Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 348 of 438
Found at i:108565136 original size:2 final size:2
Alignment explanation
Indices: 108565131--108565156 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
108565121 TAATGTTTAC
108565131 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
108565157 TTTGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108565702 original size:14 final size:14
Alignment explanation
Indices: 108565683--108565709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
108565673 TCAAAATTCC
108565683 TTTTATAAATATAG
1 TTTTATAAATATAG
108565697 TTTTATAAATATA
1 TTTTATAAATATA
108565710 CATCATTAAA
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:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTATAAATATAG
Found at i:108567351 original size:21 final size:21
Alignment explanation
Indices: 108567327--108567367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108567317 CTCATGCGCG
*
108567327 TGTCCCTTGACCACATGGGCA
1 TGTCCCTTGACCACACGGGCA
*
108567348 TGTCCCTTGATCACACGGGC
1 TGTCCCTTGACCACACGGGC
108567368 GTGTGTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTCCCTTGACCACACGGGCA
Found at i:108568614 original size:21 final size:21
Alignment explanation
Indices: 108568574--108568635 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
108568564 CGAATATGCC
*
108568574 AACAAAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
108568593 AACAGAAGCTCTTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
108568614 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
108568635 A
1 A
108568636 TCCACCCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 10 0.26
20 2 0.05
21 26 0.68
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:108573142 original size:18 final size:18
Alignment explanation
Indices: 108573119--108573401 Score: 142
Period size: 18 Copynumber: 15.3 Consensus size: 18
108573109 GAATAATTAT
108573119 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
108573137 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
108573155 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
108573173 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
108573199 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
108573217 TTATTCAGTAA-AATCAA
1 TTATTCAGTAACAGTCAG
* * * *
108573234 ATATTCGGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
108573253 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
108573270 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
108573289 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
108573307 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
108573325 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
108573343 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
108573361 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
108573379 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
108573397 TTATT
1 TTATT
108573402 TTATACCTTT
Statistics
Matches: 198, Mismatches: 51, Indels: 32
0.70 0.18 0.11
Matches are distributed among these distances:
17 17 0.09
18 149 0.75
19 16 0.08
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:108573161 original size:36 final size:36
Alignment explanation
Indices: 108573119--108573401 Score: 185
Period size: 36 Copynumber: 7.6 Consensus size: 36
108573109 GAATAATTAT
* *
108573119 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
108573155 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
108573191 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
108573234 ATATTCGGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
108573270 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
108573307 TTATTCAGTAATATTCAGTTATTTAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * *
108573344 -TATCCAGTAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
108573379 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
108573402 TTATACCTTT
Statistics
Matches: 184, Mismatches: 49, Indels: 28
0.70 0.19 0.11
Matches are distributed among these distances:
35 8 0.04
36 131 0.71
37 18 0.10
42 2 0.01
43 7 0.04
44 18 0.10
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:108573340 original size:72 final size:71
Alignment explanation
Indices: 108573200--108573402 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 71
108573190 ATTGATCGGT
* * * * * *
108573200 TATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCGGTAACTATTAAGTTATTCAGTAGC
1 TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAA-TATTCAGTTATTTAGTAAC
*
108573265 AGTC-AT
65 AGTCTAA
* * * *
108573271 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTTAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTTAGTAA
108573336 CAGTCTAA
64 CAGTCTAA
* * * * *
108573344 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATTT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTT
108573403 TATACCTTTA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 16 0.15
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTTAGTAACA
GTCTAA
Found at i:108573598 original size:59 final size:58
Alignment explanation
Indices: 108573487--108573598 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 58
108573477 GCATATAGTG
* * * **
108573487 CCTCATCGGCCAAAGCCGGAACAGTAACAGTAATAGTAGCAGTATGGTACACAGAGTA
1 CCTCATCGGACAAAGCCGGAACAGTAACAGTAACAGTAACAGTATGCAACACAGAGTA
* * *
108573545 CCTCATCGGAACAAATCCGGAATAGTAACAGTAACAGTAACAGTATTCAACACA
1 CCTCATCGG-ACAAAGCCGGAACAGTAACAGTAACAGTAACAGTATGCAACACA
108573599 CAAAGTGCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 9 0.20
59 36 0.80
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (58 bp):
CCTCATCGGACAAAGCCGGAACAGTAACAGTAACAGTAACAGTATGCAACACAGAGTA
Found at i:108573618 original size:45 final size:45
Alignment explanation
Indices: 108573569--108573763 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
108573559 ATCCGGAATA
* * * *
108573569 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
108573614 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * * *
108573659 GTAACGGTAACAATAACAATATTTGACACATACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
108573704 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
108573749 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
108573764 GCGTTAACAG
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:108574208 original size:11 final size:11
Alignment explanation
Indices: 108574183--108574219 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
108574173 ATCCCATTCC
*
108574183 ATTCCATTC-A
1 ATTCAATTCAA
108574193 ATTCAATTCAA
1 ATTCAATTCAA
108574204 ATTCAATTCAA
1 ATTCAATTCAA
108574215 ATTCA
1 ATTCA
108574220 CTTTTCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAATTCAA
Found at i:108574209 original size:16 final size:17
Alignment explanation
Indices: 108574188--108574219 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
108574178 ATTCCATTCC
108574188 ATTCAATTC-AATTCAA
1 ATTCAATTCAAATTCAA
108574204 ATTCAATTCAAATTCA
1 ATTCAATTCAAATTCA
108574220 CTTTTCCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCAATTCAAATTCAA
Found at i:108575506 original size:4 final size:4
Alignment explanation
Indices: 108575497--108575527 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
108575487 CCTTTTCTCC
108575497 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
108575528 CCCTTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:108575588 original size:9 final size:9
Alignment explanation
Indices: 108575570--108575604 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
108575560 TTTCTTTTTC
*
108575570 ATTTCTTTT
1 ATTTCATTT
108575579 ATTTCATTT
1 ATTTCATTT
108575588 ATTTC-TTT
1 ATTTCATTT
108575596 ATTTCATTT
1 ATTTCATTT
108575605 TTATTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:108575596 original size:17 final size:18
Alignment explanation
Indices: 108575570--108575604 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
108575560 TTTCTTTTTC
108575570 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
108575588 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
108575605 TTATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:108583012 original size:17 final size:18
Alignment explanation
Indices: 108582990--108583024 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
108582980 TTTTAGATGA
*
108582990 AAAAAATTATAA-AATTT
1 AAAAAATAATAATAATTT
108583007 AAAAAATAATAATAATTT
1 AAAAAATAATAATAATTT
108583025 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAATAATAATAATTT
Found at i:108583116 original size:2 final size:2
Alignment explanation
Indices: 108583109--108583134 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
108583099 TATTGAATAG
108583109 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
108583135 TTCAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108589493 original size:16 final size:16
Alignment explanation
Indices: 108589472--108589524 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
108589462 GTTTAGTTCA
108589472 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
* *
108589488 CTGTAATTGAATAAAG
1 CTGTAATAGAATAGAG
*
108589504 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
108589520 CTGTA
1 CTGTA
108589525 GTCAGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:108589767 original size:58 final size:58
Alignment explanation
Indices: 108589705--108589828 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
108589695 TTTTAATAAG
* *
108589705 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
108589763 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
108589821 ATTATTAT
1 ATTATTAT
108589829 ATGAATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:108595920 original size:35 final size:35
Alignment explanation
Indices: 108595874--108595944 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
108595864 AAGAGAAAAT
108595874 AATGTGTTTTTGTGGATTTGATAAATTGATGACTG
1 AATGTGTTTTTGTGGATTTGATAAATTGATGACTG
*
108595909 AATGTGTTTTTGTGGATTTGATTAATTGATGACTG
1 AATGTGTTTTTGTGGATTTGATAAATTGATGACTG
108595944 A
1 A
108595945 CGTTTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.46
Consensus pattern (35 bp):
AATGTGTTTTTGTGGATTTGATAAATTGATGACTG
Found at i:108599894 original size:55 final size:55
Alignment explanation
Indices: 108599828--108599932 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
108599818 CCCATGCTCA
*
108599828 ATTATGATATGTGCATAATGAAACTAGTAAGCATGATTATATACATGCATACCCT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
* *
108599883 ATTATGATATGTGCATAATGAAACTAGTGAGCATGACTATGTACATGCAT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCAT
108599933 GCTCAATGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.32
Consensus pattern (55 bp):
ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
Found at i:108610099 original size:29 final size:28
Alignment explanation
Indices: 108610047--108610121 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
108610037 AAAAAATTAT
* *
108610047 AAACTTTTAAAATATT-ATTAAATATATAA
1 AAACATTTAAAA-ATTAATAAAATA-ATAA
108610076 AAA-ATTTAAAAAGTTAATAAAATAATAA
1 AAACATTTAAAAA-TTAATAAAATAATAA
108610104 AAACGATTTAAAAATTAA
1 AAAC-ATTTAAAAATTAA
108610122 GCCCATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 1 0.03
28 16 0.40
29 14 0.35
30 9 0.22
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAACATTTAAAAATTAATAAAATAATAA
Found at i:108610446 original size:21 final size:21
Alignment explanation
Indices: 108610425--108610463 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108610415 TTTATTGATT
108610425 TTTAAT-TTTTT-TAAATTTA
1 TTTAATATTTTTATAAATTTA
108610444 TTTAATATTTTTATAAATTT
1 TTTAATATTTTTATAAATTT
108610464 TAATAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTAATATTTTTATAAATTTA
Found at i:108610465 original size:18 final size:20
Alignment explanation
Indices: 108610444--108610488 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
108610434 TTTAAATTTA
*
108610444 TTTAAT-AT-TTTTATAAAT
1 TTTAATAATGTTTTAGAAAT
108610462 TTTAATAATGTTTTAGAAAT
1 TTTAATAATGTTTTAGAAAT
108610482 TTATAAT
1 TT-TAAT
108610489 TCTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 11 0.48
21 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAATAATGTTTTAGAAAT
Found at i:108610470 original size:21 final size:21
Alignment explanation
Indices: 108610429--108610488 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
108610419 TTGATTTTTA
* *
108610429 ATTTTTTTAAA-TTTATTTAAT
1 ATTTTTATAAATTTTA-ATAAT
108610450 ATTTTTATAAATTTTAATAAT
1 ATTTTTATAAATTTTAATAAT
* *
108610471 -GTTTTAGAAATTTATAAT
1 ATTTTTATAAATTT-TAAT
108610489 TCTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.33
21 18 0.55
22 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTTTTATAAATTTTAATAAT
Found at i:108612185 original size:25 final size:26
Alignment explanation
Indices: 108612131--108612185 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
108612121 ACCACTTTAT
* **
108612131 TTTATTTTATTCACTTAATTATTATT
1 TTTATTTTAATCACTTAATTATTAAA
108612157 TTTA-TTTAATCACTTAACTT-TTAAA
1 TTTATTTTAATCACTTAA-TTATTAAA
108612182 TTTA
1 TTTA
108612186 AATATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATTTTAATCACTTAATTATTAAA
Found at i:108612495 original size:25 final size:27
Alignment explanation
Indices: 108612449--108612513 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
108612439 CAAAAAAAGA
**
108612449 AAAATATTAT-AAAATCATTTTTGGA-T
1 AAAA-ATTATAAAAATCATTTTTAAATT
*
108612475 AAAAATTATAAAAATGA-TTTTAAATTT
1 AAAAATTATAAAAATCATTTTTAAA-TT
108612502 AAAAATTATAAA
1 AAAAATTATAAA
108612514 TAAAACCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 10 0.30
26 10 0.30
27 13 0.39
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (27 bp):
AAAAATTATAAAAATCATTTTTAAATT
Found at i:108613816 original size:19 final size:19
Alignment explanation
Indices: 108613788--108613828 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
108613778 ATAAAATAAT
*
108613788 TTTATTTATTTATTTTATA
1 TTTATGTATTTATTTTATA
*
108613807 TTTATGTATTTGTTTTATA
1 TTTATGTATTTATTTTATA
108613826 TTT
1 TTT
108613829 CACTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTATGTATTTATTTTATA
Found at i:108620888 original size:2 final size:2
Alignment explanation
Indices: 108620881--108620914 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
108620871 TTTTTACATA
108620881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108620915 TTTGCTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108632452 original size:36 final size:37
Alignment explanation
Indices: 108632383--108632452 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
108632373 AAATTTAGAT
* *
108632383 ATATCATTATATTAAATTATTTAAATATTATTTACAA
1 ATATCATTATAGTAAATTATTTAAATATCATTTACAA
*
108632420 ATATTATTATAGTAAA-TATTTAAATATCATTTA
1 ATATCATTATAGTAAATTATTTAAATATCATTTA
108632453 TTATTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
ATATCATTATAGTAAATTATTTAAATATCATTTACAA
Found at i:108633508 original size:11 final size:10
Alignment explanation
Indices: 108633494--108633595 Score: 61
Period size: 11 Copynumber: 10.0 Consensus size: 10
108633484 ACAGTAGAAG
108633494 AAGAAGAGAAA
1 AAGAAGA-AAA
108633505 AAGAAGAATAA
1 AAGAAGAA-AA
*
108633516 GAGAAGAAACA
1 AAGAAGAAA-A
*
108633527 GAGAAG-AAA
1 AAGAAGAAAA
* *
108633536 CAG-AG-AAG
1 AAGAAGAAAA
108633544 AAGAAG-AAA
1 AAGAAGAAAA
108633553 AAGAAGAAGAA
1 AAGAAGAA-AA
108633564 AAGAAGAAAA
1 AAGAAGAAAA
*
108633574 TGAGAAGAATAA
1 -AAGAAGAA-AA
108633586 TAAG-AGAAAA
1 -AAGAAGAAAA
108633596 TGGAAGGAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
8 6 0.08
9 13 0.17
10 9 0.12
11 44 0.57
12 5 0.06
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (10 bp):
AAGAAGAAAA
Found at i:108633569 original size:48 final size:47
Alignment explanation
Indices: 108633492--108633582 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 47
108633482 GGACAGTAGA
* *
108633492 AGAAGAAGAGAAAAAGAAGAATAAGAGAAGAAACA-GAGAAGAAACAG
1 AGAAGAAGAGAAAAAGAAGAAGAAAAGAAGAAA-ATGAGAAGAAACAG
108633539 AGAAGAAGAAGAAAAAGAAGAAGAAAAGAAGAAAATGAGAAGAA
1 AGAAGAAG-AGAAAAAGAAGAAGAAAAGAAGAAAATGAGAAGAA
108633583 TAATAAGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
47 9 0.22
48 31 0.77
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (47 bp):
AGAAGAAGAGAAAAAGAAGAAGAAAAGAAGAAAATGAGAAGAAACAG
Found at i:108633582 original size:3 final size:3
Alignment explanation
Indices: 108633489--108633571 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
108633479 CCTGGACAGT
* *
108633489 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
*
108633531 AGA A-A CAG- AGA AGA AGA AGA AAA AGA AGA AGA A-A AGA AGA A
1 AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
108633572 AATGAGAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.18
3 53 0.82
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:108633590 original size:20 final size:20
Alignment explanation
Indices: 108633489--108633582 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
108633479 CCTGGACAGT
*
108633489 AGAAGAAGAAG-AGAAAAAGA
1 AGAAAAAGAAGAAG-AAAAGA
*
108633509 AGAATAAG-AGAAGAAACAG-
1 AGAAAAAGAAGAAGAAA-AGA
*
108633528 AGAAGAAA-CAG-AGAAGAAGA
1 AGAA-AAAGAAGAAGAA-AAGA
108633548 AGAAAAAGAAGAAGAAAAGA
1 AGAAAAAGAAGAAGAAAAGA
*
108633568 AGAAAATG-AGAAGAA
1 AGAAAAAGAAGAAGAA
108633583 TAATAAGAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
19 25 0.40
20 33 0.53
21 4 0.06
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.02
Consensus pattern (20 bp):
AGAAAAAGAAGAAGAAAAGA
Found at i:108633725 original size:16 final size:16
Alignment explanation
Indices: 108633704--108633734 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108633694 AACATTATGA
*
108633704 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
108633720 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
108633735 CCAAGTGGTG
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:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:108638492 original size:16 final size:16
Alignment explanation
Indices: 108638471--108638501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108638461 AACATTATGA
*
108638471 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
108638487 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
108638502 CCAAGTGGTG
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:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:108640235 original size:21 final size:21
Alignment explanation
Indices: 108640194--108640236 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
108640184 CAACGTGGCA
* *
108640194 AGTTAATTGGCCACATTAGCT
1 AGTTAACTGGCCACATCAGCT
*
108640215 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
108640236 A
1 A
108640237 TCCCGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:108646332 original size:13 final size:13
Alignment explanation
Indices: 108646314--108646339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108646304 TAATTAAGTA
108646314 TATTATATTATAT
1 TATTATATTATAT
108646327 TATTATATTATAT
1 TATTATATTATAT
108646340 ATAAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:108647078 original size:45 final size:45
Alignment explanation
Indices: 108646973--108647078 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 45
108646963 GACTACTGTC
* * *
108646973 ACTGTTACCATTACTATTACCGATTCGACACTTTGTGTGTCGAAT
1 ACTGTTACCATTACTGTTACAGATTCAACACTTTGTGTGTCGAAT
* * * *
108647018 ATTGTTACCGTTACTGTTACAGATTCAACACTTTTTGTGTTGAAT
1 ACTGTTACCATTACTGTTACAGATTCAACACTTTGTGTGTCGAAT
*
108647063 ACTGTTACTATTACTG
1 ACTGTTACCATTACTG
108647079 ATACTGCTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (45 bp):
ACTGTTACCATTACTGTTACAGATTCAACACTTTGTGTGTCGAAT
Found at i:108647084 original size:18 final size:18
Alignment explanation
Indices: 108647061--108647103 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
108647051 TTTGTGTTGA
* *
108647061 ATACTGTTACTATTACTG
1 ATACTGCTACCATTACTG
*
108647079 ATACTGCTACCGTTACTG
1 ATACTGCTACCATTACTG
108647097 ATTACTG
1 A-TACTG
108647104 ATTAGGTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (18 bp):
ATACTGCTACCATTACTG
Found at i:108653174 original size:5 final size:5
Alignment explanation
Indices: 108653164--108653221 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
108653154 AATAATTAAG
108653164 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
108653214 TATTA TAT
1 TATTA TAT
108653222 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:108653869 original size:12 final size:12
Alignment explanation
Indices: 108653852--108653876 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108653842 GCCGACTACT
108653852 GTTACTGTTACC
1 GTTACTGTTACC
108653864 GTTACTGTTACC
1 GTTACTGTTACC
108653876 G
1 G
108653877 ATTCGACACT
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:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:108653907 original size:45 final size:45
Alignment explanation
Indices: 108653854--108653960 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
108653844 CGACTACTGT
* *
108653854 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTCTGTGTCGAA
* *
108653899 TATTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
*
108653944 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
108653961 ATACTGCTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
Found at i:108655704 original size:13 final size:13
Alignment explanation
Indices: 108655672--108655717 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
108655662 AAATTTTAAA
108655672 ATAA-TAATAATT
1 ATAATTAATAATT
108655684 AATAATTAATAATT
1 -ATAATTAATAATT
*
108655698 ATCATT-ATAAATT
1 ATAATTAAT-AATT
108655711 ATAATTA
1 ATAATTA
108655718 CAATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:108658445 original size:15 final size:15
Alignment explanation
Indices: 108658425--108658454 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
108658415 CAATTTGGGC
108658425 CGTGTGGGCCACATG
1 CGTGTGGGCCACATG
108658440 CGTGTGGGCCACATG
1 CGTGTGGGCCACATG
108658455 GGCATGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.20
Consensus pattern (15 bp):
CGTGTGGGCCACATG
Found at i:108665109 original size:53 final size:52
Alignment explanation
Indices: 108664963--108665174 Score: 185
Period size: 52 Copynumber: 4.2 Consensus size: 52
108664953 GATGGAATAT
108664963 ATGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCAT-GAGTGC
1 ATGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATCGAGTGC
* * * * * *
108665014 ATTATGATATTTTCTCCCGTATAAGACCATGGCTAGGCTATGGCATCAGAGTG-
1 A-TGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATC-GAGTGC
* * * *
108665067 ATGTGATAATGTGCCCCCATATAAGACCATATCTGGGATATGGCATCG-GT--
1 ATGTGAT-ATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATCGAGTGC
* * * * *
108665117 A--TGATATGTG-ATCCGTGTAAGACCATGGCAGGGCTATGGCTTCG-GTG-
1 ATGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATCGAGTGC
108665164 -TGTGATATGTG
1 ATGTGATATGTG
108665175 ACTACGTGCA
Statistics
Matches: 130, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
46 27 0.21
47 5 0.04
48 13 0.10
50 1 0.01
51 3 0.02
52 44 0.34
53 32 0.25
54 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCACCCGTATAAGACCATAGCTGGGCTATGGCATCGAGTGC
Found at i:108667301 original size:89 final size:89
Alignment explanation
Indices: 108667193--108667379 Score: 367
Period size: 89 Copynumber: 2.1 Consensus size: 89
108667183 AGGAAGAAAT
108667193 GTGCATCAGATTCGAAGAAGGGCTAAATAATGAGATCAAAATGATGATAGGGGGCACTGAGATAC
1 GTGCATCAGATTCGAAGAAGGGCTAAATAATGAGATCAAAATGATGATAGGGGGCACTGAGATAC
108667258 GAGAATTCGTTGTATTAGCAGATC
66 GAGAATTCGTTGTATTAGCAGATC
108667282 GTGCATCAGATTCGAAGAAGGGCTAAATAATGAGATCAAAATGATGATAGGGGGCACTGAGATAC
1 GTGCATCAGATTCGAAGAAGGGCTAAATAATGAGATCAAAATGATGATAGGGGGCACTGAGATAC
108667347 GAGAATTCGTTGTATTAGCAGATC
66 GAGAATTCGTTGTATTAGCAGATC
108667371 GTGC-TCAGA
1 GTGCATCAGA
108667380 AACTTGAAGA
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 5 0.05
89 93 0.95
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (89 bp):
GTGCATCAGATTCGAAGAAGGGCTAAATAATGAGATCAAAATGATGATAGGGGGCACTGAGATAC
GAGAATTCGTTGTATTAGCAGATC
Found at i:108671261 original size:2 final size:2
Alignment explanation
Indices: 108671254--108671291 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
108671244 ATAATGATAC
108671254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108671292 GGATAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108671602 original size:3 final size:3
Alignment explanation
Indices: 108671594--108671631 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
108671584 TGATTACATA
108671594 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
108671632 ATATTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:108671802 original size:3 final size:3
Alignment explanation
Indices: 108671784--108671869 Score: 54
Period size: 3 Copynumber: 29.0 Consensus size: 3
108671774 AAAAGAAAAT
* * * * * *
108671784 ATA ATA ATG ATG ATA ATA ATA GTA AT- ACA ATA GTA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
108671831 A-A AGTA GA-A ATA ATA ATA GTA ATGA A-A ATA ATA ATA ATA
1 ATA A-TA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
108671870 GCAATAATGA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 6 0.09
3 55 0.85
4 3 0.05
5 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:108672156 original size:2 final size:2
Alignment explanation
Indices: 108672151--108672192 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
108672141 TTTTAGTCTT
*
108672151 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108672193 AACAGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108673034 original size:97 final size:97
Alignment explanation
Indices: 108672864--108673139 Score: 329
Period size: 97 Copynumber: 2.9 Consensus size: 97
108672854 GTATCTTGTT
* * * *
108672864 GCTTCAATCCACTCCACTGCAACTTCAGGGAACTAAGATTTGCTATCTTCAGTCTGCTCATACTG
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
* *
108672929 CAATTTCAGGGAGATAAGACTCGCAACTTTTA
66 CAACTTCAGGGAGATAAGACTCGCAACTATTA
* * * ** *
108672961 GCTTCAAGCTGCTCCACTGTAACTTTAGGGAAATAAGATCCGCTATCTTCAGTCTGCTCCTACTT
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
* * * * *
108673026 TAACTTCAGAGAGACAGGGCTCGCAACTATTA
66 CAACTTCAGGGAGATAAGACTCGCAACTATTA
* * * * * *
108673058 GCTTCAAGCTACTTCACTACAACCTCAGGGAAATGAGATTTGCTATCTTCAGTCTACT-CTGCTG
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
*
108673122 CAACTTTAGGGAGATAAG
66 CAACTTCAGGGAGATAAG
108673140 GCTGGTGGCT
Statistics
Matches: 145, Mismatches: 34, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
96 17 0.12
97 128 0.88
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (97 bp):
GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
CAACTTCAGGGAGATAAGACTCGCAACTATTA
Found at i:108674504 original size:27 final size:27
Alignment explanation
Indices: 108674463--108674516 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
108674453 TGTCTTCTGA
* *
108674463 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
108674490 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
108674517 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:108674918 original size:50 final size:49
Alignment explanation
Indices: 108674770--108675006 Score: 253
Period size: 50 Copynumber: 4.8 Consensus size: 49
108674760 TGAGGTTACC
* * *
108674770 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* * * * * *
108674819 TGTGTAGTACTAAGTGCA-ACTACTATGCGTACTC-GACAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATAA-TT-GGTCACA
** *
108674869 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACA
* * * *
108674919 TGTATAGTACTAAATGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* * *
108674968 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
108675007 GCCTTGTCTA
Statistics
Matches: 153, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
48 13 0.08
49 59 0.39
50 69 0.45
51 12 0.08
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
Found at i:108674972 original size:99 final size:99
Alignment explanation
Indices: 108674770--108675006 Score: 273
Period size: 99 Copynumber: 2.4 Consensus size: 99
108674760 TGAGGTTACC
* * * *
108674770 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
* *
108674835 CAACTACTATGCGTACTCGACAACTTCGATCACG
66 CAACTACTACGCGTACTCGACAACTTCGATCACA
* ** *
108674869 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTATAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTATAGTACTAAAT
* * * * *
108674934 GCAGGCTACTACGTGTA-TCGGATAA-TT-GGTCGCA
65 GCA-ACTACTACGCGTACTC-GACAACTTCGATCACA
* *
108674968 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
108675007 GCCTTGTCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
99 77 0.66
100 25 0.22
101 14 0.12
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
CAACTACTACGCGTACTCGACAACTTCGATCACA
Found at i:108676847 original size:90 final size:90
Alignment explanation
Indices: 108676738--108677027 Score: 304
Period size: 89 Copynumber: 3.2 Consensus size: 90
108676728 GTTTGCTCTA
* *
108676738 CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAG
1 CTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
108676803 ATTTGCCATATTTTAGCTACTCCAT
66 ATTTGCCATATTTTAGCTACTCCAT
* * ** * * ** * *
108676828 TTGCAACTTCAAGGAGATAAGGTCT--TCAACTTCAATCTGCTCCACTGTTACTTCAGAAAGATG
1 CTGCAACTTCAAGGAGATAA-GACTGGT-GGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATA
* *
108676891 AGATTTG--TTGTCTTTAGTCTACTCC-T
64 AGATTTGCCATAT-TTTAG-CTACTCCAT
* * * *
108676917 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
* * *
108676982 ATTCGCCATATTTGATCTACTCCA-
66 ATTTGCCATATTTTAGCTACTCCAT
*
108677006 CTGCAAATTCAAGGAGATAAGA
1 CTGCAACTTCAAGGAGATAAGA
108677028 TCTTCAACTT
Statistics
Matches: 157, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
88 5 0.03
89 84 0.54
90 63 0.40
91 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (90 bp):
CTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
ATTTGCCATATTTTAGCTACTCCAT
Found at i:108676992 original size:179 final size:178
Alignment explanation
Indices: 108676738--108677073 Score: 519
Period size: 179 Copynumber: 1.9 Consensus size: 178
108676728 GTTTGCTCTA
*
108676738 CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAG
1 CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
* * * * *
108676803 ATTTGCCATATTTTAGCTACTCCATTTGCAACTTCAAGGAGATAAGGTCTTCAACTTCAATCTGC
66 ATTCGCCATATTTGAGCTACTCCA-CTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGC
* *
108676868 TCCACTGTTACTTCAGAAAGATGAGATTTGTTGTCTTTAGTCTACTCCT
130 TCCACTGCTACTTCAGAAAGATAAGATTTGTTGTCTTTAGTCTACTCCT
* * *
108676917 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
* *
108676982 ATTCGCCATATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTT
66 ATTCGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCT
** *
108677047 CCTTTGCTACTTCAGGAAGATAAGATT
131 CCACTGCTACTTCAGAAAGATAAGATT
108677074 GGTGGCTTAA
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
178 59 0.42
179 82 0.58
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (178 bp):
CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
ATTCGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCT
CCACTGCTACTTCAGAAAGATAAGATTTGTTGTCTTTAGTCTACTCCT
Found at i:108677043 original size:89 final size:87
Alignment explanation
Indices: 108676767--108677073 Score: 296
Period size: 89 Copynumber: 3.4 Consensus size: 87
108676757 AGACTGGTGG
* * * *
108676767 CTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATTTGCCATATTTTAGCTACTCCATTTGC
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATA-TTTATCTACTCCA-CTGC
108676832 AACTTCAAGGAGATAAGGTCTTCAA
64 AACTTCAAGGAGATAA-GTCTTCAA
* * ** * * *** * *
108676857 CTTCAATCTGCTCCACTGTTACTTCAGAAAGATGAGATTTGTTGTCTTTAGTCTACTCCTCTGCA
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTTA-TCTACTCCACTGCA
* * **
108676922 ACTTCAGGGAGATAAGGCTGGT-GG
65 ACTTCAAGGAGATAAGTCT--TCAA
* *
108676946 CTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTCGCCATATTTGATCTACTCCACTGCA
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTT-ATCTACTCCACTGCA
*
108677011 AATTCAAGGAGATAAGATCTTCAA
65 ACTTCAAGGAGATAAG-TCTTCAA
*
108677035 CTTCAATCTG-TTC-CTTTGCTACTTCAGGAAGATAAGATT
1 CTTCAATCTGCTTCGC--TGCAACTTCAGGAAGATAAGATT
108677074 GGTGGCTTAA
Statistics
Matches: 171, Mismatches: 38, Indels: 17
0.76 0.17 0.08
Matches are distributed among these distances:
87 1 0.01
88 7 0.04
89 117 0.68
90 46 0.27
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (87 bp):
CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTTATCTACTCCACTGCAA
CTTCAAGGAGATAAGTCTTCAA
Found at i:108677281 original size:132 final size:129
Alignment explanation
Indices: 108676925--108677421 Score: 439
Period size: 132 Copynumber: 3.8 Consensus size: 129
108676915 CTCTGCAACT
* * * * * * *
108676925 TCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTCGCCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC-CTACTACCTCAGGAAGATAAGATTCACCG
* * *** * * *
108676990 TATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTTCCTTTGCT
65 TCTTTGATCTGCTCCACTGC-TGCTCAAGGAGATAAGATCTT-AACTTCAACCTGCTCCATTGCT
*
108677055 AC
128 GC
* ** * * * *
108677057 TTCAGGAAGATAAGATTGGTGGCTTAAATCTGC-TCC--CTA-CTCGGGAAGATAAGATTCGCAG
1 -TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCG
* * * * * * *
108677118 TCTTCT-ATCTGCTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTGCATTGT
65 TCTT-TGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCT-TAA-CTTCAACCTGCTCCATTGC
108677182 TGC
127 TGC
* *
108677185 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGTAAGATAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTT-CCTACTACCTCAGGAAGATAAGATTCACCG
* * *
108677250 TCTTTGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
65 TCTTTGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCT-TAA-CTTCAACCTGCTCCATTGCT
108677315 GC
128 GC
* * * * *
108677317 TTATGGAGACAGGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATATGATTCACCGT
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCGT
* * * * * *
108677382 CTTCGATCTAG-TTCACTACTACTTAGGGAGATAAGATCTT
66 CTTTGATCT-GCTCCACTGCTGCTCAAGGAGATAAGATCTT
108677422 TGAATTCACC
Statistics
Matches: 296, Mismatches: 58, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
127 44 0.15
128 50 0.17
129 5 0.02
131 64 0.22
132 105 0.35
133 28 0.09
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (129 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCGT
CTTTGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCTTAACTTCAACCTGCTCCATTGCTGC
Found at i:108678719 original size:24 final size:25
Alignment explanation
Indices: 108678656--108678721 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
108678646 GGCCTCTCTT
* *
108678656 TTTTCTTTCTTCTTTTTTATTTTTGA
1 TTTT-TTTCTTATTTTTGATTTTTGA
**
108678682 -TTTTGACTTATTTTTGATTTTTGA
1 TTTTTTTCTTATTTTTGATTTTTGA
*
108678706 TTTTTTTCTTTTTTTT
1 TTTTTTTCTTATTTTT
108678722 ATCTCAAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 17 0.53
25 15 0.47
ACGTcount: A:0.09, C:0.08, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTTTTCTTATTTTTGATTTTTGA
Found at i:108684404 original size:52 final size:53
Alignment explanation
Indices: 108684315--108684443 Score: 147
Period size: 53 Copynumber: 2.5 Consensus size: 53
108684305 GTACCATATC
*
108684315 AGACCATAGCTGGGCTATGGCATCGGTGCATTATGAT-ATGTA-CTCCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCT-CCGTATA
* * * *
108684367 AGACCATGGCTGGGCTATGGCATCAGTAGGA-TGTGATAATGTGCCTCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGT-GCATTATGATAATGTACCTCCGTATA
** *
108684420 AGACCATATTTGGGATATGGCATC
1 AGACCATAGCTGGGCTATGGCATC
108684444 GATATGATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
52 30 0.46
53 33 0.51
54 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (53 bp):
AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCTCCGTATA
Found at i:108685884 original size:38 final size:39
Alignment explanation
Indices: 108685833--108685977 Score: 154
Period size: 38 Copynumber: 3.8 Consensus size: 39
108685823 AAAGGCCCGA
* *
108685833 ATATAATACCAGCACT-AGGCTTACGGGATTTAACCCAG
1 ATATAATACCAGCACTGAAGCCTACGGGATTTAACCCAG
*
108685871 ATATAATACCAGCA-TGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACTGAAGCCTACGGGATTTAACCCAG
* ** *
108685909 ATATATTACCAGCAC-GAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACTGAAGCCTACGGGATTTAACCCAG
* * * * *
108685947 TTATATTACTAGCA-TAAAGCCTGCGGGATTT
1 ATATAATACCAGCACTGAAGCCTACGGGATTT
108685978 TAAGCCCGGA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 93 0.99
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (39 bp):
ATATAATACCAGCACTGAAGCCTACGGGATTTAACCCAG
Found at i:108685922 original size:76 final size:76
Alignment explanation
Indices: 108685833--108685977 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
108685823 AAAGGCCCGA
* * * *
108685833 ATATAATACCAGCACTAGGCTTACGGGATTTAACCCAGATATAATACCAGCATGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATAAAGCCTGCGGG
108685898 ATTTAACCCAG
66 ATTTAACCCAG
* ** * * * *
108685909 ATATATTACCAGCACGAAGCCTGTGGGATTTAACCCGGTTATATTACTAGCATAAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATAAAGCCTGCGGG
108685974 ATTT
66 ATTT
108685978 TAAGCCCGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATAAAGCCTGCGGG
ATTTAACCCAG
Found at i:108691460 original size:46 final size:44
Alignment explanation
Indices: 108691364--108691486 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 44
108691354 CTTTTATTCA
* * * *
108691364 TTCACCGGCATT-TCGCCTACTAGGCTC-GAGGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATAAT
108691406 TTCACCGGCATTATAGCCTGCTAGGCTCAAAAGGCCCGA-ATAAT
1 TTCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGATATAAT
*
108691450 GTCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCC
1 -T-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCC
108691487 TAAAAATAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
42 12 0.17
43 13 0.18
44 4 0.06
45 16 0.23
46 26 0.37
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATAAT
Found at i:108691555 original size:38 final size:38
Alignment explanation
Indices: 108691492--108691634 Score: 214
Period size: 38 Copynumber: 3.8 Consensus size: 38
108691482 AGGCCTAAAA
* * *
108691492 ATAATACCAGCACTAGGCCTACGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
108691530 ATAATACCAGCACGAAGCTTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
108691568 ATATTACCAGCACGAAGCTTGCGGGATTTAACCCGGTT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
108691606 ATATTACCAGCACGAAGCCTGCGGGATTT
1 ATAATACCAGCACGAAGCCTGCGGGATTT
108691635 TAAGCCTGGA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 98 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:108697187 original size:40 final size:39
Alignment explanation
Indices: 108697004--108697187 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
108696994 ACGACTCGCT
** * *
108697004 CAAATGCCTTCGGGACGAAGCCCGGTTATA-TCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGT-AACTTGCA
* * * *
108697044 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
108697084 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
108697122 CGAATGCCTT-TGGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
108697163 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
108697188 CATCATTCGA
Statistics
Matches: 113, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 24 0.21
39 19 0.17
40 60 0.53
41 10 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:108710157 original size:40 final size:40
Alignment explanation
Indices: 108710112--108710279 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
108710102 CGGAATATAA
108710112 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
108710152 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
108710192 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
108710232 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
108710272 CCGGATAT
1 CCGGATAT
108710280 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:108714743 original size:56 final size:57
Alignment explanation
Indices: 108714692--108714822 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
108714682 TTTTAATAAG
* *
108714692 ATTATTATTAAATATAATTTAATAATA-AATAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATTTTAACATA
* * * * *
108714748 ATTTTTATTAAAAATAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATT-TTAACATA
*
108714806 AATATTA-TAAAAATAAT
1 ATTATTATTAAAAATAAT
108714823 ATATAACCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 24 0.38
57 28 0.44
58 12 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATTTTAACATA
Found at i:108719303 original size:23 final size:23
Alignment explanation
Indices: 108719277--108719320 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
108719267 GATAAATATC
108719277 TTCACAACCTTTT-CTTAAAAAAA
1 TTCA-AACCTTTTACTTAAAAAAA
* *
108719300 TTCAATCTTTTTACTTAAAAA
1 TTCAAACCTTTTACTTAAAAA
108719321 TTACACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCAAACCTTTTACTTAAAAAAA
Found at i:108723086 original size:28 final size:28
Alignment explanation
Indices: 108723021--108723121 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
108723011 ATAGTGAATC
*
108723021 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
108723050 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
108723078 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
108723108 CGCACACTTAGTGC
1 CGCACACTTAGTGC
108723122 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:108725347 original size:41 final size:40
Alignment explanation
Indices: 108725285--108725434 Score: 117
Period size: 41 Copynumber: 3.8 Consensus size: 40
108725275 AATAGGGCTT
* *
108725285 TAGCGGCG-TTTT-G-ACAACACCGCTAAAAACTGAGCAA
1 TAGCGGCGCTTTTAGTAAAACACCGCTAAAAACAGAGCAA
* * *
108725322 TAGCGGCAGTTTTTATTAAAACACCGCTAAAAACAGAGCAT
1 TAGCGGC-GCTTTTAGTAAAACACCGCTAAAAACAGAGCAA
* * * * *
108725363 TAGTGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTAGTAAAACACCGCTAAA-AACAGAGCAA
* * * * * *
108725404 TGGCAGTGCTTTTGGTAAAACGCCACTAAAA
1 TAGCGGCGCTTTTAGTAAAACACCGCTAAAA
108725435 GTCATGTAAC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
37 7 0.08
38 1 0.01
39 4 0.04
40 20 0.22
41 61 0.66
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (40 bp):
TAGCGGCGCTTTTAGTAAAACACCGCTAAAAACAGAGCAA
Found at i:108726074 original size:24 final size:24
Alignment explanation
Indices: 108726047--108726095 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
108726037 CATATATTTA
*
108726047 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
108726071 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
108726095 T
1 T
108726096 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:108726150 original size:2 final size:2
Alignment explanation
Indices: 108726143--108726182 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
108726133 GAGTTTTTAT
*
108726143 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108726183 AAAATACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:108726503 original size:21 final size:21
Alignment explanation
Indices: 108726477--108726516 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
108726467 AATCATGGAT
108726477 AAATAAATAAAAAAACATTAA
1 AAATAAATAAAAAAACATTAA
108726498 AAATAAATAAAAAAACATT
1 AAATAAATAAAAAAACATT
108726517 TGATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAAAAACATTAA
Found at i:108726977 original size:14 final size:13
Alignment explanation
Indices: 108726928--108726979 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
108726918 TTAATTTTTT
*
108726928 TATTTATAAAAAC
1 TATTTATAAAAAA
108726941 TAATTTATAAAAAA
1 T-ATTTATAAAAAA
* *
108726955 TAGTAATAAAAAA
1 TATTTATAAAAAA
108726968 TATTTTATAAAA
1 TA-TTTATAAAA
108726980 TTACTTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:108729138 original size:81 final size:81
Alignment explanation
Indices: 108729041--108729191 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
108729031 TACCTTTTTG
* * * * * *
108729041 AATTTGTGATAGATTTTCAGTGGG-AATTTATTG-ATATTCTTTGTCACTTACTTGTGTATCTTG
1 AATTTGTAATAAATTTTCAGTGGGAAAATT-TTGCAGA-TCTTTATCACATACTTGTGTATCTTG
108729104 GCTGTTGGTACATTGTTT
64 GCTGTTGGTACATTGTTT
* *
108729122 AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATGTTTATCACATGCTTGTGTATCTTGGC
1 AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATCTTTATCACATACTTGTGTATCTTGGC
108729187 TGTTG
66 TGTTG
108729192 ACTTCAGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 54 0.90
82 6 0.10
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (81 bp):
AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATCTTTATCACATACTTGTGTATCTTGGC
TGTTGGTACATTGTTT
Found at i:108732748 original size:27 final size:26
Alignment explanation
Indices: 108732700--108732831 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 26
108732690 GCGAGGCTGC
* *
108732700 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
108732726 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* * * *
108732753 CAGATAATCGTGGCATAGCCACCAAAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
*
108732780 CAGATATATGTGGCAGAGCAACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
108732807 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
108732832 GACGCTTCCT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.08
27 78 0.89
28 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:108732796 original size:54 final size:53
Alignment explanation
Indices: 108732726--108732830 Score: 183
Period size: 54 Copynumber: 2.0 Consensus size: 53
108732716 GTCACCAGAT
*
108732726 ACAGATATTGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAAA
1 ACAGATATTGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGCCACCAAA
*
108732779 ACAGATATATGTGGCAGAGCAACCAGATCAGATAATTGTGGCATAGCCACCA
1 ACAGATAT-TGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGCCACCA
108732831 GGACGCTTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (53 bp):
ACAGATATTGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGCCACCAAA
Found at i:108732999 original size:28 final size:26
Alignment explanation
Indices: 108732937--108732999 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
108732927 AAAGTAACCC
** * *
108732937 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
108732963 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
108732991 TAGGGGTAT
1 TAGGGGTAT
108733000 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:108734468 original size:26 final size:26
Alignment explanation
Indices: 108734437--108734544 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108734427 TGAAATGCCC
*
108734437 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108734463 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108734489 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108734515 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108734541 ATCA
1 ATCA
108734545 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108739782 original size:27 final size:27
Alignment explanation
Indices: 108739734--108739892 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
108739724 GCGAGGCTGC
* *
108739734 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
108739761 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
108739787 TAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
108739814 TAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
108739841 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
108739868 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
108739893 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 9 0.08
27 101 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:108739824 original size:54 final size:54
Alignment explanation
Indices: 108739752--108739892 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
108739742 GTGACGAAGT
* * *
108739752 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
108739806 CACCAGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
108739860 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
108739893 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:108741531 original size:26 final size:26
Alignment explanation
Indices: 108741500--108741607 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108741490 TGAAATGCCC
*
108741500 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108741526 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108741552 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108741578 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108741604 ATCA
1 ATCA
108741608 ATTTGGACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108744393 original size:25 final size:25
Alignment explanation
Indices: 108744362--108744425 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
108744352 AATCAAAATG
* *
108744362 AGAATCAGAATCA-TAATTAGGTGAC
1 AGAATCAGAATCAGT-ATCAGGTAAC
108744387 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAAC
*
108744412 AGAATTAGAATCAG
1 AGAATCAGAATCAG
108744426 AATGTGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATCAGTATCAGGTAAC
Found at i:108744586 original size:27 final size:26
Alignment explanation
Indices: 108744546--108744653 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
108744536 AGCATAACTG
* *
108744546 CCAGAACAGATATTGTGGTAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
108744572 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
108744599 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
108744626 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
108744653 C
1 C
108744654 TTAACAGAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.16
27 54 0.73
28 8 0.11
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:108744840 original size:22 final size:22
Alignment explanation
Indices: 108744812--108744876 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
108744802 GTAAATACGT
* *
108744812 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
108744834 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
108744856 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
108744877 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:108745282 original size:27 final size:27
Alignment explanation
Indices: 108745252--108745305 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
108745242 AGGGGCAAAA
108745252 TGGTAATTTTGCTAATCGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
* *
108745279 TGGTAATTTTTCTAATTGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
108745306 CAATAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.48
Consensus pattern (27 bp):
TGGTAATTTTGCTAATCGAGGGTATTT
Found at i:108745312 original size:27 final size:27
Alignment explanation
Indices: 108745255--108745314 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
108745245 GGCAAAATGG
***
108745255 TAATTTTGCTAATCGAGGGTATTTTGG
1 TAATTTTGCTAATCGAGGGTATTTCAA
* *
108745282 TAATTTTTCTAATTGAGGGTATTTCAA
1 TAATTTTGCTAATCGAGGGTATTTCAA
108745309 TAATTT
1 TAATTT
108745315 GGTAAACTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (27 bp):
TAATTTTGCTAATCGAGGGTATTTCAA
Found at i:108747347 original size:25 final size:25
Alignment explanation
Indices: 108747313--108747404 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
108747303 AATCAAAATG
* * *
108747313 AGAATAAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
*
108747338 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
* * * *
108747363 AAAATCAGAATTAGTATTAGGTAAC
1 AGAATCAGAATCAGAATTAGGTGAC
*
108747388 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
108747405 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.23
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTGAC
Found at i:108747591 original size:27 final size:26
Alignment explanation
Indices: 108747522--108747625 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 26
108747512 AGTATGGCTG
*
108747522 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGTCA
*
108747548 CCAGATACAAATATTGTGGCAAAGTCA
1 CCAGA-ACAGATATTGTGGCAAAGTCA
* * *
108747575 CCAGAACAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGTCA
*
108747602 CCAGAAACAGATAATGTGGCAAAG
1 CCAG-AACAGATATTGTGGCAAAG
108747626 CCACTTAACA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 10 0.15
27 49 0.74
28 7 0.11
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGTCA
Found at i:108747790 original size:22 final size:23
Alignment explanation
Indices: 108747762--108747823 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
108747752 GCAAATACGT
108747762 TTGGCACAGAGCCATAAT-TAGG
1 TTGGCACAGAGCCATAATGTAGG
108747784 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAGAGCCATAATGTAGG
* *
108747806 TTGGCGCAAAGCCATAAT
1 TTGGCACAGAGCCATAAT
108747824 CAGAATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (23 bp):
TTGGCACAGAGCCATAATGTAGG
Found at i:108748231 original size:27 final size:27
Alignment explanation
Indices: 108748201--108748342 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
108748191 GGGGCAAAAT
* * *
108748201 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
108748228 GGTAATTCTATCCTACTGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
108748255 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
108748282 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
108748309 AATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
108748336 GGTAATT
1 GGTAATT
108748343 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:108748273 original size:54 final size:54
Alignment explanation
Indices: 108748205--108748342 Score: 206
Period size: 54 Copynumber: 2.6 Consensus size: 54
108748195 CAAAATGGTA
* * * * *
108748205 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTATCCTACTGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAAT
108748258 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAAT
* *
108748312 AATTCTACCCTATAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
108748343 TTGTAAATCG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 4 0.05
54 73 0.95
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAAT
Found at i:108748356 original size:27 final size:27
Alignment explanation
Indices: 108748326--108748618 Score: 173
Period size: 27 Copynumber: 10.9 Consensus size: 27
108748316 CTACCCTATA
*
108748326 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * * *
108748353 AGGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* * ** *
108748380 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** ** *
108748407 AGGGTATTTTAGTAATTTTACAGGTTG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* *** *
108748434 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
108748461 AGGATATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTGTAAATCG
** *
108748487 AGGGGTATTTTGGTAATTTTCCAAA-CT
1 A-GGGTATTTTGGTAATTTTGTAAATCG
108748514 AGAGGTATTTTGGTAATTTTGCT-AATCG
1 AG-GGTATTTTGGTAATTTTG-TAAATCG
*
108748542 AGGGTATTTTGGTAATTTT-TCTAATCG
1 AGGGTATTTTGGTAATTTTGT-AAATCG
** * *
108748569 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAATCG
** *
108748595 AGGGTATTTCAGTAATTTGGTAAA
1 AGGGTATTTTGGTAATTTTGTAAA
108748619 CTAAAGTATT
Statistics
Matches: 216, Mismatches: 42, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 22 0.10
27 190 0.88
28 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:108748420 original size:54 final size:53
Alignment explanation
Indices: 108748326--108748591 Score: 198
Period size: 54 Copynumber: 4.9 Consensus size: 53
108748316 CTACCCTATA
* *** *
108748326 AGGGTATTTCGGTAATTTTGTA-AATCGAGGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTATTTTGGTAA-TTT-TACAATCGAGGGTATTTTAGTAATTTTGTAAATTG
* * ** **
108748380 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTTG
1 AGGGTATTTTGGTAATTTTACAA-TCGAGGGTATTTTAGTAATTTTGTAAATTG
* * * * * ** *
108748434 AGGGTATTTTAGTAATTTCACAAATCAAGGATATTTTGGTAATTTTACAAACT-
1 AGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTAGTAATTTTGTAAATTG
* * * * *
108748487 AGGGGTATTTTGGTAATTTTCCAAACTAGAGGTATTTTGGTAATTTTGCT-AATCG
1 A-GGGTATTTTGGTAATTTTACAATCGAG-GGTATTTTAGTAATTTTG-TAAATTG
* *
108748542 AGGGTATTTTGGTAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTAAA
1 AGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTTAGTAATTTTGTAAA
108748592 CCAAGGGTAT
Statistics
Matches: 167, Mismatches: 36, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
52 3 0.02
53 24 0.14
54 132 0.79
55 8 0.05
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAATCGAGGGTATTTTAGTAATTTTGTAAATTG
Found at i:108748472 original size:81 final size:80
Alignment explanation
Indices: 108748387--108748612 Score: 215
Period size: 81 Copynumber: 2.8 Consensus size: 80
108748377 TTGGGGGTAC
** *
108748387 TTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTAC-AGGTTGAGGGTATTTTAGTAATT
1 TTTGGTAATTTTACAA-TCGAGGGTATTTTAGTAATTTTACAAACTAGA-GGTATTTTAGTAATT
108748451 TCACAAATCAAGGATAT
64 TCACAAATCAAGGATAT
* * * * *
108748468 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTCCAAACTAGAGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAATCGA-GGGTATTTTAGTAATTTTACAAACTAGAGGTATTTTAGTAATTT
** * * *
108748533 TGCTAATCGAGGGTAT
65 CACAAATCAAGGATAT
* * ** * *
108748549 TTTGGTAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTAAACCA-AGGGTATTTCAGTAATT
1 TTTGGTAATTTTAC-AATCGAGGGTATTTTAGTAATTTTACAAACTAGA-GGTATTTTAGTAATT
108748612 T
64 T
108748613 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.01
80 31 0.26
81 78 0.66
82 8 0.07
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (80 bp):
TTTGGTAATTTTACAATCGAGGGTATTTTAGTAATTTTACAAACTAGAGGTATTTTAGTAATTTC
ACAAATCAAGGATAT
Found at i:108748627 original size:26 final size:27
Alignment explanation
Indices: 108748575--108748628 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
108748565 ATCGAGGGTA
* *
108748575 TTCAGTAATTTTGTAAACCAAGGGTAT
1 TTCAGTAATTTGGTAAACCAAGAGTAT
*
108748602 TTCAGTAATTTGGTAAACTAA-AGTAT
1 TTCAGTAATTTGGTAAACCAAGAGTAT
108748628 T
1 T
108748629 CTAAACAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (27 bp):
TTCAGTAATTTGGTAAACCAAGAGTAT
Found at i:108756951 original size:79 final size:80
Alignment explanation
Indices: 108756828--108757008 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
108756818 TACTCGTTCA
* ** *
108756828 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCGGA
* *
108756892 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
108756908 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
108756971 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
108756987 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
108757009 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 5 0.06
79 56 0.64
80 26 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:108757010 original size:40 final size:40
Alignment explanation
Indices: 108756826--108757010 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
108756816 GCTACTCGTT
* *
108756826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
108756866 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
108756906 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
108756945 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
108756986 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
108757011 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:108764914 original size:39 final size:39
Alignment explanation
Indices: 108764866--108765050 Score: 157
Period size: 39 Copynumber: 4.8 Consensus size: 39
108764856 CGGAATTTAA
** *
108764866 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGACATAAC
* * *
108764905 CCGGTTATAGTAACTCGCACAAATGCCTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACATAAC
* * * * *
108764944 CCGGATTTAGTAACTTGCACCAATGCCTTCGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACATAAC
* **
108764982 CC--AT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CATAAC
* *
108765019 CCGGATATAGTCACTTAGCACAAA-GCCTTCGG
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGG
108765051 GACTTAGCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
35 23 0.19
36 2 0.02
37 7 0.06
38 8 0.07
39 60 0.49
40 14 0.11
41 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACATAAC
Found at i:108765002 original size:74 final size:77
Alignment explanation
Indices: 108764912--108765060 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 77
108764902 AGCCCGGTTA
* * *
108764912 TAGTAACTCGCACAAATGCCTTGGGA-CTTAACCCGGATTTAGTAACTT-GCACCAATGCCTTC-
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTCG
108764974 GG-CTTAGCCCAT
65 GGACTTAGCCCAT
** *
108764986 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
108765051 GACTTAGCCC
66 GACTTAGCCC
108765061 GGACATCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
74 25 0.38
75 27 0.42
76 5 0.08
77 8 0.12
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (77 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCAT
Found at i:108765004 original size:35 final size:37
Alignment explanation
Indices: 108764885--108765061 Score: 171
Period size: 39 Copynumber: 4.6 Consensus size: 37
108764875 GCTACTCGTT
* *
108764885 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCC-GAT-TAGTAACTCGCA
* * *
108764924 CAAATGCCTTGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGACTTAGCCC-GA-TTAGTAACTCGCA
*
108764963 CCAATGCCTTCGG-CTTAGCCC-ATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGATTAGTAACTCGCA
* * *
108764998 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAG-CCCGAT-TAGTAAC-TCGCA
108765039 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCCG
108765062 GACATCATTC
Statistics
Matches: 116, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
35 24 0.21
36 1 0.01
37 5 0.04
38 9 0.08
39 48 0.41
40 18 0.16
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (37 bp):
CAAATGCCTTCGGACTTAGCCCGATTAGTAACTCGCA
Found at i:108769247 original size:79 final size:80
Alignment explanation
Indices: 108769107--108769318 Score: 263
Period size: 79 Copynumber: 2.7 Consensus size: 80
108769097 TATTCGAATG
* * * **
108769107 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGC
108769172 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
108769188 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGG
108769250 CATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACT
* * *
108769267 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAA
108769319 ATTCCAAGGT
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 59 0.52
80 42 0.37
81 12 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:108769309 original size:40 final size:40
Alignment explanation
Indices: 108769107--108769314 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
108769097 TATTCGAATG
* * *
108769107 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
108769148 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
108769188 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
108769227 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
108769267 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
108769307 ATATCCGG
1 ATATCCGG
108769315 TTAAATTCCA
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.25
40 81 0.55
41 28 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:108773439 original size:79 final size:81
Alignment explanation
Indices: 108773326--108773508 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
108773316 TACTCGTTCA
* *
108773326 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
108773389 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
108773406 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
108773469 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
108773485 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
108773509 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:108773508 original size:40 final size:40
Alignment explanation
Indices: 108773305--108773508 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
108773295 TCGAATTTAA
** *
108773305 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
108773345 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
108773385 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
108773424 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
108773464 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
108773504 CCGGA
1 CCGGA
108773509 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:108781525 original size:77 final size:81
Alignment explanation
Indices: 108781413--108781593 Score: 239
Period size: 77 Copynumber: 2.3 Consensus size: 81
108781403 TACTCGTTCA
* * *
108781413 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
108781476 TTTAGTAAC-T-GCACC
66 TATAGTAACTTAGCA-C
**
108781491 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
108781554 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
108781570 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
108781594 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
77 34 0.38
78 29 0.32
79 13 0.14
80 14 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:108781593 original size:40 final size:40
Alignment explanation
Indices: 108781392--108781593 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
108781382 CGGAATTTAA
** *
108781392 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
108781432 CCGGTTATAGTAACTCGCACAAATGCCTT-GGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
108781471 CCGGATTTAGTAACT-GCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
108781509 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
108781549 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
108781589 CCGGA
1 CCGGA
108781594 CATCATTCGA
Statistics
Matches: 138, Mismatches: 15, Indels: 18
0.81 0.09 0.11
Matches are distributed among these distances:
38 32 0.23
39 38 0.28
40 56 0.41
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:108784551 original size:24 final size:24
Alignment explanation
Indices: 108784490--108784552 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
108784480 ATATGTCATA
* *
108784490 AATTAATCCTTTGAATTTACCATC
1 AATTCATCCTTTGCATTTACCATC
* *
108784514 AATTCATCCTTTGCATTTATCGTC
1 AATTCATCCTTTGCATTTACCATC
*
108784538 AATTCATTCTTTGCA
1 AATTCATCCTTTGCA
108784553 CAGAACGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.44
Consensus pattern (24 bp):
AATTCATCCTTTGCATTTACCATC
Found at i:108784993 original size:17 final size:17
Alignment explanation
Indices: 108784971--108785005 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108784961 GATAATTTAT
108784971 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
108784988 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
108785005 T
1 T
108785006 CATACAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TTAAATATTCTAGGCTA
Found at i:108788326 original size:37 final size:37
Alignment explanation
Indices: 108788272--108788373 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
108788262 ATCCAACCAA
* *
108788272 AACACGCCAAACGCTCATAAGAGCTAATCCAATCGAT
1 AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
*
108788309 AACATGCCAAACACTCATAAAAGCTAATCCAATCGAT
1 AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
108788346 AACATGCCAAACACTCATAAGAGCTAAT
1 AACATGCCAAACACTCATAAGAGCTAAT
108788374 GCAACCAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (37 bp):
AACATGCCAAACACTCATAAGAGCTAATCCAATCGAT
Found at i:108788385 original size:37 final size:37
Alignment explanation
Indices: 108788260--108788386 Score: 175
Period size: 37 Copynumber: 3.5 Consensus size: 37
108788250 AGTACACAAG
* *
108788260 TAATCCAACCAA-AACACGCCAAACGCTCATAAGAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
* * *
108788296 TAATCCAATCGATAACATGCCAAACACTCATAAAAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
* *
108788333 TAATCCAATCGATAACATGCCAAACACTCATAAGAGC
1 TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
*
108788370 TAATGCAACCAATAACA
1 TAATCCAACCAATAACA
108788387 CGTCACAGCA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 10 0.12
37 71 0.88
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (37 bp):
TAATCCAACCAATAACATGCCAAACACTCATAAGAGC
Found at i:108791480 original size:46 final size:46
Alignment explanation
Indices: 108791407--108791594 Score: 277
Period size: 46 Copynumber: 4.1 Consensus size: 46
108791397 ATATATATAT
* * * *
108791407 ATATACATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
*
108791453 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
** * *
108791499 ATATCCATCTCATACATGTTTCGCATTAGCCATTTGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* *
108791545 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTCACCAC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
108791591 ATAT
1 ATAT
108791595 ATACACTTCC
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:108791639 original size:47 final size:47
Alignment explanation
Indices: 108791568--108791895 Score: 534
Period size: 47 Copynumber: 7.0 Consensus size: 47
108791558 ACACATTTCG
* * * * *
108791568 CATTAGCCATTCGG-CTTCACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTT-ATCACATATATGCA-TGTTCACATTCATCA
**
108791615 CATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
108791662 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
108791709 CATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
108791756 CATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
108791803 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
108791850 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
108791896 TCATAAAATC
Statistics
Matches: 264, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 260 0.98
48 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:108798504 original size:14 final size:13
Alignment explanation
Indices: 108798485--108798534 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
108798475 CAAGTAAAAC
108798485 ATAATAAATATTAT
1 ATAATAAATA-TAT
108798499 ATAATAAA-ATAT
1 ATAATAAATATAT
* *
108798511 ATGAGAAATA-AT
1 ATAATAAATATAT
108798523 ATAATAAATATA
1 ATAATAAATATA
108798535 GCATATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 19 0.63
13 3 0.10
14 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:108798571 original size:13 final size:13
Alignment explanation
Indices: 108798555--108798607 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
108798545 ATGAAAATTT
108798555 ATATGTAAAAATA
1 ATATGTAAAAATA
*
108798568 ATATGTATAAATA
1 ATATGTAAAAATA
*
108798581 A-ATGT-ATAAT-
1 ATATGTAAAAATA
108798591 ATATGTAAAATATA
1 ATATGTAAAA-ATA
108798605 ATA
1 ATA
108798608 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
10 1 0.03
11 7 0.22
12 6 0.19
13 15 0.47
14 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATATGTAAAAATA
Found at i:108798613 original size:21 final size:22
Alignment explanation
Indices: 108798564--108798615 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
108798554 TATATGTAAA
108798564 AATA-ATATGTATAAATAAATG
1 AATATATATGTATAAATAAATG
*
108798585 TATAATATATGTA-AAATATAAT-
1 AAT-ATATATGTATAAATA-AATG
108798607 AATATATAT
1 AATATATAT
108798616 ATAATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 8 0.31
22 8 0.31
23 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
AATATATATGTATAAATAAATG
Found at i:108798621 original size:19 final size:19
Alignment explanation
Indices: 108798394--108798641 Score: 71
Period size: 19 Copynumber: 13.1 Consensus size: 19
108798384 CAAAATTTTA
108798394 AATAATATATATATAATAT
1 AATAATATATATATAATAT
*
108798413 -A-AACATA-A-ATAATAT
1 AATAATATATATATAATAT
*
108798428 AAT-ATGTA-ATATACATA-
1 AATAATATATATATA-ATAT
*
108798445 ACAT-ATATATATAAAATAAT
1 A-ATAATATATATATAAT-AT
* * * *
108798465 AAGCAATATACAAGTAAAACAT
1 AA-TAATATA-TA-TATAATAT
*
108798487 AATAA-ATATTATATAATAA
1 AATAATATA-TATATAATAT
* *
108798506 AAT-ATATGAGAAATAATAT
1 AATAATAT-ATATATAATAT
*
108798525 AATAAATATAGCATATAATAAT
1 AAT-AATATA-TATATAAT-AT
* *
108798547 GAA-AATTTATATGTAA-A-
1 -AATAATATATATATAATAT
*
108798564 AATAATATGTATA-AATAAAT
1 AATAATATATATATAAT--AT
* * *
108798584 GTATAATATATGTAAAATAT
1 -AATAATATATATATAATAT
108798604 AATAATATATATATAATA-
1 AATAATATATATATAATAT
*
108798622 AACAAT-TATA-ATACATAT
1 AATAATATATATATA-ATAT
108798640 AA
1 AA
108798642 ATATAACACT
Statistics
Matches: 169, Mismatches: 32, Indels: 57
0.66 0.12 0.22
Matches are distributed among these distances:
15 7 0.04
16 13 0.08
17 23 0.14
18 21 0.12
19 42 0.25
20 14 0.08
21 32 0.19
22 10 0.06
23 7 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
AATAATATATATATAATAT
Found at i:108798646 original size:15 final size:14
Alignment explanation
Indices: 108798598--108798647 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
108798588 AATATATGTA
108798598 AAATATAATAATAT
1 AAATATAATAATAT
* *
108798612 ATATATAATAA-AC
1 AAATATAATAATAT
*
108798625 AATTATAATACATAT
1 AAATATAATA-ATAT
108798640 AAATATAA
1 AAATATAA
108798648 CACTTATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 9 0.32
14 11 0.39
15 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATAATAATAT
Found at i:108798649 original size:24 final size:24
Alignment explanation
Indices: 108798605--108798656 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
108798595 GTAAAATATA
*
108798605 ATAATATATATATAATAAACAATT
1 ATAATACATATATAATAAACAATT
*
108798629 ATAATACATATA-AATATAACACTT
1 ATAATACATATATAATA-AACAATT
108798653 ATAA
1 ATAA
108798657 AAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATACATATATAATAAACAATT
Found at i:108798717 original size:19 final size:19
Alignment explanation
Indices: 108798690--108798727 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
108798680 AAATAAAACA
* *
108798690 AATAGTAAAATATATATAG
1 AATAATAAAATAAATATAG
108798709 AATAATAAAATAAATATAG
1 AATAATAAAATAAATATAG
108798728 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
AATAATAAAATAAATATAG
Done.