Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 33 of 208
Found at i:13037557 original size:29 final size:29
Alignment explanation
Indices: 13037496--13037557 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
13037486 TCAATTTCAT
*
13037496 TTTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAGAAAATTTTAAATATTTTTATA
13037525 TTTTTAA-AATAATTTTAAA-ATTTTTAATA
1 TTTTTAAGAA-AATTTTAAATATTTTT-ATA
13037554 TTTT
1 TTTT
13037558 CAACAATGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAATATTTTTATA
Found at i:13037677 original size:14 final size:15
Alignment explanation
Indices: 13037648--13037681 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13037638 AAATTTTAAA
13037648 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
13037663 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
13037677 TTTTA
1 TTTTA
13037682 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:13046989 original size:34 final size:29
Alignment explanation
Indices: 13046936--13047117 Score: 237
Period size: 28 Copynumber: 6.2 Consensus size: 29
13046926 ATATTATTTG
**
13046936 ATTTAATT-AAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
13046963 ATTAAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
13046992 ATCTAATTAAAAACCCTAA-CCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
13047020 ATTTAATTAAAAACCCTAA-CCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
13047048 ATTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAACC-----TA
13047082 ATTTAATTAAAAACCCTAACCCTAACCCTA
1 ATTTAATTAAAAACCCTAACCCTAA-CCTA
*
13047112 ACTTAA
1 ATTTAA
13047118 ACCCTAAAAA
Statistics
Matches: 139, Mismatches: 7, Indels: 15
0.86 0.04 0.09
Matches are distributed among these distances:
27 7 0.05
28 65 0.47
29 31 0.22
30 7 0.05
34 27 0.19
35 2 0.01
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:13052481 original size:42 final size:42
Alignment explanation
Indices: 13052434--13052660 Score: 239
Period size: 42 Copynumber: 5.5 Consensus size: 42
13052424 CAGTGCCTAT
* * * * *
13052434 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTATGTCTAA
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
13052476 CAGGTTTAATGCCGGTGAAATAATTTCAGACTTTACATCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
13052518 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * *
13052560 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
13052601 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGTCTAG
*
13052642 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAA
13052661 TCTGTTTAAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
40 5 0.03
41 60 0.38
42 95 0.59
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:13054512 original size:29 final size:29
Alignment explanation
Indices: 13054470--13054527 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
13054460 AAAGCTGAAG
*
13054470 AACTCGGGAAAGAGAAGAGAAATACTGAC
1 AACTCAGGAAAGAGAAGAGAAATACTGAC
*
13054499 AACTCAGGAAAGAGAAGAGAAATGCTGAC
1 AACTCAGGAAAGAGAAGAGAAATACTGAC
13054528 TTTGAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.14, G:0.28, T:0.10
Consensus pattern (29 bp):
AACTCAGGAAAGAGAAGAGAAATACTGAC
Found at i:13059426 original size:42 final size:42
Alignment explanation
Indices: 13059379--13059549 Score: 202
Period size: 42 Copynumber: 4.1 Consensus size: 42
13059369 TAGTGCCTAT
* * *
13059379 CAGGTTTATTGTCAGTGAAACAATATCAGACTTTATGTCTAG
1 CAGGTTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * * *
13059421 CAGGTTTAATGCCGGTGAAATAATTTCAGACTTTACATCTAG
1 CAGGTTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* *
13059463 CAGGCTTAATGCCAGTGAAACAATACCAGACTTTACGTCTAG
1 CAGGTTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * * *
13059505 CAGGCTTT-ATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGG-TTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
13059546 CAGG
1 CAGG
13059550 CTAAGTGCCG
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 20 0.18
42 87 0.80
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
CAGGTTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
Found at i:13076004 original size:11 final size:11
Alignment explanation
Indices: 13075990--13076028 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13075980 TAAAAGAACC
13075990 ATAATTAATAT
1 ATAATTAATAT
* *
13076001 ATAATTTATAA
1 ATAATTAATAT
*
13076012 AAAATTAATAT
1 ATAATTAATAT
13076023 ATAATT
1 ATAATT
13076029 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTAATAT
Found at i:13076017 original size:22 final size:22
Alignment explanation
Indices: 13075992--13076041 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
13075982 AAAGAACCAT
13075992 AATTAATATATAATTTATAAAA
1 AATTAATATATAATTTATAAAA
13076014 AATTAATATATAATTTATAAAA
1 AATTAATATATAATTTATAAAA
13076036 AATTAA
1 AATTAA
13076042 ACTTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAATATATAATTTATAAAA
Found at i:13078167 original size:9 final size:9
Alignment explanation
Indices: 13078153--13078192 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
13078143 ATTTTTCCGC
*
13078153 AATTCGGTT
1 AATTCGGGT
13078162 AATTCGGGT
1 AATTCGGGT
13078171 AATTCGGGT
1 AATTCGGGT
13078180 AATTCGGGT
1 AATTCGGGT
13078189 AATT
1 AATT
13078193 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
AATTCGGGT
Found at i:13078370 original size:12 final size:12
Alignment explanation
Indices: 13078353--13078377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13078343 AGTAATTTCG
13078353 GGTCGGTTAACC
1 GGTCGGTTAACC
13078365 GGTCGGTTAACC
1 GGTCGGTTAACC
13078377 G
1 G
13078378 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:13078622 original size:21 final size:21
Alignment explanation
Indices: 13078598--13078640 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13078588 GAAAAGAACT
13078598 TAAATGGTAATTAAACTATGG
1 TAAATGGTAATTAAACTATGG
13078619 TAAATGGTAATTAAACTATGG
1 TAAATGGTAATTAAACTATGG
13078640 T
1 T
13078641 CAAAGTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (21 bp):
TAAATGGTAATTAAACTATGG
Found at i:13086399 original size:16 final size:14
Alignment explanation
Indices: 13086364--13086390 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13086354 CACAAACGAT
13086364 AAAATTTTCACACG
1 AAAATTTTCACACG
13086378 AAAATTTTCACAC
1 AAAATTTTCACAC
13086391 ATATAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATTTTCACACG
Found at i:13089028 original size:41 final size:41
Alignment explanation
Indices: 13088977--13089113 Score: 156
Period size: 41 Copynumber: 3.4 Consensus size: 41
13088967 TTGCCATCGT
* * *
13088977 ATAGCTGAAGCTATCATAATCTCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATCATAATCTCGCACACTAAGTGCCATAA
** *
13089018 ATAGCCGAAGCTATC-TCGGTCTCGCACACTAAGTGTCATAA
1 ATAGCCGAAGCTATCAT-AATCTCGCACACTAAGTGCCATAA
*
13089059 ATAGCTGAAGCTATTCCA-AA--TCGCACACTAAGTGCCATAA
1 ATAGCCGAAGCTA-T-CATAATCTCGCACACTAAGTGCCATAA
13089099 ATAGCCGAAGCTATC
1 ATAGCCGAAGCTATC
13089114 TCGAATTTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 32 0.40
41 45 0.56
42 1 0.01
43 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATAGCCGAAGCTATCATAATCTCGCACACTAAGTGCCATAA
Found at i:13089098 original size:40 final size:40
Alignment explanation
Indices: 13088998--13089112 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
13088988 TATCATAATC
* * ****
13088998 TCGCACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTC
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTAT-TCCAAA
* *
13089039 TCGCACACTAAGTGTCATAAATAGCTGAAGCTATTCCAAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCCAAA
13089079 TCGCACACTAAGTGCCATAAATAGCCGAAGCTAT
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTAT
13089113 CTCGAATTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
40 34 0.53
41 30 0.47
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCCAAA
Found at i:13090648 original size:30 final size:31
Alignment explanation
Indices: 13090609--13090666 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
13090599 TTTTACGAGC
*
13090609 TTAGAGGCAAAATCATAATTTTG-TAAAACT
1 TTAGAGGCAAAAACATAATTTTGCTAAAACT
*
13090639 TTAGGGGCAAAAACATAATTTTGCTAAA
1 TTAGAGGCAAAAACATAATTTTGCTAAA
13090667 GTATGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (31 bp):
TTAGAGGCAAAAACATAATTTTGCTAAAACT
Found at i:13093188 original size:21 final size:21
Alignment explanation
Indices: 13093164--13093207 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13093154 AGTAAATTTA
*
13093164 ATTCATTTTAATACAATTCAC
1 ATTCAATTTAATACAATTCAC
* *
13093185 ATTCAATTTCATCCAATTCAC
1 ATTCAATTTAATACAATTCAC
13093206 AT
1 AT
13093208 CGTAGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTCAATTTAATACAATTCAC
Found at i:13096696 original size:16 final size:16
Alignment explanation
Indices: 13096675--13096707 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13096665 TTCGTTTTGC
13096675 TTCTCAGTTTCT-TTCT
1 TTCTCA-TTTCTATTCT
13096691 TTCTCATTTCTATTCT
1 TTCTCATTTCTATTCT
13096707 T
1 T
13096708 CCTTTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.24, G:0.03, T:0.64
Consensus pattern (16 bp):
TTCTCATTTCTATTCT
Found at i:13096738 original size:5 final size:5
Alignment explanation
Indices: 13096728--13096762 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
13096718 TATATATATA
*
13096728 ATAAT ATAAT ATAAT ATATT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
13096763 AAACATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:13096750 original size:21 final size:22
Alignment explanation
Indices: 13096719--13096762 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
13096709 CTTTTGTTAT
13096719 ATATATATAATAATATAATATA
1 ATATATATAATAATATAATATA
13096741 ATATAT-TAATAATATAATATA
1 ATATATATAATAATATAATATA
13096762 A
1 A
13096763 AAACATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATAATATAATATA
Found at i:13100343 original size:24 final size:24
Alignment explanation
Indices: 13100316--13100368 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
13100306 CGATGCTTCT
13100316 CGTTAATTGCTCTTCGAAGCTACC
1 CGTTAATTGCTCTTCGAAGCTACC
* *
13100340 CGTTAATTGCTCTTTGGAGCTACC
1 CGTTAATTGCTCTTCGAAGCTACC
*
13100364 AGTTA
1 CGTTA
13100369 TAGGCTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (24 bp):
CGTTAATTGCTCTTCGAAGCTACC
Found at i:13101081 original size:14 final size:15
Alignment explanation
Indices: 13101057--13101085 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13101047 TTTTTCTGTG
13101057 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
13101072 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
13101086 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:13102304 original size:44 final size:42
Alignment explanation
Indices: 13102230--13102380 Score: 110
Period size: 42 Copynumber: 3.5 Consensus size: 42
13102220 ATATATGTTA
* * * * *
13102230 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGACATCGGCATC-ATATT-AGATT
* *
13102273 TATGTATAAGACCATGTCTGGGACATCGGCATCATATTTGATT
1 T-CGTATAAGACCATGTCTGGGACATCGGCATCATATTAGATT
* * *
13102316 TCGTGTAAGACCCTGTCTGGGACAGT-GCCATCGATATT-GATT
1 TCGTATAAGACCATGTCTGGGACA-TCGGCATC-ATATTAGATT
* * * *
13102358 ACATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATGTCTGGGAC
13102381 GTTGGCATTG
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 48 0.54
43 14 0.16
44 27 0.30
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATCGGCATCATATTAGATT
Found at i:13102333 original size:42 final size:42
Alignment explanation
Indices: 13102279--13102380 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
13102269 GATTTATGTA
* * * *
13102279 TAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTTCGTG
1 TAAGACCCTGTCTGGGACAGT-GCCATCGATA-TTGATTACATG
13102321 TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
1 TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
13102363 TAAGACCAC-GTCTGGGAC
1 TAAGACC-CTGTCTGGGAC
13102381 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
Found at i:13104651 original size:30 final size:29
Alignment explanation
Indices: 13104612--13104678 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
13104602 TTTTTTATTT
* *
13104612 AAATAACCCAAATAATTTAATTAAGTACCA
1 AAATGACCCAAAT-ATTTAATTAAATACCA
** *
13104642 AAATGACCCACCTTTTTAATTAAATACCA
1 AAATGACCCAAATATTTAATTAAATACCA
13104671 AAATGACC
1 AAATGACC
13104679 TAAAATCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (29 bp):
AAATGACCCAAATATTTAATTAAATACCA
Found at i:13105311 original size:13 final size:13
Alignment explanation
Indices: 13105289--13105335 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
13105279 TATATTTTTC
*
13105289 TTATTCTATTTTGT
1 TTATT-TATTTTAT
13105303 TTATTTATTTTAT
1 TTATTTATTTTAT
13105316 TTATTTATTGTTAT
1 TTATTTATT-TTAT
*
13105330 TAATTT
1 TTATTT
13105336 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.53
14 14 0.47
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:13105591 original size:19 final size:18
Alignment explanation
Indices: 13105564--13105611 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
13105554 TAATATTGGT
*
13105564 TATACTTAACATTTTTTAA
1 TATATTTAA-ATTTTTTAA
*
13105583 TATATTTAATTTTTTTAA
1 TATATTTAAATTTTTTAA
*
13105601 AATATATTAAA
1 TATAT-TTAAA
13105612 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTTAAATTTTTTAA
Found at i:13105598 original size:18 final size:19
Alignment explanation
Indices: 13105575--13105610 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13105565 ATACTTAACA
*
13105575 TTTTTTAATATAT-TTAAT
1 TTTTTTAAAATATATTAAT
13105593 TTTTTTAAAATATATTAA
1 TTTTTTAAAATATATTAA
13105611 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTAAAATATATTAAT
Found at i:13105624 original size:71 final size:71
Alignment explanation
Indices: 13105528--13105671 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
13105518 ATATTTTTAA
* * * * * *
13105528 AAAATATATTGAATATATTATAATTTTAATATTGGTTATACTTAACATTTTTTAATATATTTAAT
1 AAAATATATTAAAAATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAAT
*
13105593 TTTTTT
66 TTCTTT
* *
13105599 AAAATATATTAAAAATTTTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATGTTTAAT
1 AAAATATATTAAAAATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAAT
13105664 TTCTTT
66 TTCTTT
13105670 AA
1 AA
13105672 GTTTTTAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (71 bp):
AAAATATATTAAAAATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAAT
TTCTTT
Found at i:13105768 original size:20 final size:20
Alignment explanation
Indices: 13105745--13105816 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
13105735 TTAAGTACAT
*
13105745 AAATTTATGAATGTGTACTA
1 AAATTTATAAATGTGTACTA
* * ** *
13105765 AAATTAAAAAAT-TAAAATA
1 AAATTTATAAATGTGTACTA
13105784 TAAATTTATAAATGTGTACTA
1 -AAATTTATAAATGTGTACTA
*
13105805 AAATTTAAAAAT
1 AAATTTATAAAT
13105817 TATAACCAAC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 4 0.11
20 30 0.79
21 4 0.11
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
AAATTTATAAATGTGTACTA
Found at i:13105787 original size:40 final size:40
Alignment explanation
Indices: 13105743--13105818 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
13105733 TATTAAGTAC
*
13105743 ATAAATTTATGAATGTGTACTAAAATTAAAAAATTAAAAT
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
*
13105783 ATAAATTTATAAATGTGTACTAAAATTTAAAAATTA
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTA
13105819 TAACCAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (40 bp):
ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
Found at i:13106374 original size:10 final size:10
Alignment explanation
Indices: 13106361--13106395 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
13106351 TTTTAAATAC
13106361 TTTTTTAATT
1 TTTTTTAATT
13106371 TTTTTTAA-T
1 TTTTTTAATT
13106380 TTTTTTAATT
1 TTTTTTAATT
13106390 TTTTTT
1 TTTTTT
13106396 TGTGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:13106375 original size:9 final size:9
Alignment explanation
Indices: 13106361--13106394 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
13106351 TTTTAAATAC
13106361 TTTTTTAATT
1 TTTTTTAA-T
13106371 TTTTTTAAT
1 TTTTTTAAT
13106380 TTTTTTAAT
1 TTTTTTAAT
13106389 TTTTTT
1 TTTTTT
13106395 TTGTGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:13106756 original size:16 final size:16
Alignment explanation
Indices: 13106688--13106758 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
13106678 TAAATTTTAC
* *
13106688 TTTTTAATATATATTT
1 TTTTTAACAAATATTT
* **
13106704 TTTTAAATGAAT-TTAT
1 TTTTTAACAAATATT-T
13106720 TTTTTAACAAATAAATCTT
1 TTTTTAACAAAT--AT-TT
13106739 TTTTTAACAAATATTT
1 TTTTTAACAAATATTT
13106755 TTTT
1 TTTT
13106759 AATTAATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.05
16 25 0.57
17 2 0.05
19 14 0.32
20 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (16 bp):
TTTTTAACAAATATTT
Found at i:13106819 original size:21 final size:20
Alignment explanation
Indices: 13106777--13106819 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
13106767 CAAATTTCAC
**
13106777 TTTTTAAAATAAAATATTAT
1 TTTTTAAAATAAAATAGAAT
*
13106797 TTTTTAAAATTTAAATAGAAT
1 TTTTTAAAA-TAAAATAGAAT
13106818 TT
1 TT
13106820 AAAAAATGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTTAAAATAAAATAGAAT
Found at i:13107081 original size:22 final size:24
Alignment explanation
Indices: 13107029--13107087 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 24
13107019 ATATCTTTAA
13107029 AAATAAT-TTA-AAAATCATAATT
1 AAATAATATTATAAAATCATAATT
*
13107051 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTATAAAATCATAATT
13107072 AAATAATATT-TAAAAT
1 AAATAATATTATAAAAT
13107088 ATTAAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 14 0.45
22 13 0.42
23 4 0.13
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAATATTATAAAATCATAATT
Found at i:13107178 original size:21 final size:21
Alignment explanation
Indices: 13107138--13107209 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
13107128 AAATATTTAA
*
13107138 ATATTTTATATTATTAAAAATAT
1 ATATTTAATATT-TTAAAAA-AT
13107161 ATATTTAATATTTTAAAAAAT
1 ATATTTAATATTTTAAAAAAT
*
13107182 AATATTCAA-ATTTTAAAAAAT
1 -ATATTTAATATTTTAAAAAAT
13107203 A-ATTTAA
1 ATATTTAA
13107210 AAATAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 14 0.31
22 14 0.31
23 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTAATATTTTAAAAAAT
Found at i:13107216 original size:32 final size:34
Alignment explanation
Indices: 13107167--13107236 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
13107157 ATATATATTT
* *
13107167 AATATTTTAAAAAATAATA-TTCAAATTTTAAAA
1 AATAATTTAAAAAATAATATTTAAAATTTTAAAA
13107200 AATAATTT-AAAAATAATATTTAAAATTTTAAAA
1 AATAATTTAAAAAATAATATTTAAAATTTTAAAA
13107233 AATA
1 AATA
13107237 TATATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (34 bp):
AATAATTTAAAAAATAATATTTAAAATTTTAAAA
Found at i:13107300 original size:14 final size:13
Alignment explanation
Indices: 13107278--13107321 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
13107268 AAATTTTTTA
*
13107278 AAATTAATAACAAT
1 AAATAAATAA-AAT
13107292 AAATAAATAAAAT
1 AAATAAATAAAAT
*
13107305 AAAATAAACAAAAT
1 -AAATAAATAAAAT
13107319 AAA
1 AAA
13107322 ATAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:13107305 original size:19 final size:19
Alignment explanation
Indices: 13107283--13107325 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13107273 TTTTAAAATT
*
13107283 AATAACAATAAA-TAAATAA
1 AATAA-AATAAACAAAATAA
13107302 AATAAAATAAACAAAATAA
1 AATAAAATAAACAAAATAA
13107321 AATAA
1 AATAA
13107326 GAAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAATAAACAAAATAA
Found at i:13107331 original size:14 final size:14
Alignment explanation
Indices: 13107292--13107325 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13107282 TAATAACAAT
*
13107292 AAATAAATAAAATA
1 AAATAAACAAAATA
13107306 AAATAAACAAAATA
1 AAATAAACAAAATA
13107320 AAATAA
1 AAATAA
13107326 GAAAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAACAAAATA
Found at i:13107388 original size:19 final size:18
Alignment explanation
Indices: 13107327--13107396 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
13107317 ATAAAATAAG
13107327 AAAAAAAGAAAAAACTT-
1 AAAAAAAGAAAAAACTTA
*
13107344 AAAAAAAGAAAAAAATTTA
1 AAAAAAAG-AAAAAACTTA
* *
13107363 AAGAAAAAGACAAAAGTTA
1 AA-AAAAAGAAAAAACTTA
13107382 ATAAAAAAGTAAAAA
1 A-AAAAAAG-AAAAA
13107397 TAATAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.18
18 8 0.18
19 17 0.39
20 11 0.25
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.13
Consensus pattern (18 bp):
AAAAAAAGAAAAAACTTA
Found at i:13121207 original size:7 final size:7
Alignment explanation
Indices: 13121195--13121221 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13121185 TGTAGCTTTT
13121195 AAATTTC
1 AAATTTC
13121202 AAATTTC
1 AAATTTC
13121209 AAATTTC
1 AAATTTC
13121216 AAATTT
1 AAATTT
13121222 AATTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTC
Found at i:13121584 original size:30 final size:30
Alignment explanation
Indices: 13121527--13121586 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13121517 AATTAGTAAA
*
13121527 GATAAAATTATATTTTAGCCTTCTAAAAAT
1 GATAAAATTATATTTAAGCCTTCTAAAAAT
* *
13121557 GATAAAATTTTAATTTAATCCTT-TAAAAAT
1 GATAAAATTAT-ATTTAAGCCTTCTAAAAAT
13121587 TATATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (30 bp):
GATAAAATTATATTTAAGCCTTCTAAAAAT
Found at i:13145765 original size:3 final size:3
Alignment explanation
Indices: 13145757--13145783 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13145747 GACGTAATGT
13145757 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
13145784 ACAACTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13149205 original size:23 final size:23
Alignment explanation
Indices: 13149157--13149220 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
13149147 TGATCAATAA
*
13149157 ACGACACACAAGGTGCCT--GAT
1 ACGACACACAAAGTGCCTGAGAT
*
13149178 ACGACACATAAAGTGCCTGAGAT
1 ACGACACACAAAGTGCCTGAGAT
13149201 ACGACACACAAAGTGCCTGA
1 ACGACACACAAAGTGCCTGA
13149221 TCGGCAAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 16 0.42
23 22 0.58
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (23 bp):
ACGACACACAAAGTGCCTGAGAT
Found at i:13149572 original size:16 final size:16
Alignment explanation
Indices: 13149546--13149585 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13149536 TTAATAATAA
*
13149546 TACTTATCTTA-TATT
1 TACTTACCTTATTATT
13149561 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
13149578 TACTTACC
1 TACTTACC
13149586 ATACACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.53
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:13149826 original size:17 final size:16
Alignment explanation
Indices: 13149795--13149842 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
13149785 CTTCCTTCCT
*
13149795 TCTCTGTTTCGTTTTGC
1 TCTCTGTTTC-TTTTTC
13149812 TCTCTGTTTCTTTTTC
1 TCTCTGTTTCTTTTTC
* *
13149828 TTTTTGTTTCTTTTT
1 TCTCTGTTTCTTTTT
13149843 TTTTTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.00, C:0.19, G:0.10, T:0.71
Consensus pattern (16 bp):
TCTCTGTTTCTTTTTC
Found at i:13149835 original size:16 final size:16
Alignment explanation
Indices: 13149816--13149861 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
13149806 TTTTGCTCTC
13149816 TGTTTCTTTTTCTTTT
1 TGTTTCTTTTTCTTTT
13149832 TGTTTCTTTTT-TTTT
1 TGTTTCTTTTTCTTTT
*
13149847 TCATTTGCTTTTTCT
1 T-GTTT-CTTTTTCT
13149862 AATAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 5 0.19
16 14 0.54
17 6 0.23
18 1 0.04
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (16 bp):
TGTTTCTTTTTCTTTT
Found at i:13150533 original size:21 final size:20
Alignment explanation
Indices: 13150509--13150547 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
13150499 CATGATTCTA
13150509 AAAATTCAAAAAATATAAATT
1 AAAATTCAAAAAAT-TAAATT
13150530 AAAATTCAAAAAATTAAA
1 AAAATTCAAAAAATTAAA
13150548 AAAAACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATTCAAAAAATTAAATT
Found at i:13150947 original size:17 final size:17
Alignment explanation
Indices: 13150922--13150979 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
13150912 CAAGCGTTTT
*
13150922 TTTTTATAATTTATAAA
1 TTTTAATAATTTATAAA
*
13150939 TTTTAATAATTT-TGAA
1 TTTTAATAATTTATAAA
*
13150955 TTATATATATATTTA-AAA
1 TTTTA-ATA-ATTTATAAA
13150973 TTTTAAT
1 TTTTAAT
13150980 TTGTATTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.21
17 16 0.48
18 10 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTAATAATTTATAAA
Found at i:13150961 original size:25 final size:23
Alignment explanation
Indices: 13150928--13150981 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
13150918 TTTTTTTTTA
13150928 TAATTTATAAAT-TTTAATAATTT
1 TAATTTATAAATATTTAA-AATTT
*
13150951 TGAATTATATATATATTTAAAATTT
1 T-AATT-TATAAATATTTAAAATTT
13150976 TAATTT
1 TAATTT
13150982 GTATTTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.07
24 8 0.30
25 12 0.44
26 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TAATTTATAAATATTTAAAATTT
Found at i:13151195 original size:31 final size:30
Alignment explanation
Indices: 13151159--13151235 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
13151149 ATTTTAACGG
* *
13151159 TAGAGTGACTAAAATTAAGAACTTATTTAA
1 TAGAGTGACTAAAATTAACAACTTATCTAA
* *
13151189 TGAGAGTGACTAAAATTGACAATTTATCTAA
1 T-AGAGTGACTAAAATTAACAACTTATCTAA
13151220 TATGAGTGACTAAAAT
1 TA-GAGTGACTAAAAT
13151236 AATTTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
TAGAGTGACTAAAATTAACAACTTATCTAA
Found at i:13156547 original size:33 final size:33
Alignment explanation
Indices: 13156409--13156554 Score: 93
Period size: 33 Copynumber: 4.4 Consensus size: 33
13156399 TGTTTATATG
**
13156409 TAAGACCATAGTTGGGCTATTG-CATTCTGATGA
1 TAAGACCATAACTGGGCTA-TGACATTCTGATGA
* * * *
13156442 TAAGACCATAACTGGGTTATGACACTATGAACG-
1 TAAGACCATAACTGGGCTATGACATTCTG-ATGA
* *** * * * *
13156475 TAAGACGATGGTTGGACCATGGCAATGT-TTAT-A
1 TAAGACCATAACTGGGCTATGAC-AT-TCTGATGA
13156508 TTAAGACCATAACTGGGCTATGACATTCTGATGA
1 -TAAGACCATAACTGGGCTATGACATTCTGATGA
13156542 TAAGACCATAACT
1 TAAGACCATAACT
13156555 AGGTTATGGC
Statistics
Matches: 80, Mismatches: 25, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
32 3 0.04
33 55 0.69
34 21 0.26
35 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGACATTCTGATGA
Found at i:13156560 original size:100 final size:101
Alignment explanation
Indices: 13156339--13156577 Score: 365
Period size: 101 Copynumber: 2.4 Consensus size: 101
13156329 TGAATTGTCG
* * *
13156339 GATAAGACCATAACTAGGTTAGGGCATTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTAGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAATGTTT
**
13156404 ATATGTAAGACCATAGTTGGGCTATTGCATTCTGAT
66 ATATGTAAGACCATAACTGGGCTATTGCATTCTGAT
* * *
13156440 GATAAGACCATAACTGGGTTATGACACTATGAACGTAAGACGATGGTTGGACCATGGCAATGTTT
1 GATAAGACCATAACTAGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAATGTTT
13156505 ATAT-TAAGACCATAACTGGGCTA-TGACATTCTGAT
66 ATATGTAAGACCATAACTGGGCTATTG-CATTCTGAT
* *
13156540 GATAAGACCATAACTAGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTAGGTTATGGCACTATGAACGTAA
13156578 ATGATGAATT
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 2 0.02
100 60 0.48
101 63 0.50
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTAGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAATGTTT
ATATGTAAGACCATAACTGGGCTATTGCATTCTGAT
Found at i:13156878 original size:21 final size:21
Alignment explanation
Indices: 13156854--13156896 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13156844 TATTTTAAGG
*
13156854 GTAGAATAATCTAGAAACTAA
1 GTAGAAAAATCTAGAAACTAA
*
13156875 GTAGAAAAATTTAGAAACTAA
1 GTAGAAAAATCTAGAAACTAA
13156896 G
1 G
13156897 GAAAATGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.23
Consensus pattern (21 bp):
GTAGAAAAATCTAGAAACTAA
Found at i:13160138 original size:46 final size:44
Alignment explanation
Indices: 13160085--13160353 Score: 241
Period size: 36 Copynumber: 6.6 Consensus size: 44
13160075 TTTGAGTACT
* *
13160085 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
*
13160131 TCTGATCAAGTGAAAAAGTGAT-A-----AG-T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
*
13160167 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
*
13160213 TCTGATCAAGTGAAAAAGTGATAA---GT-GTTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
*
13160249 TCTGATCAAGTGA-AAAGTGAT-A-----AG-T-GCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
13160284 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTAGCTACACTTA
*
13160329 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13160354 ATCATACGTA
Statistics
Matches: 190, Mismatches: 8, Indels: 53
0.76 0.03 0.21
Matches are distributed among these distances:
32 1 0.01
33 2 0.01
34 1 0.01
35 26 0.14
36 56 0.29
37 3 0.02
38 1 0.01
40 5 0.03
42 5 0.03
43 11 0.06
44 9 0.05
45 18 0.09
46 52 0.27
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
Found at i:13160222 original size:82 final size:81
Alignment explanation
Indices: 13160085--13160274 Score: 335
Period size: 82 Copynumber: 2.3 Consensus size: 81
13160075 TTTGAGTACT
13160085 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
13160150 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
13160167 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
13160232 GATAAGTGTTATACTTA
65 GATAAGTGCTACACTTA
*
13160249 TCTGATCAAGTGAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAGTGATAAGTG
13160275 CTATACTTAT
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 13 0.12
82 91 0.88
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:13160272 original size:35 final size:35
Alignment explanation
Indices: 13160203--13160310 Score: 180
Period size: 35 Copynumber: 3.0 Consensus size: 35
13160193 GGTAGCTTTA
*
13160203 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTG-AAAAGTGATAAGT
*
13160239 GTTATACTTATCTGATCAAGTGAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAGTGATAAGT
13160274 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGA-AAAGTGATAAGT
13160310 G
1 G
13160311 GTAGTTTAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 35 0.51
36 33 0.49
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (35 bp):
GCTATACTTATCTGATCAAGTGAAAAGTGATAAGT
Found at i:13160283 original size:117 final size:115
Alignment explanation
Indices: 13160126--13160353 Score: 386
Period size: 117 Copynumber: 2.0 Consensus size: 115
13160116 CTTTAGCTAC
13160126 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
*
13160191 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
66 GTGGTAG-TTTAGCTACACTTATCTGATC-AGGGAAAAA-TGATAAGTGTTAT
* *
13160244 ACTTATCTGATCAAGTG-AAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
*
13160308 GTGGTAGTTTAGCTACACTTATCTGATCAGGGACAAATGATAAGTG
66 GTGGTAGTTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGTG
13160354 ATCATACGTA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
114 9 0.08
115 7 0.07
116 21 0.20
117 52 0.49
118 17 0.16
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (115 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
GTGGTAGTTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGTGTTAT
Found at i:13160303 original size:43 final size:43
Alignment explanation
Indices: 13160256--13160355 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
13160246 TTATCTGATC
* * *
13160256 AAGTGAAAAGTGATAAG-T-GCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGAT-AGTTAGCTACACTTATCTGATC-AGGGACA
*
13160299 AAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGGGACA
1 AAGTGATAAGTGATAG-TTAGCTACACTTATCTGATCAGGGACA
13160343 AA-TGATAAGTGAT
1 AAGTGATAAGTGAT
13160356 CATACGTAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.04
43 22 0.45
44 9 0.18
45 16 0.33
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (43 bp):
AAGTGATAAGTGATAGTTAGCTACACTTATCTGATCAGGGACA
Found at i:13163481 original size:45 final size:46
Alignment explanation
Indices: 13163414--13163537 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
13163404 CATATGACCT
*
13163414 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13163457 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13163503 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13163538 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:13163520 original size:46 final size:45
Alignment explanation
Indices: 13163414--13163648 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
13163404 CATATGACCT
*
13163414 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13163457 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13163503 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13163540 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13163577 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13163614 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13163649 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13163541 original size:37 final size:37
Alignment explanation
Indices: 13163499--13163675 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
13163489 AGCTGAAGCT
* **
13163499 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13163536 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13163573 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13163610 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13163647 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13163676 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13169216 original size:17 final size:17
Alignment explanation
Indices: 13169185--13169231 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
13169175 AAAATTGGGA
*
13169185 TAAATTTTAAAAATTAAT
1 TAAA-TTTAAAATTTAAT
*
13169203 TATATTTCAAAATTTAAT
1 TAAATTT-AAAATTTAAT
13169221 TAAATTTAAAA
1 TAAATTTAAAA
13169232 CACGATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTAAAATTTAAT
Found at i:13174222 original size:83 final size:82
Alignment explanation
Indices: 13174066--13174222 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 82
13174056 TGTAATAATA
* *
13174066 AAAATATAATTTTATTATTTTAATAATTTATATATTTATAAATTTAAATGATTAAATTAAATTTT
1 AAAATATAATTTTATTA-TTTAATAATTTAAATATTTATAAATTTAAATGATTAAATTAAAATTT
**
13174131 TATTATTTTTGAACGATC
65 TACCATTTTTGAACGATC
* *
13174149 AAAATGTAATTTTATTA-TTACTAATTTAAA-ATTTTATAAATTATAAAAT-ACTTAAATTAAAA
1 AAAATATAATTTTATTATTTAATAATTTAAATA-TTTATAAATT-T-AAATGA-TTAAATTAAAA
13174211 TTTTACCATTTT
62 TTTTACCATTTT
13174223 AAGATCCACT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
80 1 0.02
81 21 0.33
82 2 0.03
83 40 0.62
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (82 bp):
AAAATATAATTTTATTATTTAATAATTTAAATATTTATAAATTTAAATGATTAAATTAAAATTTT
ACCATTTTTGAACGATC
Found at i:13188868 original size:45 final size:46
Alignment explanation
Indices: 13188801--13188924 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
13188791 CATATGACCT
*
13188801 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13188844 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13188890 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13188925 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:13188907 original size:46 final size:45
Alignment explanation
Indices: 13188801--13189035 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
13188791 CATATGACCT
*
13188801 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13188844 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13188890 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13188927 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13188964 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13189001 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13189036 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13188928 original size:37 final size:37
Alignment explanation
Indices: 13188886--13189062 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
13188876 AGCTGAAGCT
* **
13188886 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13188923 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13188960 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13188997 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13189034 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13189063 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13202979 original size:77 final size:81
Alignment explanation
Indices: 13202822--13202979 Score: 207
Period size: 78 Copynumber: 2.0 Consensus size: 81
13202812 AATCGAACTG
** *
13202822 GATAGAGTAAATGAAGGGCTTGTTCTGCAAAAAAACACTGACACGGATGTGAATGAATTATTTAT
1 GATAGAGTAAATGAAGGGCTTGTTCTGCAAAAAAACACTGACACAAATGTGAATGAATGATTTAT
13202887 AAGACAAGTTCAATCT
66 AAGACAAGTTCAATCT
* * * * *
13202903 GATAGAGTAACTG-AGGG-TTGTTCTGC-AAAAAGCATTGTCACAAATGTGAATGAATGA-TTGT
1 GATAGAGTAAATGAAGGGCTTGTTCTGCAAAAAAACACTGACACAAATGTGAATGAATGATTTAT
*
13202964 AAGCCAAGTTCAATCT
66 AAGACAAGTTCAATCT
13202980 TCAGTACAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 18 0.26
78 25 0.37
79 9 0.13
80 4 0.06
81 12 0.18
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
GATAGAGTAAATGAAGGGCTTGTTCTGCAAAAAAACACTGACACAAATGTGAATGAATGATTTAT
AAGACAAGTTCAATCT
Found at i:13203969 original size:3 final size:3
Alignment explanation
Indices: 13203961--13203992 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13203951 CAACCTAACC
13203961 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13203993 AAGAGCAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13220207 original size:15 final size:15
Alignment explanation
Indices: 13220187--13220219 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13220177 ATATGATAAT
13220187 TTAATTAT-TAAAATA
1 TTAATTATGTAAAA-A
13220202 TTAATTATGTAAAAA
1 TTAATTATGTAAAAA
13220217 TTA
1 TTA
13220220 CAACTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TTAATTATGTAAAAA
Found at i:13225618 original size:13 final size:13
Alignment explanation
Indices: 13225600--13225626 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13225590 TTTTTATAGT
13225600 TTTAGTCTCACTA
1 TTTAGTCTCACTA
13225613 TTTAGTCTCACTA
1 TTTAGTCTCACTA
13225626 T
1 T
13225627 ATTGTTACAT
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:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTAGTCTCACTA
Found at i:13227590 original size:21 final size:21
Alignment explanation
Indices: 13227541--13227602 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
13227531 TAGCTCTCAC
13227541 GAGCTTCTGTTTAACTCTTAA
1 GAGCTTCTGTTTAACTCTTAA
* * * **
13227562 GGGTTTCTGTTTAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTAA
* *
13227583 GAGCTTCTATTTAACCCTTA
1 GAGCTTCTGTTTAACTCTTA
13227603 TGGGTTTCCG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTAA
Found at i:13227634 original size:21 final size:21
Alignment explanation
Indices: 13227608--13227658 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13227598 CCTTATGGGT
*
13227608 TTCCGTTCAGCTTGTACAAGC
1 TTCCGTTCAGCTCGTACAAGC
*
13227629 TTCCGTTCAGCTCGTACGAGC
1 TTCCGTTCAGCTCGTACAAGC
*
13227650 TTTCGTTCA
1 TTCCGTTCA
13227659 ACCCTTATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (21 bp):
TTCCGTTCAGCTCGTACAAGC
Found at i:13231995 original size:29 final size:30
Alignment explanation
Indices: 13231936--13231993 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13231926 TCCGAGCCTT
*
13231936 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
13231966 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
13231994 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:13232223 original size:13 final size:13
Alignment explanation
Indices: 13232205--13232236 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13232195 TTTCCAGCAA
13232205 TTATGAATTTATT
1 TTATGAATTTATT
13232218 TTATGAATTTATT
1 TTATGAATTTATT
*
13232231 TGATGA
1 TTATGA
13232237 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:13232444 original size:50 final size:50
Alignment explanation
Indices: 13232331--13232528 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
13232321 ATTTGGGTAA
* *
13232331 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
13232387 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
13232437 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
13232487 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13232529 TGTTATTATC
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
50 86 0.66
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.30
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:13232530 original size:106 final size:103
Alignment explanation
Indices: 13232331--13232521 Score: 298
Period size: 106 Copynumber: 1.9 Consensus size: 103
13232321 ATTTGGGTAA
13232331 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
*
13232396 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
13232437 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
13232499 TAAGACCATGTCTGGGACATGGC
66 TAAGACCATGTCTGGGACATGGC
13232522 TTTGGCATGT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
100 37 0.46
101 2 0.02
105 2 0.02
106 40 0.49
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:13236485 original size:45 final size:45
Alignment explanation
Indices: 13236421--13236510 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
13236411 GAAAAGAAAC
13236421 TTTATGCTAAATTCAGTAAATGTGAATTTTGGCTTCGAGAGGTAG
1 TTTATGCTAAATTCAGTAAATGTGAATTTTGGCTTCGAGAGGTAG
13236466 TTTATGCTAAATTCAGTAAATGTGAATTTTGGCTTCGAGAGGTAG
1 TTTATGCTAAATTCAGTAAATGTGAATTTTGGCTTCGAGAGGTAG
13236511 GTTTTCTCAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (45 bp):
TTTATGCTAAATTCAGTAAATGTGAATTTTGGCTTCGAGAGGTAG
Found at i:13239581 original size:29 final size:30
Alignment explanation
Indices: 13239522--13239579 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13239512 TCCGAGCCTT
*
13239522 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
13239552 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
13239580 AGAGTCGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:13239809 original size:13 final size:13
Alignment explanation
Indices: 13239791--13239822 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13239781 TTTCCAGCAA
13239791 TTATGAATTTATT
1 TTATGAATTTATT
13239804 TTATGAATTTATT
1 TTATGAATTTATT
*
13239817 TGATGA
1 TTATGA
13239823 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:13240030 original size:50 final size:50
Alignment explanation
Indices: 13239917--13240157 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 50
13239907 ATTTGGGTAA
* * * *
13239917 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
13239973 AGAGGTCCCCTGTACGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
13240023 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
13240073 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
13240123 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
13240158 TCTTACAGGG
Statistics
Matches: 162, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.56
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:13240108 original size:100 final size:103
Alignment explanation
Indices: 13239917--13240157 Score: 337
Period size: 100 Copynumber: 2.3 Consensus size: 103
13239907 ATTTGGGTAA
13239917 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCC---AGATCATGAGAGGTCCC
* * *
13239982 CTGTACGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* ** *
13240023 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCAGATCATGAGAGGTCCCCTA
13240085 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
13240123 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGG
13240158 TCTTACAGGG
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
99 1 0.01
100 50 0.40
101 32 0.26
105 2 0.02
106 39 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:13240345 original size:13 final size:13
Alignment explanation
Indices: 13240324--13240355 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13240314 GCTTGGATCA
*
13240324 TCATCAAATAAAT
1 TCATAAAATAAAT
13240337 TCATAAAATAAAT
1 TCATAAAATAAAT
13240350 TCATAA
1 TCATAA
13240356 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:13240601 original size:29 final size:30
Alignment explanation
Indices: 13240567--13240623 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
13240557 CCTCGACTCT
*
13240567 AACTTTTTCAAAATTACA-TTTTGCCCCTA
1 AACTTTTACAAAATTACATTTTTGCCCCTA
*
13240596 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
13240624 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:13242114 original size:25 final size:23
Alignment explanation
Indices: 13242036--13242222 Score: 177
Period size: 22 Copynumber: 8.0 Consensus size: 23
13242026 TGCACTAATG
*
13242036 AACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
*
13242059 -ACAGAGAGCACTAAAGTGCTAT
1 AACAGAGAGCACTAACGTGCTAT
*
13242081 -ACAGAGAGCACTGACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
*
13242104 AATCAGAGAGCACCAACGTGCTAAT
1 AA-CAGAGAGCACTAACGTGCT-AT
* *
13242129 AATCAAAGAGCGCACTAAAGTGCTAT
1 AA-C--AGAGAGCACTAACGTGCTAT
*
13242155 -ACAGAGAGCAC-ATATGTGCTA-
1 AACAGAGAGCACTA-ACGTGCTAT
*
13242176 AACAGAGAGCACTGACGTGCTAGT
1 AACAGAGAGCACTAACGTGCTA-T
*
13242200 AATCAGAGAGCACCAACGTGCTA
1 AA-CAGAGAGCACTAACGTGCTA
13242223 ATAATCAAAG
Statistics
Matches: 139, Mismatches: 13, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.01
22 74 0.53
23 1 0.01
24 4 0.03
25 41 0.29
26 3 0.02
27 15 0.11
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.17
Consensus pattern (23 bp):
AACAGAGAGCACTAACGTGCTAT
Found at i:13242155 original size:74 final size:71
Alignment explanation
Indices: 13242061--13242210 Score: 203
Period size: 74 Copynumber: 2.1 Consensus size: 71
13242051 AGTGCTATAC
*
13242061 AGAGAGCACTAAAGTGCTATACAGAGAGCAC-TGACGTGCTAGTAATCAGAGAGCACCAACGTGC
1 AGAGCGCACTAAAGTGCTATACAGAGAGCACAT-ACGTGCTA--AA-CAGAGAGCACCAACGTGC
13242125 TAATAATCAA
62 TAATAATCAA
* ** *
13242135 AGAGCGCACTAAAGTGCTATACAGAGAGCACATATGTGCTAAACAGAGAGCACTGACGTGCTAGT
1 AGAGCGCACTAAAGTGCTATACAGAGAGCACATACGTGCTAAACAGAGAGCACCAACGTGCTAAT
*
13242200 AATCAG
66 AATCAA
13242206 AGAGC
1 AGAGC
13242211 ACCAACGTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
71 29 0.42
72 2 0.03
74 37 0.54
75 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (71 bp):
AGAGCGCACTAAAGTGCTATACAGAGAGCACATACGTGCTAAACAGAGAGCACCAACGTGCTAAT
AATCAA
Found at i:13242208 original size:96 final size:96
Alignment explanation
Indices: 13242039--13242245 Score: 362
Period size: 96 Copynumber: 2.2 Consensus size: 96
13242029 ACTAATGAAC
* *
13242039 AGAGAGCACTAAAGTGCTATACAGAGAGCACTAAAGTGCTATACAGAGAGCACTGACGTGCTAGT
1 AGAGCGCACTAAAGTGCTATACAGAGAGCACTAAAGTGCTAAACAGAGAGCACTGACGTGCTAGT
13242104 AATCAGAGAGCACCAACGTGCTAATAATCAA
66 AATCAGAGAGCACCAACGTGCTAATAATCAA
*
13242135 AGAGCGCACTAAAGTGCTATACAGAGAGCAC-ATATGTGCTAAACAGAGAGCACTGACGTGCTAG
1 AGAGCGCACTAAAGTGCTATACAGAGAGCACTA-AAGTGCTAAACAGAGAGCACTGACGTGCTAG
13242199 TAATCAGAGAGCACCAACGTGCTAATAATCAA
65 TAATCAGAGAGCACCAACGTGCTAATAATCAA
*
13242231 AGAGCGCGCTAAAGT
1 AGAGCGCACTAAAGT
13242246 TCCTTAATGG
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
95 1 0.01
96 105 0.99
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (96 bp):
AGAGCGCACTAAAGTGCTATACAGAGAGCACTAAAGTGCTAAACAGAGAGCACTGACGTGCTAGT
AATCAGAGAGCACCAACGTGCTAATAATCAA
Found at i:13244931 original size:39 final size:37
Alignment explanation
Indices: 13244864--13244956 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
13244854 ACCAGAATGG
* *
13244864 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
13244903 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
13244940 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
13244957 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:13245343 original size:18 final size:18
Alignment explanation
Indices: 13245312--13245356 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
13245302 ATTCTCACTC
13245312 ATAATAATAATAATACTA
1 ATAATAATAATAATACTA
* *
13245330 ATAATTATATTAATACTA
1 ATAATAATAATAATACTA
*
13245348 ATATTAATA
1 ATAATAATA
13245357 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAATACTA
Found at i:13245358 original size:12 final size:12
Alignment explanation
Indices: 13245316--13245356 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
13245306 TCACTCATAA
*
13245316 TAATAATAATAC
1 TAATAATAATAT
*
13245328 TAATAATTATAT
1 TAATAATAATAT
*
13245340 TAATACTAATAT
1 TAATAATAATAT
13245352 TAATA
1 TAATA
13245357 CTTACTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:13245913 original size:19 final size:19
Alignment explanation
Indices: 13245868--13245907 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13245858 TTTGTTTTGT
*
13245868 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTA
13245886 TTTTATTTACTTTACTTTA
1 TTTTATTTACTTTACTTTA
13245905 TTT
1 TTT
13245908 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTA
Found at i:13246080 original size:22 final size:23
Alignment explanation
Indices: 13246044--13246099 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
13246034 GTCATCTATT
*
13246044 TAAT-TTATATAATATAATACAA
1 TAATATTATATAATATAATAAAA
*
13246066 T-ATATTATATTATATAATAAAA
1 TAATATTATATAATATAATAAAA
13246088 TAATA-TATATAA
1 TAATATTATATAA
13246100 AACATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATATTATATAATATAATAAAA
Found at i:13249535 original size:11 final size:11
Alignment explanation
Indices: 13249519--13249549 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13249509 TAGTCCCTAT
13249519 ATCATAATTTC
1 ATCATAATTTC
13249530 ATCATAATTTC
1 ATCATAATTTC
*
13249541 ATCAAAATT
1 ATCATAATT
13249550 CCATTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (11 bp):
ATCATAATTTC
Found at i:13250739 original size:25 final size:23
Alignment explanation
Indices: 13250710--13250763 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
13250700 TTAAATATTA
13250710 TAATATTATATATATGAATTTTTAT
1 TAATATTATAT-TAT-AATTTTTAT
13250735 TAATA-TA-ATTATAATTTTTAT
1 TAATATTATATTATAATTTTTAT
13250756 T--TATTATA
1 TAATATTATA
13250764 GGTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 11 0.41
22 3 0.11
23 2 0.07
24 2 0.07
25 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATATTATATTATAATTTTTAT
Found at i:13250763 original size:22 final size:23
Alignment explanation
Indices: 13250713--13250763 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
13250703 AATATTATAA
13250713 TATTAT-ATATATGAATTTTTAT
1 TATTATAATATATGAATTTTTAT
*
13250735 TAATATAAT-TAT-AATTTTTATT
1 TATTATAATATATGAATTTTTA-T
13250757 TATTATA
1 TATTATA
13250764 GGTTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 8 0.32
22 15 0.60
23 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATAATATATGAATTTTTAT
Found at i:13280516 original size:2 final size:2
Alignment explanation
Indices: 13280509--13280537 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13280499 AGGCTTAAAC
13280509 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
13280538 GGGGGGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13281491 original size:20 final size:22
Alignment explanation
Indices: 13281454--13281494 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
13281444 GGGAACGGGC
13281454 AAGGGGAAGAGTAGCAAAAGAA
1 AAGGGGAAGAGTAGCAAAAGAA
13281476 AAGGGGAA-AG-AGCAAAAGA
1 AAGGGGAAGAGTAGCAAAAGA
13281495 CTGACATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.37, T:0.02
Consensus pattern (22 bp):
AAGGGGAAGAGTAGCAAAAGAA
Found at i:13308268 original size:21 final size:20
Alignment explanation
Indices: 13308234--13308273 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13308224 CAAATTACAT
*
13308234 CGAAAGAGAAATTACATTAAC
1 CGAAAGACAAATTA-ATTAAC
*
13308255 CGAAAGACACATTAATTAA
1 CGAAAGACAAATTAATTAA
13308274 GATTCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
CGAAAGACAAATTAATTAAC
Found at i:13314805 original size:45 final size:45
Alignment explanation
Indices: 13314745--13314837 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
13314735 CTTCAAATTC
* *
13314745 ATAATTTAACAATATTTTATTTTTCAACT-ACATGCTAAATACATA
1 ATAATTTAACAATATTCTATTTTTCAA-TAACATACTAAATACATA
*
13314790 ATAATTTAACAATATTCTATTTTTCAATAATATACTAAATACATA
1 ATAATTTAACAATATTCTATTTTTCAATAACATACTAAATACATA
13314835 ATA
1 ATA
13314838 TCATTAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (45 bp):
ATAATTTAACAATATTCTATTTTTCAATAACATACTAAATACATA
Found at i:13315722 original size:18 final size:18
Alignment explanation
Indices: 13315695--13315734 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13315685 TTTGGTTAAG
13315695 AATTAACTGAATTACCCA
1 AATTAACTGAATTACCCA
* *
13315713 AATTACCTGAATTACCCG
1 AATTAACTGAATTACCCA
13315731 AATT
1 AATT
13315735 GAATCACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (18 bp):
AATTAACTGAATTACCCA
Found at i:13315764 original size:17 final size:17
Alignment explanation
Indices: 13315742--13315804 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
13315732 ATTGAATCAC
13315742 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
13315759 TACATAAGTTTTTGAATCAC
1 TACATAA--TTAAAAAT-AT
*
13315779 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
13315796 TACATAATT
1 TACATAATT
13315805 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:13315779 original size:37 final size:36
Alignment explanation
Indices: 13315733--13315810 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 36
13315723 ATTACCCGAA
* *
13315733 TTGAATCACTACATAATTAAAAATATTACATAAGTTT
1 TTGAATCACTACATAATTAAAAACATTACATAA-TTC
13315770 TTGAATCACTACATAATTAAAAACATTACATAATTC
1 TTGAATCACTACATAATTAAAAACATTACATAATTC
13315806 TTGAA
1 TTGAA
13315811 ATTAACACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 7 0.18
37 32 0.82
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (36 bp):
TTGAATCACTACATAATTAAAAACATTACATAATTC
Found at i:13316019 original size:39 final size:38
Alignment explanation
Indices: 13315936--13316052 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 38
13315926 ACTTAAGAGT
*
13315936 TAGACTTTAGTTTTATTTTTATTGGGTTGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
*
13315974 TAGACTTTAGTTTTAGCTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTG-GTAATTGGG
*
13316013 TAGACTTTAGTTTTTGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
13316052 T
1 T
13316053 TGAGTAATTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
38 27 0.37
39 45 0.62
40 1 0.01
ACGTcount: A:0.18, C:0.03, G:0.28, T:0.50
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:13316051 original size:13 final size:13
Alignment explanation
Indices: 13316033--13316066 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13316023 TTTTTGTTTT
*
13316033 ATTGGGTTGGGTA
1 ATTGGGTTGAGTA
13316046 ATTGGGTTGAGTA
1 ATTGGGTTGAGTA
13316059 ATTGGGTT
1 ATTGGGTT
13316067 TGGTTGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGAGTA
Found at i:13317329 original size:30 final size:30
Alignment explanation
Indices: 13317295--13317357 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
13317285 CTTATTTTTA
13317295 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
13317325 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13317355 TTG
1 TTG
13317358 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13317511 original size:12 final size:12
Alignment explanation
Indices: 13317481--13317514 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
13317471 TATATATTTT
13317481 AAAATT-ATATA
1 AAAATTAATATA
13317492 AAAA-TAATATA
1 AAAATTAATATA
13317503 AAAATTAATATA
1 AAAATTAATATA
13317515 GATAGGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:13327316 original size:453 final size:453
Alignment explanation
Indices: 13326470--13327376 Score: 1814
Period size: 453 Copynumber: 2.0 Consensus size: 453
13326460 CTCGCGGCTA
13326470 TATAAAATCGTATCTCTAAATGTTGAATAAGACGGGGGCAACGAACAAAGTAGAATCAGCCCTAG
1 TATAAAATCGTATCTCTAAATGTTGAATAAGACGGGGGCAACGAACAAAGTAGAATCAGCCCTAG
13326535 ATCTTCCTTATCATACTGAACCTCCATGGCCTCTAAGTTTGAGAGAATTTCTTTGAACACTGTTA
66 ATCTTCCTTATCATACTGAACCTCCATGGCCTCTAAGTTTGAGAGAATTTCTTTGAACACTGTTA
13326600 AGTGTTCGTGCACAGATGCACCTTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGTAGT
131 AGTGTTCGTGCACAGATGCACCTTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGTAGT
13326665 TTGCTAGTTAGAGTTTTCGACATACATATATGTTCCAACCTCTTCCATAATCTAGCGGCAGTCTT
196 TTGCTAGTTAGAGTTTTCGACATACATATATGTTCCAACCTCTTCCATAATCTAGCGGCAGTCTT
13326730 TTCCTTCATCACATCCTGCAAAATTTCATTAGACAAATGCAGATGTAATTGTGTTAACGCCTTTC
261 TTCCTTCATCACATCCTGCAAAATTTCATTAGACAAATGCAGATGTAATTGTGTTAACGCCTTTC
13326795 GATCATTGCGCTTCTTCTCTTCTTCCGTCAAAGTTGAAGGCATCTTATCTACCCCTAGTAGGGCT
326 GATCATTGCGCTTCTTCTCTTCTTCCGTCAAAGTTGAAGGCATCTTATCTACCCCTAGTAGGGCT
13326860 TCCTCTAAGTCCATTTGTGCAAGAATTGCTTGCATCTTTATCTGCCACAATGCAAATCTGGTG
391 TCCTCTAAGTCCATTTGTGCAAGAATTGCTTGCATCTTTATCTGCCACAATGCAAATCTGGTG
13326923 TATAAAATCGTATCTCTAAATGTTGAATAAGACGGGGGCAACGAACAAAGTAGAATCAGCCCTAG
1 TATAAAATCGTATCTCTAAATGTTGAATAAGACGGGGGCAACGAACAAAGTAGAATCAGCCCTAG
13326988 ATCTTCCTTATCATACTGAACCTCCATGGCCTCTAAGTTTGAGAGAATTTCTTTGAACACTGTTA
66 ATCTTCCTTATCATACTGAACCTCCATGGCCTCTAAGTTTGAGAGAATTTCTTTGAACACTGTTA
13327053 AGTGTTCGTGCACAGATGCACCTTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGTAGT
131 AGTGTTCGTGCACAGATGCACCTTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGTAGT
13327118 TTGCTAGTTAGAGTTTTCGACATACATATATGTTCCAACCTCTTCCATAATCTAGCGGCAGTCTT
196 TTGCTAGTTAGAGTTTTCGACATACATATATGTTCCAACCTCTTCCATAATCTAGCGGCAGTCTT
13327183 TTCCTTCATCACATCCTGCAAAATTTCATTAGACAAATGCAGATGTAATTGTGTTAACGCCTTTC
261 TTCCTTCATCACATCCTGCAAAATTTCATTAGACAAATGCAGATGTAATTGTGTTAACGCCTTTC
13327248 GATCATTGCGCTTCTTCTCTTCTTCCGTCAAAGTTGAAGGCATCTTATCTACCCCTAGTAGGGCT
326 GATCATTGCGCTTCTTCTCTTCTTCCGTCAAAGTTGAAGGCATCTTATCTACCCCTAGTAGGGCT
13327313 TCCTCTAAGTCCATTTGTGCAAGAATTGCTTGCATCTTTATCTGCCACAATGCAAATCTGGTG
391 TCCTCTAAGTCCATTTGTGCAAGAATTGCTTGCATCTTTATCTGCCACAATGCAAATCTGGTG
13327376 T
1 T
13327377 TGCGATCCAA
Statistics
Matches: 454, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
453 454 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (453 bp):
TATAAAATCGTATCTCTAAATGTTGAATAAGACGGGGGCAACGAACAAAGTAGAATCAGCCCTAG
ATCTTCCTTATCATACTGAACCTCCATGGCCTCTAAGTTTGAGAGAATTTCTTTGAACACTGTTA
AGTGTTCGTGCACAGATGCACCTTCCTCCAAACGATGAGCATAAAGACGCTGCTTCATATGTAGT
TTGCTAGTTAGAGTTTTCGACATACATATATGTTCCAACCTCTTCCATAATCTAGCGGCAGTCTT
TTCCTTCATCACATCCTGCAAAATTTCATTAGACAAATGCAGATGTAATTGTGTTAACGCCTTTC
GATCATTGCGCTTCTTCTCTTCTTCCGTCAAAGTTGAAGGCATCTTATCTACCCCTAGTAGGGCT
TCCTCTAAGTCCATTTGTGCAAGAATTGCTTGCATCTTTATCTGCCACAATGCAAATCTGGTG
Found at i:13328149 original size:16 final size:13
Alignment explanation
Indices: 13328118--13328155 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13328108 ATATTAAGAA
13328118 TATTATTTTTAAT
1 TATTATTTTTAAT
13328131 TATTATTTTTGAAT
1 TATTATTTTT-AAT
*
13328145 T-TTATTATTAA
1 TATTATTTTTAA
13328156 AATAAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 17 0.74
14 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
TATTATTTTTAAT
Found at i:13329221 original size:27 final size:28
Alignment explanation
Indices: 13329201--13329258 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
13329191 ATATTTTTAT
*
13329201 TATTGT-ATTGTTATTAAATATTATAAG
1 TATTGTCATTATTATTAAATATTATAAG
*
13329228 TATTGTCATTATTATTAAAGA-TATAAG
1 TATTGTCATTATTATTAAATATTATAAG
13329255 TATT
1 TATT
13329259 ATTATTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (28 bp):
TATTGTCATTATTATTAAATATTATAAG
Found at i:13332272 original size:46 final size:45
Alignment explanation
Indices: 13332170--13332327 Score: 257
Period size: 46 Copynumber: 3.5 Consensus size: 45
13332160 CTTACATATG
*
13332170 ACCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCT
*
13332213 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCT
*
13332259 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCT
13332305 ACCACTTATCACTTTGTCACTTG
1 ACCACTTATCACTTTGTCACTTG
13332328 TCACTTGTCA
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
43 12 0.11
44 5 0.05
45 19 0.18
46 70 0.66
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (45 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCT
Found at i:13332337 original size:14 final size:15
Alignment explanation
Indices: 13332307--13332344 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13332297 CTGAGGCTAC
*
13332307 CACTTATCACTTTGT
1 CACTTGTCACTTTGT
13332322 CACTTGTCAC-TTGT
1 CACTTGTCACTTTGT
*
13332336 CACTGGTCA
1 CACTTGTCA
13332345 GAATTACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
CACTTGTCACTTTGT
Found at i:13340646 original size:23 final size:23
Alignment explanation
Indices: 13340595--13340670 Score: 54
Period size: 25 Copynumber: 3.3 Consensus size: 23
13340585 TTAGTGAAAA
13340595 TTAAAAA-ATATTTATT-ATAATTCT
1 TTAAAAATATATTT-TTAAT-ATT-T
13340619 ATTAAAAATATATTTTTAATATTT
1 -TTAAAAATATATTTTTAATATTT
*
13340643 TTAAGTAACTA-A-TTTTAATA-TT
1 TTAA--AAATATATTTTTAATATTT
13340665 TTAAAA
1 TTAAAA
13340671 TTTAATTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
20 2 0.04
22 6 0.13
23 12 0.26
24 2 0.04
25 16 0.35
26 8 0.17
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (23 bp):
TTAAAAATATATTTTTAATATTT
Found at i:13342370 original size:45 final size:46
Alignment explanation
Indices: 13342303--13342426 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
13342293 CATATGACCT
* *
13342303 CTTATCAC-TTGTC-CTTGATCAGATAAGTATAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13342346 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
13342392 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13342427 CACTTATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 20 0.27
46 41 0.56
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:13342409 original size:46 final size:45
Alignment explanation
Indices: 13342303--13342537 Score: 198
Period size: 37 Copynumber: 5.8 Consensus size: 45
13342293 CATATGACCT
* *
13342303 CTTATCAC-TTGTC-CTTGATCAGATAAGTATAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13342346 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13342392 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13342429 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13342466 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
13342503 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
13342538 CACTTATCAC
Statistics
Matches: 176, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 20 0.11
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13342430 original size:37 final size:37
Alignment explanation
Indices: 13342388--13342564 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
13342378 AGCTGAAGCT
* **
13342388 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13342425 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13342462 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13342499 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13342536 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13342565 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13349610 original size:46 final size:45
Alignment explanation
Indices: 13349504--13349662 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
13349494 CATATGACCT
*
13349504 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13349547 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
13349593 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
13349630 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
13349663 ACCACTTATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:13349631 original size:37 final size:37
Alignment explanation
Indices: 13349589--13349765 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
13349579 AGCTGAAGCT
* **
13349589 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
13349626 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13349663 ACCACTTATCACTTTGTTTCTTGATCAGATAACTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
13349700 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
13349737 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
13349766 AGTACTCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:13351036 original size:18 final size:17
Alignment explanation
Indices: 13351001--13351049 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
13350991 TTAGTACTTA
*
13351001 TTTTTC-TTTTT-CTTT
1 TTTTTCTTTTTTGATTT
*
13351016 TTTTCCTTTTTTGATTT
1 TTTTTCTTTTTTGATTT
*
13351033 TTTTTCTTTTTTTATTT
1 TTTTTCTTTTTTGATTT
13351050 AAATTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 5 0.18
16 5 0.18
17 18 0.64
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTCTTTTTTGATTT
Found at i:13351326 original size:118 final size:118
Alignment explanation
Indices: 13351176--13351405 Score: 327
Period size: 118 Copynumber: 1.9 Consensus size: 118
13351166 TATTTCCGGT
*
13351176 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGTGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * *
13351241 CCTACCCCAG-TTACTCAGTCAGACACGATTTGAGCTATGCTCATAACCTCGGC
66 CCTA-CCCAGATTACTCAGTCAGACACGATCTAAGCTATACTCATAACCTCGGC
**** * *
13351294 TAGCGGAGTTTTACTTGTCACGTCACATAACCTTTTGACGCGAAGTAGAATGACAACCTAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* * *
13351359 CCTACCCTGATTACTCAGTCAGTCACGATCTAAGCTGTACTCATAAC
66 CCTACCCAGATTACTCAGTCAGACACGATCTAAGCTATACTCATAAC
13351406 AATGGAAAAC
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
117 4 0.04
118 94 0.96
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCAGATTACTCAGTCAGACACGATCTAAGCTATACTCATAACCTCGGC
Done.