (30 bp):
AAATATAAAAATATGAGAGGAATTACAAAA
Found at i:11175847 original size:68 final size:67
Alignment explanation
Indices: 11175742--11175872 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 67
11175732 GAAATATAAA
* * * *
11175742 AAAAATTATGAGGAGATACAAACAGTTATGAGCAAATATCAAAAATTGAGAGGAATTACAAAAAA
1 AAAAATTATGAGGAGATACAAAAAATTATGAGAAAATACCAAAAATTGAG-GGAA-TACAAAAAA
11175807 ATAT
64 ATAT
* * *
11175811 AAAAA-TATGA-GAGAATACAAAAAATTATGGGAAAATACCAAAAATTTAGGGAATACCAAAAA
1 AAAAATTATGAGGAG-ATACAAAAAATTATGAGAAAATACCAAAAATTGAGGGAATACAAAAAA
11175873 TTATGAGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
66 8 0.15
67 7 0.13
68 34 0.63
69 5 0.09
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (67 bp):
AAAAATTATGAGGAGATACAAAAAATTATGAGAAAATACCAAAAATTGAGGGAATACAAAAAAAT
AT
Found at i:11175880 original size:58 final size:58
Alignment explanation
Indices: 11175811--11176073 Score: 185
Period size: 61 Copynumber: 4.4 Consensus size: 58
11175801 AAAAAAATAT
* *
11175811 AAAAA-TATGAGAGAATACAAAAAATTATGGGAAAATACCAAAAATTTAGGGAATACC
1 AAAAATTATGAGAGAATACAAAAAATTATGAGAAAATACCAAAAATTTAGGGAATACA
* * ** * *
11175868 AAAAATTATGAGAGAATACAAAAATTTATGAGAAAGTAAAAAAAAATTATGAAGGAATATA
1 AAAAATTATGAGAGAATACAAAAAATTATGAGAAAAT-ACCAAAAATT-T-AGGGAATACA
* * * * * * ** *
11175929 AAAAAATATGAG-GAAGTACAAAAAAATATGTTG-TAATACCAGAAATATGAGAAAATACT
1 AAAAATTATGAGAGAA-TACAAAAAATTATG-AGAAAATACCAAAAAT-TTAGGGAATACA
* ** * *
11175988 AAAAATTATGAGAGGATACAAAAAATTATGAGGGAATATCAAAAAATGATGAGGGAATATCA
1 AAAAATTATGAGAGAATACAAAAAATTATGAGAAAATA-CCAAAAAT--TTAGGGAATA-CA
*
11176050 AAAAATT-TGAG-GAAGTAAAAAAAA
1 AAAAATTATGAGAGAA-TACAAAAAA
11176074 AAAAAGAAAA
Statistics
Matches: 158, Mismatches: 35, Indels: 22
0.73 0.16 0.10
Matches are distributed among these distances:
57 5 0.03
58 29 0.18
59 41 0.26
60 20 0.13
61 54 0.34
62 9 0.06
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (58 bp):
AAAAATTATGAGAGAATACAAAAAATTATGAGAAAATACCAAAAATTTAGGGAATACA
Found at i:11175926 original size:41 final size:41
Alignment explanation
Indices: 11175868--11176074 Score: 167
Period size: 41 Copynumber: 5.1 Consensus size: 41
11175858 AGGGAATACC
* *
11175868 AAAAATTATG-AGAGAATACAAAAATTTATGAGAAAGTAAAA
1 AAAAATTATGAAG-GAATACAAAAAATTATGAGGAAGTAAAA
* * *
11175909 AAAAATTATGAAGGAATATAAAAAAATATGAGGAAGTACAA
1 AAAAATTATGAAGGAATACAAAAAATTATGAGGAAGTAAAA
** * * * * * **
11175950 AAAAA-TATGTTGTAATACCAGAAA-TATGAGAAAAT-ACT
1 AAAAATTATGAAGGAATACAAAAAATTATGAGGAAGTAAAA
**
11175988 AAAAATTATGAGAGG-ATACAAAAAATTATGAGGGAA-TATCA
1 AAAAATTATGA-AGGAATACAAAAAATTATGA-GGAAGTAAAA
* *
11176029 AAAAATGATGAGGGAATATCAAAAAATT-TGAGGAAGTAAAA
1 AAAAATTATGAAGGAATA-CAAAAAATTATGAGGAAGTAAAA
11176070 AAAAA
1 AAAAA
11176075 AAAAGAAAAG
Statistics
Matches: 129, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
38 5 0.04
39 21 0.16
40 26 0.20
41 66 0.51
42 11 0.09
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAATTATGAAGGAATACAAAAAATTATGAGGAAGTAAAA
Found at i:11175926 original size:99 final size:99
Alignment explanation
Indices: 11175811--11176054 Score: 234
Period size: 100 Copynumber: 2.5 Consensus size: 99
11175801 AAAAAAATAT
*
11175811 AAAAA-TATG-AGAGAATACAAAAAATTATG-GGAAAATAC-CAAAAAT-T-TAGGGAATACCAA
1 AAAAATTATGAAG-GAATACAAAAAATTATGAGG-AAATACAAAAAAATATGT-GGGAATACCAA
* *
11175870 AAATTATGAGAGAATAC-AAAAATTTATGAGA-AAGTAAAA
63 AAA-TATGAGAAAATACTAAAAA-TTATGAGAGGA-T-AAA
* * * * * *
11175909 AAAAATTATGAAGGAATATAAAAAAATATGAGGAAGTACAAAAAAATATGTTGTAATACCAGAAA
1 AAAAATTATGAAGGAATACAAAAAATTATGAGGAAATACAAAAAAATATGTGGGAATACCAAAAA
*
11175974 TATGAGAAAATACTAAAAATTATGAGAGGATACA
66 TATGAGAAAATACTAAAAATTATGAGAGGATAAA
* * *
11176008 AAAAATTATGAGGGAATATCAAAAAATGATGAGGGAATATCAAAAAA
1 AAAAATTATGAAGGAATA-CAAAAAATTATGAGGAAATA-CAAAAAA
11176055 TTTGAGGAAG
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
98 5 0.04
99 43 0.36
100 46 0.38
101 25 0.21
102 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (99 bp):
AAAAATTATGAAGGAATACAAAAAATTATGAGGAAATACAAAAAAATATGTGGGAATACCAAAAA
TATGAGAAAATACTAAAAATTATGAGAGGATAAA
Found at i:11176007 original size:120 final size:119
Alignment explanation
Indices: 11175811--11176074 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 119
11175801 AAAAAAATAT
* * **
11175811 AAAAATATGAGAGAA-TACAAAAAATTATGGGAAAATACCAAAAATTTAGGGAATACCAAAAATT
1 AAAAATATGAG-GAAGTACAAAAAAATATGGGAAAATACCAAAAATTGAGAAAATACCAAAAATT
* *
11175875 ATGAGAGAATACAAAAATTTATGA-GAAAGTAAAAAAAAATTATGAAGGAATATAA
65 ATGAGAGAATACAAAAAATTATGAGGAAA-TAAAAAAAAATGATGAAGGAATATAA
* * * *
11175930 AAAAATATGAGGAAGTACAAAAAAATATGTTG-TAATACCAGAAATATGAGAAAATACTAAAAAT
1 AAAAATATGAGGAAGTACAAAAAAATATG-GGAAAATACCAAAAAT-TGAGAAAATACCAAAAAT
* * ** * *
11175994 TATGAGAGGATACAAAAAATTATGAGGGAATATCAAAAAATGATGAGGGAATATCA
64 TATGAGAGAATACAAAAAATTATGAGGAAATAAAAAAAAATGATGAAGGAATATAA
* *
11176050 AAAAATTTGAGGAAGTAAAAAAAAA
1 AAAAATATGAGGAAGTACAAAAAAA
11176075 AAAAGAAAAG
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
118 3 0.02
119 35 0.28
120 82 0.67
121 3 0.02
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.21
Consensus pattern (119 bp):
AAAAATATGAGGAAGTACAAAAAAATATGGGAAAATACCAAAAATTGAGAAAATACCAAAAATTA
TGAGAGAATACAAAAAATTATGAGGAAATAAAAAAAAATGATGAAGGAATATAA
Found at i:11176053 original size:22 final size:21
Alignment explanation
Indices: 11175988--11176055 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
11175978 AGAAAATACT
*
11175988 AAAAATTATGAGAGG-ATA-CA
1 AAAAATGATGAG-GGAATATCA
*
11176008 AAAAATTATGAGGGAATATCA
1 AAAAATGATGAGGGAATATCA
11176029 AAAAATGATGAGGGAATATCA
1 AAAAATGATGAGGGAATATCA
11176050 AAAAAT
1 AAAAAT
11176056 TTGAGGAAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 28 0.62
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (21 bp):
AAAAATGATGAGGGAATATCA
Found at i:11177261 original size:9 final size:9
Alignment explanation
Indices: 11177246--11177287 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
11177236 TGTTCAAATC
11177246 ATAATTATT
1 ATAATTATT
*
11177255 CTAATTA-T
1 ATAATTATT
*
11177263 ATTAATTATG
1 A-TAATTATT
11177273 ATAATTATT
1 ATAATTATT
11177282 ATAATT
1 ATAATT
11177288 GTAATTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (9 bp):
ATAATTATT
Found at i:11178821 original size:124 final size:124
Alignment explanation
Indices: 11178527--11178966 Score: 747
Period size: 124 Copynumber: 3.5 Consensus size: 124
11178517 GATAAAATCA
* * * *
11178527 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
11178592 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTTTGAGA-AAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGA-ACAAATAGTAT-AAAAATGCTTC
* * *
11178652 AGGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
11178717 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTATAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTATAAAAATGCTTC
*
11178776 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
11178841 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTATAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTATAAAAATGCTTC
* *
11178900 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCTCGTGGACGCGCCTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
11178965 AG
66 AG
11178967 CATGTTTGGG
Statistics
Matches: 302, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
124 198 0.66
125 104 0.34
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGATGTTTCTGAACAAATAGTATAAAAATGCTTC
Found at i:11182032 original size:19 final size:19
Alignment explanation
Indices: 11182008--11182058 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
11181998 ATCTAACATT
11182008 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
11182027 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
11182043 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
11182059 CAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:11182151 original size:102 final size:102
Alignment explanation
Indices: 11181975--11182168 Score: 343
Period size: 102 Copynumber: 1.9 Consensus size: 102
11181965 TATTTTTTTC
11181975 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
1 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
11182040 TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
66 TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
* * * *
11182077 TACCAATCAAAATATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTTTTAATTGTAT
1 TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
*
11182142 TAATTGTTAGTAAATTTATCAAATTAT
66 TAATTGTTAGTAAAATTATCAAATTAT
11182169 ATCATATTAG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 87 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (102 bp):
TACCAATCAAAACATTTTGGAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAT
TAATTGTTAGTAAAATTATCAAATTATTAATCGTTAG
Found at i:11182244 original size:15 final size:15
Alignment explanation
Indices: 11182224--11182283 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
11182214 GGGTTTTAGT
11182224 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
11182239 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
*
11182254 G---TTACGGTT-AGG
1 GTTTTTA-AGTTAAGG
11182266 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
11182281 GTT
1 GTT
11182284 AGGGTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.18
13 3 0.08
14 3 0.08
15 25 0.66
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:11182267 original size:27 final size:27
Alignment explanation
Indices: 11182236--11182289 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
11182226 TTTTAAGTTA
11182236 AGGGTTTTTAAGTTAAGGGTTACGGTT
1 AGGGTTTTTAAGTTAAGGGTTACGGTT
*
11182263 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTACGGTT
11182290 TTTAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTACGGTT
Found at i:11182284 original size:21 final size:21
Alignment explanation
Indices: 11182259--11182517 Score: 425
Period size: 21 Copynumber: 12.4 Consensus size: 21
11182249 TAAGGGTTAC
11182259 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
11182280 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
* *
11182301 CGTTAAGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAG
11182321 GGTTAGGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAG
11182341 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
11182362 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
11182383 GGTTA-GGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
11182403 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
11182424 TGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
11182445 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
11182467 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
*
11182489 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
11182510 TGTTAGGG
1 GGTTAGGG
11182518 GGTTAGAGTT
Statistics
Matches: 224, Mismatches: 11, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
20 58 0.26
21 123 0.55
22 43 0.19
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:11182334 original size:62 final size:62
Alignment explanation
Indices: 11182254--11182517 Score: 399
Period size: 62 Copynumber: 4.2 Consensus size: 62
11182244 TAAGTTAAGG
* *
11182254 GTTACGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGCGTTAAGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAA
*
11182316 GTTAAGGTTAGGGTTTTTAAGTTAA-GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAA
* * *
11182377 GTTAAGGGTTA-GGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGTGTTAGGGTTTTTAA
1 GTTAA-GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAA
11182439 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT-AGAGTTTTTA
1 GTTAA-GG-TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAAG-GTTTTTA
11182503 A
62 A
11182504 GTTAAGTGTTAGGG
1 GTTAAG-GTTAGGG
11182518 GGTTAGAGTT
Statistics
Matches: 187, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
61 53 0.28
62 71 0.38
63 3 0.02
64 25 0.13
65 35 0.19
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (62 bp):
GTTAAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTTAA
Found at i:11182336 original size:41 final size:42
Alignment explanation
Indices: 11182259--11182517 Score: 425
Period size: 41 Copynumber: 6.2 Consensus size: 42
11182249 TAAGGGTTAC
11182259 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
* *
11182301 CGTTAAGGTTTTTAAGTTAA-GGTTAGGGTTTTTAAGTTAA-
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
11182341 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
11182383 GGTTA-GGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
11182424 TGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
*
11182467 GGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
*
11182510 TGTTAGGG
1 GGTTAGGG
11182518 GGTTAGAGTT
Statistics
Matches: 202, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
40 18 0.09
41 79 0.39
42 46 0.23
43 38 0.19
44 21 0.10
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (42 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAG
Found at i:11182559 original size:7 final size:7
Alignment explanation
Indices: 11182547--11182586 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
11182537 GTTTGTCAAT
11182547 TAAATTA
1 TAAATTA
11182554 TAAATT-
1 TAAATTA
11182560 T-AATTA
1 TAAATTA
11182566 TAAATTA
1 TAAATTA
11182573 TAAATTTA
1 TAAA-TTA
11182581 TAAATT
1 TAAATT
11182587 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:11182559 original size:12 final size:12
Alignment explanation
Indices: 11182544--11182586 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
11182534 AGGGTTTGTC
11182544 AATTAAATTATA
1 AATTAAATTATA
*
11182556 AATTTAATTATA
1 AATTAAATTATA
11182568 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
11182583 AATT
1 AATT
11182587 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:11183768 original size:7 final size:7
Alignment explanation
Indices: 11183758--11183783 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11183748 TTATATACAT
11183758 AATACTA
1 AATACTA
11183765 AATACTA
1 AATACTA
11183772 AATACTA
1 AATACTA
11183779 AATAC
1 AATAC
11183784 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:11184953 original size:11 final size:12
Alignment explanation
Indices: 11184937--11184973 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
11184927 AAAAATAGGG
11184937 ATTTAAGAG-AA
1 ATTTAAGAGCAA
11184948 ATTTAAGAGCAA
1 ATTTAAGAGCAA
11184960 A-TTAAGAGCAA
1 ATTTAAGAGCAA
11184971 ATT
1 ATT
11184974 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:11185036 original size:11 final size:11
Alignment explanation
Indices: 11184990--11185050 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
11184980 AAATATGGAT
11184990 TTGAGAG-AAA
1 TTGAGAGCAAA
* *
11185000 TTTAGAAGGAAA
1 TTGAG-AGCAAA
11185012 TTGAGAGCAAA
1 TTGAGAGCAAA
11185023 TTGAGAGCAAA
1 TTGAGAGCAAA
* *
11185034 TTGATAGGAAA
1 TTGAGAGCAAA
11185045 TTGAGA
1 TTGAGA
11185051 AATTAATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
10 4 0.09
11 32 0.74
12 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (11 bp):
TTGAGAGCAAA
Found at i:11187094 original size:62 final size:63
Alignment explanation
Indices: 11186957--11187102 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 63
11186947 AAGGTACTTG
* *
11186957 TATGGTGTGGATAAACCACT-AGGTTATGAATGCACAATGGGTCTGCAGATAAAAGCTGCTAA
1 TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
*** * * * * ** *
11187019 TACAATATAGATAAACCACTCA-GTTGTGAATGCACAACGAGTTTGCAGATAAAATTTGTTAA
1 TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
*
11187081 TATGGTGTGGATAAATCACTCA
1 TATGGTGTGGATAAACCACTCA
11187103 ACAGTGTGGA
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
62 64 0.98
63 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (63 bp):
TATGGTGTGGATAAACCACTCAGGTTATGAATGCACAACGAGTCTGCAGATAAAAGCTGCTAA
Found at i:11187123 original size:21 final size:21
Alignment explanation
Indices: 11187085--11187160 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
11187075 TGTTAATATG
*
11187085 GTGTGGATAAA-TCACTC-AAC
1 GTGTGGATAAACT-GCTCAAAC
11187105 AGTGTGGATAAACTGCTCAAAC
1 -GTGTGGATAAACTGCTCAAAC
** *
11187127 GATGCAGATAAACTGCTCAAAT
1 G-TGTGGATAAACTGCTCAAAC
*
11187149 TTGTGGATAAAC
1 GTGTGGATAAAC
11187161 CAATCAACGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 24 0.53
22 21 0.47
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (21 bp):
GTGTGGATAAACTGCTCAAAC
Found at i:11187275 original size:34 final size:34
Alignment explanation
Indices: 11187234--11187313 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
11187224 GCAATATGAC
*
11187234 ATACTTATAACAGA-TCAATGC-GATAGCAATTAAT
1 ATACTTATAACAGATTCAA-ACAG-TAGCAATTAAT
* * *
11187268 ATGCTTATAACATATTGAAACAGTAGCAATTAAT
1 ATACTTATAACAGATTCAAACAGTAGCAATTAAT
11187302 ATACTTATAACA
1 ATACTTATAACA
11187314 AATTAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (34 bp):
ATACTTATAACAGATTCAAACAGTAGCAATTAAT
Found at i:11187336 original size:34 final size:34
Alignment explanation
Indices: 11187257--11187396 Score: 117
Period size: 34 Copynumber: 4.1 Consensus size: 34
11187247 ATCAATGCGA
* * *
11187257 TAGCAATTAATATGCTTATAACATATTGAA--ACAG
1 TAGCAAATAATATGCTTATAACA-AATCAATTA-AG
* * *
11187291 TAGCAATTAATATACTTATAACAAATTAATTAAG
1 TAGCAAATAATATGCTTATAACAAATCAATTAAG
* * * *
11187325 TACCAAATAATATGCTGTA-ATCAGATCAATTCAG
1 TAGCAAATAATATGCT-TATAACAAATCAATTAAG
*
11187359 TAGCAAATAATATGCTT-TAATCAAATCAATTTAG
1 TAGCAAATAATATGCTTATAA-CAAATCAATTAAG
11187393 TAGC
1 TAGC
11187397 TAACGACATG
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
33 6 0.07
34 78 0.90
35 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (34 bp):
TAGCAAATAATATGCTTATAACAAATCAATTAAG
Found at i:11188630 original size:34 final size:34
Alignment explanation
Indices: 11188592--11188667 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
11188582 TAATAATTTT
11188592 TGGAATAAATGCTTATATTAATTTATTTAATTGC
1 TGGAATAAATGCTTATATTAATTTATTTAATTGC
* *
11188626 TGGAATAAATGCTTATCTTAGTTTATTTAATTGC
1 TGGAATAAATGCTTATATTAATTTATTTAATTGC
11188660 TGGAATAA
1 TGGAATAA
11188668 CTTATTGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (34 bp):
TGGAATAAATGCTTATATTAATTTATTTAATTGC
Found at i:11188822 original size:74 final size:74
Alignment explanation
Indices: 11188735--11188883 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
11188725 TATTAATTAA
* *
11188735 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGTTGAC
1 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
11188800 TATTTAGTT
66 TATTTAGTT
* *
11188809 GCTTATTAAGTTTAGTGTGTTTAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGTAGGTGAC
1 GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
*
11188874 TATTTGGTT
66 TATTTAGTT
11188883 G
1 G
11188884 GAATCAGTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (74 bp):
GCTTATTAAGTTTAGTGTGTTAAAATGTGTTTAAATGTGTTTGTTAATAAATGCTTGCAGGTGAC
TATTTAGTT
Found at i:11188839 original size:10 final size:10
Alignment explanation
Indices: 11188824--11188850 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11188814 TTAAGTTTAG
11188824 TGTGTTTAAA
1 TGTGTTTAAA
11188834 TGTGTTTAAA
1 TGTGTTTAAA
11188844 TGTGTTT
1 TGTGTTT
11188851 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:11202003 original size:15 final size:15
Alignment explanation
Indices: 11201983--11202016 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11201973 AGTTTCAATC
11201983 ATGTATGATCAA-TAT
1 ATGTATGA-CAAGTAT
11201998 ATGTATGACAAGTAT
1 ATGTATGACAAGTAT
11202013 ATGT
1 ATGT
11202017 GGCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
ATGTATGACAAGTAT
Found at i:11206227 original size:103 final size:103
Alignment explanation
Indices: 11206105--11206297 Score: 368
Period size: 103 Copynumber: 1.9 Consensus size: 103
11206095 CATGGATATG
*
11206105 TAGTTCGAATGTAAGATTTAATTTCTTGAGTTGAATTTAAAGTTATGAATTATATATATAAAGTT
1 TAGTTCGAATATAAGATTTAATTTCTTGAGTTGAATTTAAAGTTATGAATTATATATATAAAGTT
11206170 TGAATGTATGATACAAGTTCTTTGATTCTTTGAGTTTC
66 TGAATGTATGATACAAGTTCTTTGATTCTTTGAGTTTC
11206208 TAGTTCGAATATAAGATTTAATTTCTTGAGTTGAATTTAAAGTTATGAATTATATATATAAAGTT
1 TAGTTCGAATATAAGATTTAATTTCTTGAGTTGAATTTAAAGTTATGAATTATATATATAAAGTT
*
11206273 TGAATGTATGATTCAAGTTCTTTGA
66 TGAATGTATGATACAAGTTCTTTGA
11206298 GCTGAACTTA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (103 bp):
TAGTTCGAATATAAGATTTAATTTCTTGAGTTGAATTTAAAGTTATGAATTATATATATAAAGTT
TGAATGTATGATACAAGTTCTTTGATTCTTTGAGTTTC
Found at i:11206662 original size:41 final size:41
Alignment explanation
Indices: 11206596--11206837 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
11206586 ATTTGAGATT
*
11206596 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
* * * *
11206637 ATCGGGTTATAAGCCTAGCATGCTAAGTGCCAGTGATCTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
11206678 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
** *
11206719 ATTGGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
*
11206760 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
* * *
11206801 ATCAGGTTATAAGCCTAACAGACTAAGTGCCAGTGAA
1 ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
11206838 TTTATTTAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 181 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
ATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGA
Found at i:11207056 original size:36 final size:36
Alignment explanation
Indices: 11207012--11207108 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 36
11207002 GTTGGATATA
*
11207012 TATATATGTATGCATTCGGCATATGTGGATTATAAG
1 TATATATGTATGCATTCGGCATATGTAGATTATAAG
* * *
11207048 TATTTATG--TGCGTTCGGCACT-TGTAGTTTATAAG
1 TATATATGTATGCATTCGGCA-TATGTAGATTATAAG
* * * *
11207082 TATAAATATATGCTTTTGGCATATGTA
1 TATATATGTATGCATTCGGCATATGTA
11207109 TTTGAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
34 26 0.54
35 2 0.04
36 20 0.42
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (36 bp):
TATATATGTATGCATTCGGCATATGTAGATTATAAG
Found at i:11215702 original size:18 final size:19
Alignment explanation
Indices: 11215668--11215706 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11215658 ACGTAACACG
*
11215668 AATTAAATTTAAGCATATT
1 AATTAAATTTAAACATATT
11215687 AATTAAA-TTAAACATATT
1 AATTAAATTTAAACATATT
11215705 AA
1 AA
11215707 CATCACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAATTTAAACATATT
Found at i:11216593 original size:22 final size:22
Alignment explanation
Indices: 11216546--11216593 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
11216536 TGTCGAAAAT
* *
11216546 AATA-AAAATTTATCAAAATTT
1 AATATAAAATTAATCAAAATTC
* *
11216567 GATATAAAATTAATTAAAATTC
1 AATATAAAATTAATCAAAATTC
11216589 AATAT
1 AATAT
11216594 GTTCATAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATAAAATTAATCAAAATTC
Found at i:11219466 original size:25 final size:26
Alignment explanation
Indices: 11219437--11219492 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
11219427 TTAATTAGTA
*
11219437 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATATTAAATAATTAAATAAAAT
11219461 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATTAAATAATTAAATAAAAT
11219487 TAAAAT
1 TAAAAT
11219493 TTAGGTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAATAATTAAATAAAAT
Found at i:11219630 original size:21 final size:20
Alignment explanation
Indices: 11219601--11219642 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
11219591 GTGTCTTGAT
11219601 GGTGTGGTGCGA-TAGACAAG
1 GGTGTGGTGCGAGTAG-CAAG
11219621 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
11219642 G
1 G
11219643 CGCGGTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Done.