Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002723.1 Hibiscus syriacus cultivar Beakdansim tig00005617_pilon, whole genome shotgun sequence
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: 204016
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:4277 original size:27 final size:28
Alignment explanation
Indices: 4242--4307 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
4232 AATAGTAAGA
* *
4242 AAACGATTTCCAAATTTTCTTACTTAG-
1 AAACTATTTCCAAAGTTTCTTACTTAGT
4269 AAACTATTTCCAAAGTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
4297 AAACTATTTCC
1 AAACTATTTCC
4308 CACATCTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (28 bp):
AAACTATTTCCAAAGTTTCTTACTTAGT
Found at i:4374 original size:45 final size:45
Alignment explanation
Indices: 4310--4434 Score: 223
Period size: 45 Copynumber: 2.8 Consensus size: 45
4300 CTATTTCCCA
*
4310 CATCTGCAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
4355 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
* *
4400 CATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
4435 AAGTCTTCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
Found at i:4508 original size:76 final size:76
Alignment explanation
Indices: 4377--4746 Score: 584
Period size: 76 Copynumber: 4.9 Consensus size: 76
4367 CTTCAGTGCA
* * *
4377 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
4442 CAGGAGCTTTT
66 CGGGAGCTTTT
* *
4453 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
4518 CGGGAGCTTTT
66 CGGGAGCTTTT
*
4529 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
4594 GGGGAGC-TTT
66 CGGGAGCTTTT
* *
4604 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
4669 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * * *
4680 TGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCATGATGTTTTC-AAAA-CCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
4743 CGGG
66 CGGG
4747 TCATCTATAA
Statistics
Matches: 276, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
74 8 0.03
75 75 0.27
76 193 0.70
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:4669 original size:151 final size:152
Alignment explanation
Indices: 4377--4738 Score: 575
Period size: 151 Copynumber: 2.4 Consensus size: 152
4367 CTTCAGTGCA
* * * *
4377 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
* * *
4442 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
4507 CAAAAAGCCTTCGGGAGCTTTT
131 CAAAAAGCCTTCGGGAGCTTTT
4529 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
**
4594 GGGGAGC-TTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
*
4658 CAAAAATCCTTCGGGAGCTTTT
131 CAAAAAGCCTTCGGGAGCTTTT
* * * *
4680 TGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACA-ATGCATGATGTTTTCAAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGA-GCAGGATGTTTTCAAAA
4739 CCTTCGGGTC
Statistics
Matches: 195, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
150 1 0.01
151 128 0.66
152 66 0.34
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (152 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
CAAAAAGCCTTCGGGAGCTTTT
Found at i:4789 original size:46 final size:45
Alignment explanation
Indices: 4685--4782 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
4675 CTTTTTGATA
* *
4685 TTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCATGATG
1 TTTTCAAAACCTTCGAGACATCTATAAGACCTACAATGCAGGATG
* * * * *
4730 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGAT-
1 TTTTCAAAACCTTCGAGACATCTATAAGACCTACAATGCAGGATG
4774 TTTTCAAAA
1 TTTTCAAAA
4783 AACCTTCAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 9 0.20
45 37 0.80
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (45 bp):
TTTTCAAAACCTTCGAGACATCTATAAGACCTACAATGCAGGATG
Found at i:4808 original size:74 final size:76
Alignment explanation
Indices: 4730--4933 Score: 322
Period size: 76 Copynumber: 2.7 Consensus size: 76
4720 ATGCATGATG
* * *
4730 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGAT-TTTTCAAAAAACCTTC-AGA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAGA
4793 GCTTTTTAATA
66 GCTTTTTAATA
*
4804 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGAGA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAGA
*
4869 GCTTTTTGATA
66 GCTTTTTAATA
* * *
4880 TTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
4934 CCTTCGGGTC
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
74 41 0.34
75 15 0.12
76 64 0.53
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (76 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAGA
GCTTTTTAATA
Found at i:4827 original size:119 final size:121
Alignment explanation
Indices: 4604--4857 Score: 377
Period size: 119 Copynumber: 2.1 Consensus size: 121
4594 GGGGAGCTTT
* * * *
4604 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
* *
4669 CGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCA
66 CGAGAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCA
* * *
4725 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGAT-TTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
* * *
4789 C-AGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
66 CGAGAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCA
*
4844 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
4858 AGCCTTCGAG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
119 62 0.52
120 15 0.12
121 43 0.36
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
CGAGAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGCA
Found at i:4828 original size:195 final size:195
Alignment explanation
Indices: 4529--5258 Score: 1045
Period size: 195 Copynumber: 3.7 Consensus size: 195
4519 GGGAGCTTTT
* * ** * *
4529 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
** * *
4594 GGGGAGCTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTC
66 -CAGAGCTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC
*
4659 AAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAATGC
130 AAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGC
4724 A
195 A
* * *
4725 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGAT-TTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
* *
4789 CAGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTC
66 CAGAGC-TTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC
* * * *
4854 AAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGC
130 AAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGC
4919 A
195 A
** * * * *
4920 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
*
4985 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
66 CA-GAGC-TTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* * * *
5050 CAAAAAAATCCTTTGGGAGCTTTTTAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAA
129 C--AAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAA
5115 TGCA
192 TGCA
*
5119 TGATGTTTTCAAAA-CTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAA-CCT
** * *
5183 TGGGAGCTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTGTTTTC
65 TCAGAGCTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC
5248 -AAAA-CCTTCGG
130 AAAAATCCTTCGG
5259 ATCATACATA
Statistics
Matches: 481, Mismatches: 47, Indels: 15
0.89 0.09 0.03
Matches are distributed among these distances:
193 6 0.01
194 8 0.02
195 174 0.36
196 58 0.12
197 115 0.24
198 45 0.09
199 75 0.16
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (195 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
CAGAGCTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCA
AAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCA
Found at i:4958 original size:45 final size:45
Alignment explanation
Indices: 4875--4978 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
4865 GAGAGCTTTT
* ** *
4875 TGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
* * **
4920 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
*
4965 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
4979 AGCGTTCAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
Found at i:4970 original size:121 final size:121
Alignment explanation
Indices: 4804--5054 Score: 396
Period size: 121 Copynumber: 2.1 Consensus size: 121
4794 CTTTTTAATA
** * *
4804 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC-GAG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAG-G
4868 AGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
65 AGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
** *
4925 TTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTTCAGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGA
* * *
4990 GCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
66 GCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
5046 TTTTCAAAA
1 TTTTCAAAA
5055 AAATCCTTTG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
121 118 0.99
122 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (121 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGA
GCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
Found at i:5008 original size:76 final size:76
Alignment explanation
Indices: 4920--5132 Score: 264
Period size: 78 Copynumber: 2.8 Consensus size: 76
4910 CTACAGTGCA
* ** ** * *
4920 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
4985 CAGGAGCTTTT
66 CAGGAGCTTTT
* * *
4996 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAATCC
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTC--AAAAAGCC
**
5061 TTTGGGAGCTTTT
64 TTCAGGAGCTTTT
* * * *
5074 TAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAATGCATGATGTTTTCAAAA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAA
5133 CTTCGGGTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
76 51 0.44
78 66 0.56
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (76 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
CAGGAGCTTTT
Found at i:5271 original size:45 final size:45
Alignment explanation
Indices: 5198--5296 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
5188 GCTTTTGATA
* * *
5198 TTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTG
1 TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
5243 TTTTCAAAACCTTC-GGATCATAC-ATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGA-CAT-CTATAAGACCTACAGTGCAGGATG
5288 TTTTCAAAA
1 TTTTCAAAA
5297 AATGCCTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 3 0.06
45 45 0.92
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
Found at i:5358 original size:123 final size:122
Alignment explanation
Indices: 4996--5405 Score: 637
Period size: 123 Copynumber: 3.4 Consensus size: 122
4986 AGGAGCTTTT
* * ** *
4996 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAATCC
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAATCC
* * * *
5061 TTTGGGAGCTTTTTAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAATGCA
65 TTTGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
5119 TGATGTTTTCAAAA-CTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAT-CT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCCT
5182 TTGGGAGC-TTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
66 TTGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
* * *
5238 TGTTGTTTTCAAAACCTTCGGATCATACATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCC
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAT-CC
* * *
5303 TTCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCA
65 TTTGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
*
5361 TGATGTTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
5406 AGATAATAAG
Statistics
Matches: 264, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
119 57 0.22
120 55 0.21
121 7 0.03
122 45 0.17
123 100 0.38
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCCT
TTGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
Found at i:5372 original size:45 final size:45
Alignment explanation
Indices: 5316--5410 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
5306 GAGAGCTTTT
* ** *
5316 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
* *
5361 TGATGTTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
*
5406 AGATA
1 TGATA
5411 ATAAGACCTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
Found at i:5591 original size:3 final size:3
Alignment explanation
Indices: 5579--5640 Score: 92
Period size: 3 Copynumber: 21.0 Consensus size: 3
5569 TTTTTTTTTT
*
5579 TTA TTT TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
5627 TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
5641 AATTTACATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6777 original size:21 final size:20
Alignment explanation
Indices: 6753--6797 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
6743 AATTAGTATC
*
6753 TTTAATTTTAATATTTTATAT
1 TTTAATTCTAATATTTTA-AT
*
6774 TTTAATTCTATTATTTTAAT
1 TTTAATTCTAATATTTTAAT
6794 TTTA
1 TTTA
6798 TTTATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTCTAATATTTTAAT
Found at i:6788 original size:14 final size:15
Alignment explanation
Indices: 6771--6806 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
6761 TAATATTTTA
6771 TATTTTAATTCTA-T
1 TATTTTAATTCTATT
*
6785 TATTTTAATTTTATT
1 TATTTTAATTCTATT
6800 TATTTTA
1 TATTTTA
6807 GTCACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTAATTCTATT
Found at i:6804 original size:15 final size:15
Alignment explanation
Indices: 6757--6806 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
6747 AGTATCTTTA
*
6757 ATTTTAATATTT-TAT
1 ATTTTAAT-TTTATTT
*
6772 ATTTTAATTCTA-TT
1 ATTTTAATTTTATTT
6786 ATTTTAATTTTATTT
1 ATTTTAATTTTATTT
6801 ATTTTA
1 ATTTTA
6807 GTCACTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATTTTATTT
Found at i:8907 original size:172 final size:172
Alignment explanation
Indices: 8621--8970 Score: 646
Period size: 172 Copynumber: 2.0 Consensus size: 172
8611 ATGACAAAAA
* ***
8621 GTGAAAGCAATTACAGAAAATTTGAGACAGGGGGGCAGGACATGTCTTTTTCACACTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
8686 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
8751 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
*
8793 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACATTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
8858 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
*
8923 AAGTCTAGAAACTATTGGTTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
8965 GTGAAA
1 GTGAAA
8971 TTTAAGCATT
Statistics
Matches: 172, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (172 bp):
GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
Found at i:14233 original size:22 final size:22
Alignment explanation
Indices: 14193--14238 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14183 ATACACTTAT
*
14193 TAAATTTAATTTAATTAAAATA
1 TAAATTTAAATTAATTAAAATA
14215 TAAATATTAAATTAA-TAAAATA
1 TAAAT-TTAAATTAATTAAAATA
14237 TA
1 TA
14239 TAAATACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTTAAATTAATTAAAATA
Found at i:14239 original size:24 final size:23
Alignment explanation
Indices: 14193--14244 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14183 ATACACTTAT
* *
14193 TAAAT-TTAATTTAATTAAAATA
1 TAAATATTAAATTAATAAAAATA
14215 TAAATATTAAATTAATAAAATATA
1 TAAATATTAAATTAATAAAA-ATA
14239 TAAATA
1 TAAATA
14245 CTGAATATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 12 0.46
24 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATATTAAATTAATAAAAATA
Found at i:14242 original size:17 final size:17
Alignment explanation
Indices: 14211--14243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14201 ATTTAATTAA
14211 AATATAAATATTAAATT
1 AATATAAATATTAAATT
14228 AATA-AAATATATAAAT
1 AATATAAATAT-TAAAT
14244 ACTGAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAATATTAAATT
Found at i:20726 original size:14 final size:14
Alignment explanation
Indices: 20709--20743 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20699 TGAAAAGTAA
20709 TATTATTTTTATAT
1 TATTATTTTTATAT
*
20723 TATTATTTTTGTAT
1 TATTATTTTTATAT
20737 TA-TATTT
1 TATTATTT
20744 CTCTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTATTTTTATAT
Found at i:24072 original size:2 final size:2
Alignment explanation
Indices: 24065--24099 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24055 AGTCTTCCTC
24065 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24100 GTAAGAATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25468 original size:24 final size:24
Alignment explanation
Indices: 25441--25502 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
25431 CACCATAGCT
*
25441 CGTATAAATTGCACCGAAGCGCCA
1 CGTAGAAATTGCACCGAAGCGCCA
* * * *
25465 CGTAGAATTTGCATCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGCGCCA
25489 CGTAGAAA-TGCACC
1 CGTAGAAATTGCACC
25503 ATAGTGCCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGCGCCA
Found at i:26487 original size:333 final size:333
Alignment explanation
Indices: 25881--26553 Score: 1256
Period size: 333 Copynumber: 2.0 Consensus size: 333
25871 AGTCACATAG
* * *
25881 CTTATATTCTTTCTCACGTAGTCATACAGGTCCATGCCATATAACATATATCACATAGCACATAT
1 CTTATATTCTTTCTCACGTAGTCACACAGGTCCATGCCATATAACATATAGCACATAGCACATAG
25946 CTTATCACATATACCTTCTCTCATGAGATGTCATCACGTAGCTTATGTCACATAAATTATATTAC
66 CTTATCACATATACCTTCTCTCATGAGATGTCATCACGTAGCTTATGTCACATAAATTATATTAC
26011 ATATACATATAGTCACGTAGATTACTTTTACCTAGCTTCTATCAACTTTTCATGTCATTTCACAA
131 ATATACATATAGTCACGTAGATTACTTTTACCTAGCTTCTATCAACTTTTCATGTCATTTCACAA
26076 TTCTTTTATCTTATTCTTATGACCTCTCATAGACATATATATTAGTTTATAAACTTGCATTCACA
196 TTCTTTTATCTTATTCTTATGACCTCTCATAGACATATATATTAGTTTATAAACTTGCATTCACA
26141 TGATTTATAATCTTCTTCTAATAATCAAATATATCATGCTTAATAGCATATATATCATATAAGTA
261 TGATTTATAATCTTCTTCTAATAATCAAATATATCATGCTTAATAGCATATATATCATATAAGTA
26206 TAAACTAA
326 TAAACTAA
* **
26214 CTTATATTCTTTCTCACGTAGTCACATAGGTCCATTTCATATAACATATAGCACATAGCACATAG
1 CTTATATTCTTTCTCACGTAGTCACACAGGTCCATGCCATATAACATATAGCACATAGCACATAG
*
26279 CTTATCACATATACCTTCTCTCATGAGATGTCATCACGTAGCTTATGTCACATAAATTGTATTAC
66 CTTATCACATATACCTTCTCTCATGAGATGTCATCACGTAGCTTATGTCACATAAATTATATTAC
26344 ATATACATATAGTCACGTAGATTACTTTTACCTAGCTTCTATCAACTTTTCATGTCATTTCACAA
131 ATATACATATAGTCACGTAGATTACTTTTACCTAGCTTCTATCAACTTTTCATGTCATTTCACAA
*
26409 TTCTTTTATCTTATTCTTATGACCTCTCATAGACATATATATTAGTTTATAAACTTGCATTCATA
196 TTCTTTTATCTTATTCTTATGACCTCTCATAGACATATATATTAGTTTATAAACTTGCATTCACA
*
26474 TGATTTATAATCTTCTTCTCATAATCAAATATATCATGCTTAATAGCATATATATCATATAAGTA
261 TGATTTATAATCTTCTTCTAATAATCAAATATATCATGCTTAATAGCATATATATCATATAAGTA
*
26539 TATACTAA
326 TAAACTAA
26547 CTTATAT
1 CTTATAT
26554 CATTTCATAT
Statistics
Matches: 330, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
333 330 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.40
Consensus pattern (333 bp):
CTTATATTCTTTCTCACGTAGTCACACAGGTCCATGCCATATAACATATAGCACATAGCACATAG
CTTATCACATATACCTTCTCTCATGAGATGTCATCACGTAGCTTATGTCACATAAATTATATTAC
ATATACATATAGTCACGTAGATTACTTTTACCTAGCTTCTATCAACTTTTCATGTCATTTCACAA
TTCTTTTATCTTATTCTTATGACCTCTCATAGACATATATATTAGTTTATAAACTTGCATTCACA
TGATTTATAATCTTCTTCTAATAATCAAATATATCATGCTTAATAGCATATATATCATATAAGTA
TAAACTAA
Found at i:28513 original size:21 final size:21
Alignment explanation
Indices: 28489--28536 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
28479 AAATATGAGC
* *
28489 AAAAAATTTCATTTTCAGG-GT
1 AAAAAA-TTCATTTACAGGAAT
*
28510 AAAATATTCATTTACAGGAAT
1 AAAAAATTCATTTACAGGAAT
28531 AAAAAA
1 AAAAAA
28537 ATAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAAATTCATTTACAGGAAT
Found at i:29670 original size:21 final size:21
Alignment explanation
Indices: 29644--29703 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
29634 AGATTGCCCG
*
29644 GATGGTACCGGTACCCCCTTA
1 GATGGTACCGATACCCCCTTA
29665 GATGGTACCGATACCCCCTTA
1 GATGGTACCGATACCCCCTTA
29686 GATGGTACCGATACCCCC
1 GATGGTACCGATACCCCC
29704 ATGAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.22
Consensus pattern (21 bp):
GATGGTACCGATACCCCCTTA
Found at i:29766 original size:21 final size:21
Alignment explanation
Indices: 29740--29796 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
29730 AGAATGCTCA
29740 GATGGTACCGATACCTTCCTT
1 GATGGTACCGATACCTTCCTT
29761 GATGGTACCGATACCTTCCTT
1 GATGGTACCGATACCTTCCTT
29782 GATGGTACCGATACC
1 GATGGTACCGATACC
29797 CCTAGTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (21 bp):
GATGGTACCGATACCTTCCTT
Found at i:30847 original size:38 final size:38
Alignment explanation
Indices: 30797--31010 Score: 173
Period size: 38 Copynumber: 5.6 Consensus size: 38
30787 ATTCCAATAC
* * *
30797 AAAAATCAGGTTGCAACCGAAAATCTAGTTTCTATGTG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* * *
30835 AACAATTAGGTTGCAACCTAAAATTTAGTTTCCATATG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* *
30873 AAAAATCAGGTTGCAACCTAAAATCTGGTTTCTATATG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* * * * * * *
30911 AAAAATTAAGTAT-CACCCTTAAATATGGTTGAC-ATATA
1 AAAAATTAGGT-TGCAACCTAAAATCTAGTT-TCTATATG
* * * * * *
30949 AAAAATCATGTTGCAGCCT-AAATTTCGGTTTCAATATG
1 AAAAATTAGGTTGCAACCTAAAATCT-AGTTTCTATATG
* *
30987 AAAAATCATGTTGCAACCTAAAAT
1 AAAAATTAGGTTGCAACCTAAAAT
31011 TTGGTTCCCA
Statistics
Matches: 145, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
37 7 0.05
38 132 0.91
39 6 0.04
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (38 bp):
AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
Found at i:30918 original size:76 final size:76
Alignment explanation
Indices: 30797--31012 Score: 238
Period size: 76 Copynumber: 2.8 Consensus size: 76
30787 ATTCCAATAC
* * * * *
30797 AAAAATCAGGTTGCAACCGAAAATCTAGTTTCTATGTGAACAATTAGGTTGCAACCTAAAATTTA
1 AAAAATCAGGTTGCAACCTAAAATCTGGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTTA
** *
30862 GTTTCCATATG
66 GTTGACATATA
* * *
30873 AAAAATCAGGTTGCAACCTAAAATCTGGTTTCTATATGAAAAATTAAGTAT-CACCCTTAAATAT
1 AAAAATCAGGTTGCAACCTAAAATCTGGTTTCTATATGAAAAATTAAGT-TGCAACCTAAAATTT
*
30937 GGTTGACATATA
65 AGTTGACATATA
* * * * * *
30949 AAAAATCATGTTGCAGCCT-AAATTTCGGTTTCAATATGAAAAATCATGTTGCAACCTAAAATTT
1 AAAAATCAGGTTGCAACCTAAAATCT-GGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTT
31013 GGTTCCCAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
75 6 0.05
76 109 0.94
77 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (76 bp):
AAAAATCAGGTTGCAACCTAAAATCTGGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTTA
GTTGACATATA
Found at i:37782 original size:37 final size:38
Alignment explanation
Indices: 37723--37798 Score: 136
Period size: 37 Copynumber: 2.0 Consensus size: 38
37713 AGAGTGGAAG
37723 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
1 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
*
37761 CTAAATAT-AAAGTAAAGAGACTAAAACTGCCATTTAC
1 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
37798 C
1 C
37799 GTGAAGATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.78
38 8 0.22
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (38 bp):
CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
Found at i:43725 original size:29 final size:27
Alignment explanation
Indices: 43677--43825 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 27
43667 ATTTATGTAA
43677 TAAG-AAAGAATAAAATATATGTTTTAAGT
1 TAAGAAAAGAAT-AAA-ATAT-TTTTAAGT
*
43706 TAAGACAAAGACTAAAATATTTTTAAGT
1 TAAGA-AAAGAATAAAATATTTTTAAGT
*
43734 TAA-AATAAGAATAAAATATATTTTTAGGT
1 TAAGAA-AAGAAT-AAA-ATATTTTTAAGT
* *
43763 TAAGATAAGAACAAAATATATTTAATAAGT
1 TAAGAAAAGAATAAAATAT-TTT--TAAGT
*
43793 TAATAGAAA-AATAAAATATTTTTAATGT
1 TAAGA-AAAGAATAAAATATTTTTAA-GT
43821 TAAGA
1 TAAGA
43826 TGTAAAATTA
Statistics
Matches: 99, Mismatches: 10, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.01
27 13 0.13
28 26 0.26
29 30 0.30
30 21 0.21
31 8 0.08
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (27 bp):
TAAGAAAAGAATAAAATATTTTTAAGT
Found at i:43746 original size:58 final size:58
Alignment explanation
Indices: 43682--43825 Score: 163
Period size: 57 Copynumber: 2.5 Consensus size: 58
43672 TGTAATAAGA
*
43682 AAGAATAAAATATATGTTTTAAGTTAAGACAAAG-ACTAAAATAT-TTT-TAAGTTAAAAT
1 AAGAATAAAATATAT-TTTTAAGTTAAGA-AAAGAAC-AAAATATATTTATAAGTTAAAAG
* * *
43740 AAGAATAAAATATATTTTTAGGTTAAGATAAGAACAAAATATATTTAATAAGTTAATAG
1 AAGAATAAAATATATTTTTAAGTTAAGAAAAGAACAAAATATATTT-ATAAGTTAAAAG
*
43799 AAAAAT-AAA-ATATTTTTAATGTTAAGA
1 AAGAATAAAATATATTTTTAA-GTTAAGA
43826 TGTAAAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
56 10 0.13
57 26 0.35
58 25 0.33
59 14 0.19
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (58 bp):
AAGAATAAAATATATTTTTAAGTTAAGAAAAGAACAAAATATATTTATAAGTTAAAAG
Found at i:47674 original size:19 final size:20
Alignment explanation
Indices: 47632--47674 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47622 CAAATTATTT
*
47632 TATTAAAAATCTTGAAATAC
1 TATTAAAAATCTTAAAATAC
47652 TATTAAAATAT-TTAAAATA-
1 TATTAAAA-ATCTTAAAATAC
47671 TATT
1 TATT
47675 TTAATAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (20 bp):
TATTAAAAATCTTAAAATAC
Found at i:48002 original size:16 final size:18
Alignment explanation
Indices: 47981--48019 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
47971 TTTTTTAAAA
47981 TATTATAT-AAT-TTATT
1 TATTATATAAATGTTATT
47997 TATTAT-TAAATGTTATT
1 TATTATATAAATGTTATT
48014 T-TTATA
1 TATTATA
48020 ATTTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTATATAAATGTTATT
Found at i:48047 original size:30 final size:30
Alignment explanation
Indices: 48013--48070 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
48003 TAAATGTTAT
48013 TTTTATAATTTTATT-AAT-AAAATATTAATA
1 TTTTAT-A-TTTATTAAATAAAAATATTAATA
48043 TTTTATATTTATTGAAATAAAAATATTA
1 TTTTATATTTATT-AAATAAAAATATTA
48071 TAAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
30 9 0.36
31 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTTATATTTATTAAATAAAAATATTAATA
Found at i:48189 original size:25 final size:26
Alignment explanation
Indices: 48161--48250 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 26
48151 ATTAAAATAT
48161 TATTTTATTAATATTAAAT-ATATAA
1 TATTTTATTAATATTAAATAATATAA
* ** *
48186 TATTATTCATTATTAAAAAATAATATAT
1 TATT-TT-ATTAATATTAAATAATATAA
*
48214 TATTTCTATGAA-ATT-AATAATATAA
1 TATTT-TATTAATATTAAATAATATAA
48239 -ATTTTATTAATA
1 TATTTTATTAATA
48251 ATTTATTATA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
23 5 0.10
24 5 0.10
25 13 0.26
26 3 0.06
27 14 0.28
28 10 0.20
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
TATTTTATTAATATTAAATAATATAA
Found at i:48191 original size:23 final size:22
Alignment explanation
Indices: 48150--48215 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
48140 TTAAATATAT
* *
48150 TATTAAAATATTATTTTATTAA
1 TATTAAAATATAATATTATTAA
*
48172 TATTAAATATATAATATTATTCAT
1 TATTAAA-ATATAATATTATT-AA
*
48196 TATTAAAAAATAATA-TATTA
1 TATTAAAATATAATATTATTA
48216 TTTCTATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 18 0.47
24 8 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTAAAATATAATATTATTAA
Found at i:49700 original size:29 final size:29
Alignment explanation
Indices: 49668--49737 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
49658 TCAATCAAAA
**
49668 AATTTTTAAATATAAATTTTG-TAAAATTT
1 AATTTTTAAATAT-AATAATGATAAAATTT
*
49697 AATTATTTAAA-ATAATAATGATTAAACTTT
1 AATT-TTTAAATATAATAATGA-TAAAATTT
49727 AATTTTTAAAT
1 AATTTTTAAAT
49738 TTTTAAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 12 0.35
30 17 0.50
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
AATTTTTAAATATAATAATGATAAAATTT
Found at i:49735 original size:14 final size:15
Alignment explanation
Indices: 49668--49736 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
49658 TCAATCAAAA
*
49668 AATTTTT-AAATATA
1 AATTTTTAAAATATT
49682 AATTTTGTAAAAT-TT
1 AATTTT-TAAAATATT
*
49697 AATTATTTAAAATAAT
1 AATT-TTTAAAATATT
** *
49713 AATGATTAAACT-TT
1 AATTTTTAAAATATT
49727 AATTTTTAAA
1 AATTTTTAAA
49737 TTTTTAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 15 0.35
15 18 0.42
16 10 0.23
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (15 bp):
AATTTTTAAAATATT
Found at i:50080 original size:51 final size:51
Alignment explanation
Indices: 49867--50079 Score: 302
Period size: 51 Copynumber: 4.2 Consensus size: 51
49857 TTCGATTATA
* *
49867 GGTGTAAGTGAATAAAATAAACAAGTGTATCACTTAACACATACTTACACC
1 GGTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTTACACC
* * *
49918 GGTGTAAGTGAATAAAACAAAAAAGTGTAGCACTTAACTCATAC-TACACT
1 GGTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTTACACC
* * *
49968 GGTGTAAGTGAATAAAATAAAAAAAATGTAGCACTTAACACATTCTTACAAC
1 GGTGTAAGTGAATAAAAT-AAAAAAGTGTAGCACTTAACACATACTTACACC
* * *
50020 GGTATAAGTAAATAAAATAAAAAAGTGTAGCACTTAACACGTACTTACACC
1 GGTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTTACACC
*
50071 GATGTAAGT
1 GGTGTAAGT
50080 AGGCACATCT
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
50 22 0.16
51 99 0.70
52 20 0.14
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (51 bp):
GGTGTAAGTGAATAAAATAAAAAAGTGTAGCACTTAACACATACTTACACC
Found at i:53208 original size:2 final size:2
Alignment explanation
Indices: 53201--53235 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53191 GAGAATGCCC
53201 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53236 TAAATGCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54323 original size:19 final size:21
Alignment explanation
Indices: 54286--54330 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
54276 TAAAAGAAGA
*
54286 AAAAAGTTTAATTTATTTA-T
1 AAAAACTTTAATTTATTTATT
54306 AAAAACTTTAATTT-TTTATT
1 AAAAACTTTAATTTATTTATT
54326 AAAAA
1 AAAAA
54331 AACTAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAAACTTTAATTTATTTATT
Found at i:66864 original size:20 final size:20
Alignment explanation
Indices: 66827--66869 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
66817 GTTCCACCAC
*
66827 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
66847 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
66867 ATG
1 ATG
66870 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:74901 original size:67 final size:67
Alignment explanation
Indices: 74822--74957 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
74812 GGTTGACTGA
* * *
74822 GCACCCGACAGGATCCTACTGCAGCAGGTTAGATCTGCAGTAGGGCAGCGTGACAGCACTGATCC
1 GCACCCGACAGGATCCTACTGCAGCAGATAAGATCTGCAGCAGGGCAGCGTGACAGCACTGATCC
74887 AG
66 AG
* **
74889 GCACCCGACAGGATCCTGCTGCAGCAGATAAGATCTGCAGCAGGGCAGCGTGGTAGCACTGATCC
1 GCACCCGACAGGATCCTACTGCAGCAGATAAGATCTGCAGCAGGGCAGCGTGACAGCACTGATCC
74954 AG
66 AG
74956 GC
1 GC
74958 GGATTTCTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (67 bp):
GCACCCGACAGGATCCTACTGCAGCAGATAAGATCTGCAGCAGGGCAGCGTGACAGCACTGATCC
AG
Found at i:77394 original size:103 final size:102
Alignment explanation
Indices: 77214--77421 Score: 344
Period size: 103 Copynumber: 2.0 Consensus size: 102
77204 ATGGTATACT
* ** *
77214 ATTTTTCCTTAACCAAGGTTTTGTCCCACTTGATTTTTTTGGTAAGGTTTTTAATGAGGCAACAT
1 ATTTTTCCCTAACCAAGGTTTTGTCCCACTTGATTTTCCTGGTAAGATTTTTAATGAGGCAACAT
77279 GTTATACATATTAAAGATATGTGTATTTTTTTCCCTTC
66 GTTATACATATTAAAGATATGTGTA-TTTTTTCCCTTC
77317 ATTTTTCCCTAACCAAGGTTTTGTCCCACTTGATTTTCCTGGTAAGATTTTTAATGAGGCAACAT
1 ATTTTTCCCTAACCAAGGTTTTGTCCCACTTGATTTTCCTGGTAAGATTTTTAATGAGGCAACAT
* * *
77382 GTTATGCTTATTAAAGGTATGTGTATTTTTTCCCTTC
66 GTTATACATATTAAAGATATGTGTATTTTTTCCCTTC
77419 ATT
1 ATT
77422 AAGATATTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 15 0.15
103 83 0.85
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.46
Consensus pattern (102 bp):
ATTTTTCCCTAACCAAGGTTTTGTCCCACTTGATTTTCCTGGTAAGATTTTTAATGAGGCAACAT
GTTATACATATTAAAGATATGTGTATTTTTTCCCTTC
Found at i:77772 original size:2 final size:2
Alignment explanation
Indices: 77761--77798 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
77751 TAGGTTATTT
77761 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77799 TAATTCTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79013 original size:25 final size:25
Alignment explanation
Indices: 78966--79013 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
78956 AAATAATACA
* *
78966 AAATAATTAGTATAATAAAAATTTT
1 AAATAATTAGAATAAAAAAAATTTT
78991 AAATAATTA-AATAAAAAATAATT
1 AAATAATTAGAATAAAAAA-AATT
79014 CTATCTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AAATAATTAGAATAAAAAAAATTTT
Found at i:91424 original size:13 final size:13
Alignment explanation
Indices: 91406--91433 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91396 ACTTCATTCA
91406 TTTATTTTCATTT
1 TTTATTTTCATTT
91419 TTTATTTTCATTT
1 TTTATTTTCATTT
91432 TT
1 TT
91434 CATCCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTCATTT
Found at i:100144 original size:35 final size:34
Alignment explanation
Indices: 100026--100144 Score: 105
Period size: 35 Copynumber: 3.4 Consensus size: 34
100016 TTAATATATA
***
100026 ATATCTTTTTAATTTAAATATTTAAAGTTATATTG
1 ATATCTTTTTAATTTAAAT-TTTAAAAAAATATTG
* * **
100061 ATATATTTTTAATATTTAAATTTAAAAAAAATAATAA
1 ATATCTTTTT-A-ATTTAAATTTTAAAAAAAT-ATTG
* *
100098 ATAT-TTATTAATTTAAATGTTTAAAAAGATATTG
1 ATATCTTTTTAATTTAAAT-TTTAAAAAAATATTG
100132 ATATCTTTTTAAT
1 ATATCTTTTTAAT
100145 ATCTTTTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
34 14 0.21
35 26 0.39
36 12 0.18
37 14 0.21
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (34 bp):
ATATCTTTTTAATTTAAATTTTAAAAAAATATTG
Found at i:100182 original size:35 final size:35
Alignment explanation
Indices: 100142--100260 Score: 118
Period size: 35 Copynumber: 3.4 Consensus size: 35
100132 ATATCTTTTT
*
100142 AATATCTTTTAATATTTAAATTTAAAAAGATAATA
1 AATATCTTTTAATATTCAAATTTAAAAAGATAATA
* * *
100177 AATATCATTTACT-TTGAGATATTTAAAATA-AT-ATA
1 AATATCTTTTAATATTCA-A-ATTTAAAA-AGATAATA
* * *
100212 ATTATCTTATTAATATTCAAATGTAAAGAGATAATA
1 AATATCTT-TTAATATTCAAATTTAAAAAGATAATA
100248 AATATCTTTTAAT
1 AATATCTTTTAAT
100261 TTAGAATATT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
34 4 0.06
35 34 0.51
36 25 0.37
37 4 0.06
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (35 bp):
AATATCTTTTAATATTCAAATTTAAAAAGATAATA
Found at i:100218 original size:81 final size:80
Alignment explanation
Indices: 100063--100228 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 80
100053 TTATATTGAT
* *
100063 ATATTTTTAATATTTAAATTTAAAAAAAATAATAAATATTTATTAATTTAAATGTTTAAAAAGAT
1 ATATTTTTAATATTTAAATTTAAAAAAAATAATAAATATATATTAATTTAAATATTTAAAAAGAT
* *
100128 ATTGATATCTTTTTA
66 ATTAATATCTTATTA
* * *
100143 ATATCTTTTAATATTTAAATTT-AAAAAGATAATAAATATCAT-TTACTTTGAGATATTTAAAAT
1 ATAT-TTTTAATATTTAAATTTAAAAAAAATAATAAATAT-ATATTAATTT-AAATATTTAAAA-
100206 A-ATA-TAATTATCTTATTA
62 AGATATTAA-TATCTTATTA
100224 ATATT
1 ATATT
100229 CAAATGTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
80 29 0.39
81 44 0.59
82 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (80 bp):
ATATTTTTAATATTTAAATTTAAAAAAAATAATAAATATATATTAATTTAAATATTTAAAAAGAT
ATTAATATCTTATTA
Found at i:107338 original size:23 final size:23
Alignment explanation
Indices: 107312--107357 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
107302 CACCACAGCT
*
107312 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
107335 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
107358 TATAATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:107501 original size:25 final size:25
Alignment explanation
Indices: 107473--107541 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
107463 TATATATATA
107473 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
107498 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
107523 TCCCGAAGGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
107542 CCCTCTACTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:109174 original size:64 final size:63
Alignment explanation
Indices: 109076--109236 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
109066 TAATGAAGGT
* * *
109076 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAAT--
*
109139 AG
62 AC
*
109141 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
* *
109205 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
109237 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.67
65 24 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
Found at i:110181 original size:2 final size:2
Alignment explanation
Indices: 110174--110216 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
110164 CTTTTTCCTT
110174 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
110216 T
1 T
110217 CAGGTCACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112672 original size:23 final size:23
Alignment explanation
Indices: 112646--112690 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
112636 CACCACAGCT
*
112646 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
112669 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
112691 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:114520 original size:64 final size:64
Alignment explanation
Indices: 114421--114581 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 64
114411 TAATGAAGGT
* ** * *
114421 ATGCATCGATGCACTACACCGTGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAAT--
*
114484 AG
63 AC
* * *
114486 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTTGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
* *
114550 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
114582 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 55 0.67
65 24 0.29
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCCATTCGATGTTTTCTATTTAAATAC
Found at i:118459 original size:26 final size:25
Alignment explanation
Indices: 118428--118498 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 25
118418 CCTCTTAAAT
118428 TTTTAACTTTTTCTTTTCTCTTTC-
1 TTTTAACTTTTTCTTTTCTCTTTCA
*
118452 -TTT-A-TTAATT-TTTTCTCTTTCA
1 TTTTAACTT-TTTCTTTTCTCTTTCA
*
118474 TTTTAACTTTTACTTTTTCTCTTTC
1 TTTTAACTTTTTC-TTTTCTCTTTC
118499 CTTCATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 13 0.35
22 3 0.08
23 6 0.16
24 2 0.05
25 2 0.05
26 11 0.30
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:118518 original size:47 final size:46
Alignment explanation
Indices: 118428--118518 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
118418 CCTCTTAAAT
* * * *
118428 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
*
118474 TTTTAACTTTTACTTTTTCTCTTTCCTTCATTCATCTTCT-TCTTT
1 TTTTAACTTTTAC-TTTTCTCTTT-CTTCATTAATCTTCTCTCTTT
118519 TGTTATTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 12 0.32
47 15 0.39
48 11 0.29
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (46 bp):
TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
Found at i:120181 original size:2 final size:2
Alignment explanation
Indices: 120174--120198 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
120164 CTTTTTAAAC
120174 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
120199 CCCCCATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120369 original size:35 final size:35
Alignment explanation
Indices: 120260--120360 Score: 175
Period size: 35 Copynumber: 2.9 Consensus size: 35
120250 CGTCACGTCC
* *
120260 AGTAAGGCCCTGAGCATATAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
120295 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
*
120330 AGTAAGGCCCTGAGCACACATCCGAGGAACC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACC
120361 TCCAAGTAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.32, C:0.28, G:0.30, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
Found at i:120474 original size:24 final size:24
Alignment explanation
Indices: 120447--120537 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
120437 CATAATTCAA
120447 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* * *
120471 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
*
120495 GT-AAATATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
120518 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
120538 TTAAATTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 19 0.34
24 37 0.66
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:123025 original size:13 final size:13
Alignment explanation
Indices: 123007--123036 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
122997 GCCGGTCAAC
*
123007 GGTCAACGGGTCG
1 GGTCAACAGGTCG
123020 GGTCAACAGGTCG
1 GGTCAACAGGTCG
123033 GGTC
1 GGTC
123037 GGGTCGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:128132 original size:34 final size:33
Alignment explanation
Indices: 128068--128326 Score: 179
Period size: 35 Copynumber: 7.5 Consensus size: 33
128058 TTTTGAAAAC
* * **
128068 TATAGTATATAGTTTTTCAAAAAAAATTGAAATA
1 TATAATATATAGTTTTT-AAAACATTTTGAAATA
* *
128102 TATATTATATAGTTTTTAAAACGTTTTTGAAAACTTA
1 TATAATATATAGTTTTTAAAAC-ATTTTG-AAA--TA
128139 TATACAATATATAAG-TTTTAAAACATTTTGAAAGTTA
1 TAT--AATATAT-AGTTTTTAAAACATTTTGAAA--TA
* *
128176 TATAATATATAGTTTTGAAATCATTTTGAAA-A
1 TATAATATATAGTTTTTAAAACATTTTGAAATA
128208 TATAATATATAGTTTTTAAAAAAAACATTTTGAAA-A
1 TATAATATATAGTTTTT----AAAACATTTTGAAATA
** *
128244 GCTTATATAATA-TTTTTAAAATCAATTTTGAAAACTA
1 TATAATAT-ATAGTTTTTAAAA-C-ATTTTG-AAA-TA
* * *
128281 TATAATATATAGTTTTAAAAACGTTTT-TAA-A
1 TATAATATATAGTTTTTAAAACATTTTGAAATA
128312 TATAATATATAGTTT
1 TATAATATATAGTTT
128327 AAAAAATATA
Statistics
Matches: 185, Mismatches: 21, Indels: 41
0.75 0.09 0.17
Matches are distributed among these distances:
31 16 0.09
32 21 0.11
33 7 0.04
34 27 0.15
35 33 0.18
36 28 0.15
37 31 0.17
38 5 0.03
39 15 0.08
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (33 bp):
TATAATATATAGTTTTTAAAACATTTTGAAATA
Found at i:128151 original size:39 final size:35
Alignment explanation
Indices: 128068--128326 Score: 163
Period size: 34 Copynumber: 7.4 Consensus size: 35
128058 TTTTGAAAAC
* * **
128068 TATAGTATATAGTTTTTCAAAAAAAATTGAAA--TA
1 TATAATATATAGTTTTT-AAAACATTTTGAAACTTA
* *
128102 TATATTATATAGTTTTTAAAACGTTTTTGAAAACTTA
1 TATAATATATAGTTTTTAAAAC-ATTTTG-AAACTTA
*
128139 TATACAATATATAAG-TTTTAAAACATTTTGAAAGTTA
1 TAT--AATATAT-AGTTTTTAAAACATTTTGAAACTTA
* *
128176 TATAATATATAGTTTTGAAATCATTTTGAAA---A
1 TATAATATATAGTTTTTAAAACATTTTGAAACTTA
128208 TATAATATATAGTTTTTAAAAAAAACATTTTGAAAAGC-T-
1 TATAATATATAGTTTTT----AAAACATTTTG-AAA-CTTA
128247 TAT-ATA-ATA-TTTTTAAAATCAATTTTGAAAAC-TA
1 TATAATATATAGTTTTTAAAA-C-ATTTTG-AAACTTA
* * *
128281 TATAATATATAGTTTTAAAAACGTTTT-TAA---A
1 TATAATATATAGTTTTTAAAACATTTTGAAACTTA
128312 TATAATATATAGTTT
1 TATAATATATAGTTT
128327 AAAAAATATA
Statistics
Matches: 188, Mismatches: 15, Indels: 47
0.75 0.06 0.19
Matches are distributed among these distances:
31 16 0.09
32 21 0.11
33 9 0.05
34 34 0.18
35 33 0.18
36 19 0.10
37 28 0.15
38 8 0.04
39 18 0.10
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (35 bp):
TATAATATATAGTTTTTAAAACATTTTGAAACTTA
Found at i:128216 original size:37 final size:35
Alignment explanation
Indices: 128101--128300 Score: 134
Period size: 32 Copynumber: 5.6 Consensus size: 35
128091 AAATTGAAAT
* *
128101 ATATATTATATAGTTTTTAAAACGTTTTTGAAAACTTA
1 ATATAATATATAG-TTTTAAAAC-ATTTTGAAAA-TTA
* *
128139 TATACAATATATAAGTTTTAAAACATTTTGAAAGTT-
1 -ATATAATATAT-AGTTTTAAAACATTTTGAAAATTA
*
128175 ATATAATATATAGTTTTGAAATCATTTTG--AA--A
1 ATATAATATATAGTTTT-AAAACATTTTGAAAATTA
128207 ATATAATATATAGTTTTTAAAAAAAACATTTTGAAAAGCTT-
1 ATATAATATATAG-TTTT----AAAACATTTTGAAAA--TTA
*
128248 ATAT-A-ATAT--TTTTAAAATCAATTTTGAAAACT-
1 ATATAATATATAGTTTTAAAA-C-ATTTTGAAAATTA
128280 ATATAATATATAGTTTTAAAA
1 ATATAATATATAGTTTTAAAA
128301 ACGTTTTTAA
Statistics
Matches: 132, Mismatches: 10, Indels: 41
0.72 0.05 0.22
Matches are distributed among these distances:
32 22 0.17
33 7 0.05
34 20 0.15
35 20 0.15
36 22 0.17
37 2 0.02
38 10 0.08
39 22 0.17
40 3 0.02
41 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (35 bp):
ATATAATATATAGTTTTAAAACATTTTGAAAATTA
Found at i:128301 original size:71 final size:71
Alignment explanation
Indices: 128058--128301 Score: 198
Period size: 73 Copynumber: 3.5 Consensus size: 71
128048 TTGAAAATAT
* *
128058 TTTTGAAAAC--TATAGTATATAGTTTTTCAAAAAAA-A--TTGAAA--TATATATTATATAGTT
1 TTTTGAAAACTATATAATATATAG-TTTT-AAAAAAACATTTTGAAAGTTATATAATATATA--T
*
128116 TTTAAAA-CGT
62 TTTAAAATC-A
128126 TTTTGAAAACTTATATACAATATATAAGTTTT---AAAACATTTTGAAAGTTATATAATATATAG
1 TTTTGAAAAC-TATAT--AATATAT-AGTTTTAAAAAAACATTTTGAAAGTTATATAATATATA-
*
128188 TTTTGAAATCA
61 TTTTAAAATCA
128199 TTTTG-AAA--ATATAATATATAGTTTTTAAAAAAAACATTTTGAAAAGCTTATAT-A-ATAT-T
1 TTTTGAAAACTATATAATATATAG-TTTT-AAAAAAACATTTTG-AAAG-TTATATAATATATAT
128258 TTTAAAATCAA
62 TTTAAAATC-A
128269 TTTTGAAAACTATATAATATATAGTTTTAAAAA
1 TTTTGAAAACTATATAATATATAGTTTTAAAAA
128302 CGTTTTTAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 43
0.75 0.03 0.22
Matches are distributed among these distances:
66 2 0.01
67 11 0.07
68 10 0.07
69 17 0.12
70 7 0.05
71 26 0.18
72 18 0.12
73 41 0.28
74 15 0.10
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (71 bp):
TTTTGAAAACTATATAATATATAGTTTTAAAAAAACATTTTGAAAGTTATATAATATATATTTTA
AAATCA
Found at i:128302 original size:140 final size:136
Alignment explanation
Indices: 128033--128326 Score: 311
Period size: 140 Copynumber: 2.1 Consensus size: 136
128023 TTATTATAGT
* * * *
128033 AATATAGTATA-ATTTTTGAAAAT-ATTTTTGAAAACTATAGTATATAGTTTTTCAAAAAAAATT
1 AATATAATATATAGTTTTG-AAATCA-TTTTGAAAACTATAATATATAGTTTTTAAAAAAAAATT
**
128096 GAAATATATATTATATAGTTTTTAAAACGTTTTTGAAAACTTATATACAATATATAAGTTTTAAA
64 GAAATATATATTATATAGTTTTTAAAACAATTTTGAAAACTTATATA-AATATATAAGTTTTAAA
128161 ACATTTTGAA
128 ACATTTT-AA
128171 AGTTATATAATATATAGTTTTGAAATCATTTTGAAAA-TATAATATATAGTTTTTAAAAAAAACA
1 A---ATATAATATATAGTTTTGAAATCATTTTGAAAACTATAATATATAGTTTTTAAAAAAAA-A
128235 TTTTGAAA-AGCT-TA-TATAATA-TTTTTAAAATCAATTTTGAAAAC-TATAT-AATATAT-AG
62 --TTGAAATA--TATATTAT-ATAGTTTTTAAAA-CAATTTTGAAAACTTATATAAATATATAAG
* *
128293 TTTTAAAAACGTTTTTA
121 TTTT-AAAACATTTTAA
128310 AATATAATATATAGTTT
1 AATATAATATATAGTTT
128327 AAAAAATATA
Statistics
Matches: 135, Mismatches: 8, Indels: 28
0.79 0.05 0.16
Matches are distributed among these distances:
136 16 0.12
138 1 0.01
139 8 0.06
140 39 0.29
141 23 0.17
142 25 0.19
143 22 0.16
144 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (136 bp):
AATATAATATATAGTTTTGAAATCATTTTGAAAACTATAATATATAGTTTTTAAAAAAAAATTGA
AATATATATTATATAGTTTTTAAAACAATTTTGAAAACTTATATAAATATATAAGTTTTAAAACA
TTTTAA
Found at i:128343 original size:140 final size:138
Alignment explanation
Indices: 128051--128359 Score: 307
Period size: 140 Copynumber: 2.2 Consensus size: 138
128041 ATAATTTTTG
* *
128051 AAAAT-ATTTTTGAAAACTATAGTATATAGTTTTTCAAAAAAAATTGAAATATATATTATATAGT
1 AAAATCATTTTTGAAAA-TATAATATATAGTTTTTAAAAAAAAATTGAAATATATATTATATAGT
**
128115 TTTTAAAACGTTTTTGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGAAAGTTATATA
65 TTTTAAAACAATTTTGAAAACTTATATA-AATATATAAGTTTTAAAACATTTTGAAA--TATATA
*
128180 ATATATAGTTTT
127 ATATATAGTTTA
*
128192 GAAATCA-TTTTGAAAATATAATATATAGTTTTTAAAAAAAACATTTTGAAA-AGCT-TA-TATA
1 AAAATCATTTTTGAAAATATAATATATAGTTTTTAAAAAAAA-A--TTGAAATA--TATATTAT-
* *
128253 ATA-TTTTTAAAATCAATTTTGAAAAC-TATAT-AATATAT-AGTTTTAAAAACGTTTT-TAA-A
60 ATAGTTTTTAAAA-CAATTTTGAAAACTTATATAAATATATAAGTTTT-AAAACATTTTGAAATA
128312 TATAATATATAGTTTAA
123 TATAATATATAGTTT-A
* *
128329 AAAATATATTTTTTGAAACATATATTATATA
1 AAAAT-CA-TTTTTGAAA-ATATAATATATA
128360 ATATATATTA
Statistics
Matches: 143, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
136 16 0.11
137 4 0.03
138 1 0.01
139 8 0.06
140 47 0.33
141 25 0.17
142 19 0.13
143 22 0.15
144 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (138 bp):
AAAATCATTTTTGAAAATATAATATATAGTTTTTAAAAAAAAATTGAAATATATATTATATAGTT
TTTAAAACAATTTTGAAAACTTATATAAATATATAAGTTTTAAAACATTTTGAAATATATAATAT
ATAGTTTA
Found at i:128389 original size:5 final size:5
Alignment explanation
Indices: 128379--128404 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
128369 ATTATTAATA
128379 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
128405 AATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:135258 original size:164 final size:164
Alignment explanation
Indices: 134864--135725 Score: 874
Period size: 164 Copynumber: 5.2 Consensus size: 164
134854 CATTTGCAGT
* *
134864 ATAACTCAAGTCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
1 ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
* * * *
134929 AGGCACATCATTTGCA-ACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACTAAAGACCTTCGAG
66 AGGCACATCATTTGCAGA-ATAGCTTAAGTCGAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAG
* * *
134993 TTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGC
127 TTCGACTACGCTCAGCTCCAAGGCACATCATTTACAAC
* * * * *
135031 ATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCC
1 ATAACTCAAGGCTAGAAGGGTTATCTGTC-AACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * * *
135096 AAGGCACGTCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCCTCAAGTTC
65 AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTGCACAAAGACCTTCGAGTTC
* * ** * *
135160 GATTACACTCAGCTTTGAGGGCACATTATTTACAAC
130 GACTACGCTCAGC-TCCAAGGCACATCATTTACAAC
*
135196 ATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
1 ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
** * * * * * * *
135261 AGGCACATCATTAACGGCATAGCTTAAGTCGAGAAGGGCTATCTTC-CAAAGACCCTCAAGTTTG
66 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCG
* * ** *
135325 ATTACACTCAGCTTTGAGGGCACATCATTTACAAC
131 ACTACGCTCAGC-TCCAAGGCACATCATTTACAAC
* * * * *
135360 ATAACTCAAGGATAGAAGGGTTATCTGTCACCAAAGACCTTCGCGTTCAACTACGCTCAACTCCA
1 ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
* * ** * * * * * *
135425 AGGCATATCATTTACATTACAACTTATGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGT
66 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGT
* * *
135490 TCGACTACGCTCAGCT-CAACAGCACATCATTTGCAGC
128 TCGACTACGCTCAGCTCCAA-GGCACATCATTTACAAC
* * * * * * *
135527 ATAGCTTAAGTCGAGAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTTCA
1 ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
* * * * * * *
135589 GGGGCATATCATTTGCAGGATAACTCAAGTCGAGAAGGGTTATCTTCCAACAAAGATCTTCGAGT
66 -AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATC-TGC-ACAAAGACCTTCGAGT
*
135654 TCGACTATGCTCAGCTCCAAGGCACATCATTTACAAC
128 TCGACTACGCTCAGCTCCAAGGCACATCATTTACAAC
* * *
135691 ATAACTCAAGGCAATAAGGGCTATCTGTCAACAAA
1 ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAA
135726 ATTGTCGAGT
Statistics
Matches: 587, Mismatches: 94, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
164 334 0.57
165 84 0.14
166 3 0.01
167 70 0.12
168 95 0.16
169 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (164 bp):
ATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCG
ACTACGCTCAGCTCCAAGGCACATCATTTACAAC
Found at i:135295 original size:248 final size:246
Alignment explanation
Indices: 134854--135722 Score: 1019
Period size: 248 Copynumber: 3.5 Consensus size: 246
134844 TTTAAGACAA
* *
134854 CATTTGCAGTATAACTCAAGTCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGAATAACTCAAGTCGAGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTACG
* * * *
134919 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACTAAAG
65 CTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAG
* *
134984 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAG
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* ** * * *
135049 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGT
195 GGTTATCTG-C---CAAAGACCTTCGAGTTCGATTACACTCAGCTTCAGGGCACAT
* * * * * * *
135105 CATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCCTCAAGTTCGATTACAC
1 CATTTGCAGAATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
** * * * *
135168 TCAGCTTTGAGGGCACATTATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAG
66 TCAGC-TCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAG
** *
135232 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTAACGGCATAGCTTAAGTCGAGAAG
130 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * * * *
135297 GGCTATCTTCCAAAGACCCTCAAGTTTGATTACACTCAGCTTTGAGGGCACAT
195 GGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TTCAGGGCACAT
* *** * * *
135350 CATTTACA-ACATAACTCAAGGATAGAAGGGTTATCTGTCACCAAAGACCTTCGCGTTCAACTAC
1 CATTTGCAGA-ATAACTCAAGTCGAGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTAC
* * ** * * * * * * *
135414 GCTCAACTCCAAGGCATATCATTTACATTACAACTTATGTCTAGAAGGGTTGTCTGCCAACAAAA
64 GCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAA
* *
135479 GACCTTTGAGTTCGACTACGCTCAGCT-CAACAGCACATCATTTGCAGCATAGCTTAAGTCGAGA
129 GACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGA
*
135543 AGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAGGGGCATAT
193 AGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCA-GGGCACAT
* * * *
135598 CATTTGCAGGATAACTCAAGTCGAGAAGGGTTATCTTCCAACAAAGATCTTCGAGTTCGACTATG
1 CATTTGCAGAATAACTCAAGTCGAGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTACG
* * *
135663 CTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAATAAGGGCTATCTGTCAAC
65 CTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAAC
135723 AAAATTGTCG
Statistics
Matches: 507, Mismatches: 100, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
244 25 0.05
245 36 0.07
246 1 0.00
247 45 0.09
248 324 0.64
249 43 0.08
250 1 0.00
251 32 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (246 bp):
CATTTGCAGAATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
GTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAGGGCACAT
Found at i:135377 original size:81 final size:81
Alignment explanation
Indices: 135128--135716 Score: 315
Period size: 84 Copynumber: 7.2 Consensus size: 81
135118 GCTTAAGTCG
* *
135128 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATTATTTAC
1 AGAAGGGCTATCTTCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTAC
135193 AACATAACTCAAGGCT
66 AACATAACTCAAGGCT
* * * * * ** *
135209 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
1 AGAAGGGCTATCT-T--CCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATT
* ** * * * *
135273 AACGGCATAGCTTAAGTCG
63 TACAACATAACTCAAGGCT
*
135292 AGAAGGGCTATCTTCCAAAGACCCTCAAGTTTGATTACACTCAGCTTTGAGGGCACATCATTTAC
1 AGAAGGGCTATCTTCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTAC
*
135357 AACATAACTCAAGGAT
66 AACATAACTCAAGGCT
* * ** * * * * ** * *
135373 AGAAGGGTTATCTGTCACCAAAGACCTTCGCGTTCAACTACGCTCAAC-TCCAAGGCATATCATT
1 AGAAGGGCTATCT-T--CCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATT
** * * * *
135437 TACATTACAACTTATGTCT
63 TACAACATAACTCAAGGCT
* * * * ** * * ** **
135456 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACAGCACATCAT
1 AGAAGGGCTATCT-TC--C-AAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCAT
* * * * * *
135520 TTGCAGCATAGCTTAAGTCG
62 TTACAACATAACTCAAGGCT
* * * * * * *
135540 AGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TTCAGGGGCATATCATTTG
1 AGAAGGGCTATCTTCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGA-GGGCACATCATTTA
** * *
135604 CAGGATAACTCAAGTCG
65 CAACATAACTCAAGGCT
* * * * * ** ** *
135621 AGAAGGGTTATCTTCCAACAAAGATCTTCGAGTTCGACTATGCTCAGC-TCCAAGGCACATCATT
1 AGAAGGGCTATCTT-C--CAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATT
*
135685 TACAACATAACTCAAGGCA
63 TACAACATAACTCAAGGCT
*
135704 ATAAGGGCTATCT
1 AGAAGGGCTATCT
135717 GTCAACAAAA
Statistics
Matches: 395, Mismatches: 99, Indels: 26
0.76 0.19 0.05
Matches are distributed among these distances:
80 54 0.14
81 88 0.22
82 3 0.01
83 110 0.28
84 140 0.35
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (81 bp):
AGAAGGGCTATCTTCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTAC
AACATAACTCAAGGCT
Found at i:135659 original size:412 final size:413
Alignment explanation
Indices: 134930--135684 Score: 1117
Period size: 412 Copynumber: 1.8 Consensus size: 413
134920 TCAGCTCCAA
* * * *
134930 GGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACTAAAGACCTTCGAGTT
1 GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
* * * *
134995 CGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC
66 CAACTACGCTCAACTCCAAGGCATATCATTTACAGCACAACTTAAGTCGAGAAGGGTTATCTGCC
* * *
135060 AAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTTGCAGAATAGCTTAAG
131 AAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTGCAGAATAGCTTAAG
* *
135125 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACATTATT
196 TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTAGAGGGCACATCATT
* *
135190 TACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCA
261 TACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCA
135255 GCTCCAAGGCACATCATTAACGGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCAA
326 GCTCCAAGGCACATCATTAACGGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCAA
135320 GTTTGATTACACTCAGCTTTGAG
391 GTTTGATTACACTCAGCTTTGAG
* *
135343 GGCACATCATTTACAACATAACTCAAGG-ATAGAAGGGTTATCTGTC-ACCAAAGACCTTCGCGT
1 GGCACATCATTTACAACATAACTCAAGGCA-AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGT
** * * *
135406 TCAACTACGCTCAACTCCAAGGCATATCATTTACATTACAACTTATGTCTAGAAGGGTTGTCTGC
65 TCAACTACGCTCAACTCCAAGGCATATCATTTACAGCACAACTTAAGTCGAGAAGGGTTATCTGC
* *
135471 C-AACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACAGCACATCATTTGCAGCATAGCTT
130 CAAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-AGCACATCATTTGCAGAATAGCTT
* * * *
135534 AAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCAG-GGGCATAT
193 AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTT-AGAGGGCACAT
* ** * * *
135598 CATTTGCAGGATAACTCAAGTCGAGAAGGGTTATCT-TCCAACAAAGATCTTCGAGTTCGACTAT
257 CATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGT-CAACAAAGACCTTCGAGTTCGACTAC
135662 GCTCAGCTCCAAGGCACATCATT
321 GCTCAGCTCCAAGGCACATCATT
135685 TACAACATAA
Statistics
Matches: 303, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
411 7 0.02
412 255 0.84
413 41 0.14
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (413 bp):
GGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
CAACTACGCTCAACTCCAAGGCATATCATTTACAGCACAACTTAAGTCGAGAAGGGTTATCTGCC
AAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTGCAGAATAGCTTAAG
TCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTAGAGGGCACATCATT
TACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTAACGGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCAA
GTTTGATTACACTCAGCTTTGAG
Found at i:136400 original size:35 final size:35
Alignment explanation
Indices: 136299--136402 Score: 95
Period size: 35 Copynumber: 3.0 Consensus size: 35
136289 TTATTATAGT
* *
136299 AATATAGTATA-A-TTTTTGAAAATGTTTTTGAAA
1 AATATAGTATACAGTTTTTCAAAAAGTTTTTGAAA
* ****
136332 AATATAGTATATAGTTTTTCAAAAAAAAATTGAAA
1 AATATAGTATACAGTTTTTCAAAAAGTTTTTGAAA
* * * *
136367 TATATATTATACAGTTTTTTAAAACGTTTTTGAAA
1 AATATAGTATACAGTTTTTCAAAAAGTTTTTGAAA
136402 A
1 A
136403 CTTATATACA
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
33 11 0.21
34 1 0.02
35 41 0.77
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (35 bp):
AATATAGTATACAGTTTTTCAAAAAGTTTTTGAAA
Found at i:136476 original size:35 final size:34
Alignment explanation
Indices: 136324--136636 Score: 195
Period size: 35 Copynumber: 8.9 Consensus size: 34
136314 TTGAAAATGT
*
136324 TTTTGAAAA--ATATAGTATATAGTTTTTCAAAAAAA
1 TTTTGAAAATTATATA-TATATAG-TTTT-AAAAACA
** * * *
136359 AATTG-AAA-TATATATTATACAGTTTTTTAAAACGT
1 TTTTGAAAATTATATA-TATATAG-TTTTAAAAAC-A
*
136394 TTTTGAAAACTTATATACAATATAAAAGTTTT-AAAACA
1 TTTTGAAAA-TTATAT---ATAT-ATAGTTTTAAAAACA
* *
136432 TTTTGAAAATTATATAGTATATAGTTTTGAAATCA
1 TTTTGAAAATTATATA-TATATAGTTTTAAAAACA
136467 TTTTGAAAA-TATA-ATATATAGTTTTTAAAAAAACA
1 TTTTGAAAATTATATATATATAG-TTTT--AAAAACA
**
136502 TTTTTGAAAAATTTATATAATATATAGTTAAAAAAACA
1 -TTTTG-AAAA-TTATAT-ATATATAGTTTTAAAAACA
*
136540 TTTTGAAAAGCTTATATA-ATAT--TTTTAAAATCAA
1 TTTTGAAAA--TTATATATATATAGTTTTAAAAAC-A
*
136574 TTTTGAAAACTATATAATATATAGTTTTAAAAACA
1 TTTTGAAAATTATAT-ATATATAGTTTTAAAAACA
*
136609 TTTT-TAAA-TATA-ATATATAG-TTTAAAAA
1 TTTTGAAAATTATATATATATAGTTTTAAAAA
136637 TATATTTTTT
Statistics
Matches: 228, Mismatches: 24, Indels: 57
0.74 0.08 0.18
Matches are distributed among these distances:
30 8 0.04
31 8 0.04
32 12 0.05
33 17 0.07
34 36 0.16
35 53 0.23
36 22 0.10
37 21 0.09
38 21 0.09
39 9 0.04
40 9 0.04
41 12 0.05
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.42
Consensus pattern (34 bp):
TTTTGAAAATTATATATATATAGTTTTAAAAACA
Found at i:136524 original size:108 final size:106
Alignment explanation
Indices: 136361--136613 Score: 284
Period size: 107 Copynumber: 2.3 Consensus size: 106
136351 CAAAAAAAAA
* * * * * *
136361 TTGAAATATATATTATACAGTTTTTTAAAACGTTTTTGAAAACTTATATACAATATAAAAGTT-T
1 TTGAAATATATAATATATAGTTTTTAAAAACATTTTTGAAAAATTATATACAATAT-AAAGTTAA
* *
136425 TAAAACATTTTGAAAA-TTATATAGTATATAGTTTTGAAATC-ATT
65 AAAAACATTTTGAAAACTTATATA--ATAT--TTTTAAAATCAATT
* *
136469 TTGAAA-ATATAATATATAGTTTTTAAAAAAACATTTTTGAAAAATT-TATATAATATATAGTTA
1 TTGAAATATATAATATATAGTTTTT--AAAAACATTTTTGAAAAATTATATACAATATAAAGTTA
136532 AAAAAACATTTTGAAAAGCTTATATAATATTTTTAAAATCAATT
64 AAAAAACATTTTGAAAA-CTTATATAATATTTTTAAAATCAATT
136576 TTGAAAACTATATAATATATAG-TTTTAAAAACATTTTT
1 TTG-AAA-TATATAATATATAGTTTTTAAAAACATTTTT
136614 AAATATAATA
Statistics
Matches: 126, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
106 9 0.07
107 39 0.31
108 37 0.29
109 21 0.17
110 20 0.16
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (106 bp):
TTGAAATATATAATATATAGTTTTTAAAAACATTTTTGAAAAATTATATACAATATAAAGTTAAA
AAAACATTTTGAAAACTTATATAATATTTTTAAAATCAATT
Found at i:136578 original size:71 final size:68
Alignment explanation
Indices: 136412--136625 Score: 218
Period size: 73 Copynumber: 3.1 Consensus size: 68
136402 ACTTATATAC
* * * * *
136412 AATATAAAAGTTTTAAAAC-ATTTTGAAAATTATATAGTATATAGTTTTGAAATCATTTTGAAAA
1 AATATAATATTTTTAAAACAATTTTGAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAA
*
136476 TAT
66 GAT
* **
136479 AATAT-ATAGTTTTTAAAAAAACATTTTTGAAAAATTTATATAATATATAGTTAAAAAAACATTT
1 AATATAATA-TTTTT---AAAACAATTTTG-AAAA-TTATATAATATATAGTTTTAAAAACATTT
*
136543 TGAAAAGCT
60 TGAAAAGAT
* * *
136552 TATATAATATTTTTAAAATCAATTTTGAAAACTATATAATATATAGTTTTAAAAACATTTT-TAA
1 AATATAATATTTTTAAAA-CAATTTTGAAAATTATATAATATATAGTTTTAAAAACATTTTGAAA
*
136616 ATAT
65 AGAT
136620 AATATA
1 AATATA
136626 TAGTTTAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
66 2 0.02
67 9 0.08
68 9 0.08
69 27 0.23
70 13 0.11
71 12 0.10
72 4 0.03
73 40 0.34
74 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (68 bp):
AATATAATATTTTTAAAACAATTTTGAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAA
GAT
Found at i:136647 original size:69 final size:67
Alignment explanation
Indices: 136432--136663 Score: 209
Period size: 73 Copynumber: 3.3 Consensus size: 67
136422 TTTTAAAACA
* * * *
136432 TTTTGAAAATTATATAGTATATAGTTTTGAAATCATTTTGAAAATATAATATATAGTTTTTAAAA
1 TTTTGAAAACTATATAATATATAGTTTTAAAAACATTTT-AAAATATAATATATAG--TTTAAAA
*
136497 AAACAT
63 ATA-AT
* ** ** * * *
136503 TTTTGAAAAATTTATATAATATATAGTTAAAAAAACATTTTGAAAAGCTTATATAATATTTTTAA
1 TTTTG-AAAA-CTATATAATATATAGTTTTAAAAACATTTT-AAAATATAATAT-ATAGTTTAAA
136568 AATCAA-
62 AAT-AAT
*
136574 TTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTTAAATATAATATATAGTTTAAAAATA
1 TTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTAAAATATAATATATAGTTTAAAAATA
136639 TATT
66 -A-T
*
136643 TTTTG-AAAC-ATATATTATATA
1 TTTTGAAAACTATATAATATATA
136664 ATATATATTA
Statistics
Matches: 133, Mismatches: 21, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
66 1 0.01
67 23 0.17
68 12 0.09
69 32 0.24
70 4 0.03
71 10 0.08
72 12 0.09
73 36 0.27
74 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (67 bp):
TTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTAAAATATAATATATAGTTTAAAAATA
AT
Found at i:146503 original size:20 final size:21
Alignment explanation
Indices: 146454--146509 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
146444 CTATTGACAT
*
146454 AATTAAAATAACATAACATAA
1 AATTAAAATAAAATAACATAA
* *
146475 AA-TATAATAAAATACCA-AA
1 AATTAAAATAAAATAACATAA
*
146494 AATTAAAATAATATAA
1 AATTAAAATAAAATAA
146510 ATTTCAATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 22 0.79
21 2 0.07
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (21 bp):
AATTAAAATAAAATAACATAA
Found at i:154015 original size:21 final size:21
Alignment explanation
Indices: 153972--154087 Score: 69
Period size: 21 Copynumber: 5.6 Consensus size: 21
153962 TTTTCCCAAT
** *
153972 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
153992 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* * * *
154013 TCGCATTGCG-ATTTATG-TAT
1 TCGCAATGCGAATTT-GGAAAA
** ** *
154033 TCGCGTTGCG-ATTTTCATAAT
1 TCGCAATGCGAATTTGGA-AAA
*
154054 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTTGGAAAA
154075 TCGCAATGCGAAT
1 TCGCAATGCGAAT
154088 ATTACTATCG
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 30 0.40
21 40 0.53
22 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:154098 original size:82 final size:83
Alignment explanation
Indices: 153910--154109 Score: 228
Period size: 82 Copynumber: 2.4 Consensus size: 83
153900 GTTTCCAGAT
* * * * *
153910 TCGCAACGCGATTATGACTATCGCAATGCGATTT-TCCAATTTCGCGTTGTGATTTTCCCAATTC
1 TCGCAATGCGAATATTACTATCGCAATGCGATTTATCCAATTTCGCGTTGCGATTTTCACAATTC
*
153974 GCAATGCGAATAAGTAAA
66 GCAATGCGAATAAGAAAA
** * ** *
153992 TCGCAATGCGAAT-TTGGAAAATCGCATTGCGATTTAT-GTA-TTCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGAATATT--ACTATCGCAATGCGATTTATCCAATTTCGCGTTGCGATTTTCACAAT
*
154054 TCGCAATGCGAATTAGGAAAA
64 TCGCAATGCGAA-TAAGAAAA
154075 TCGCAATGCGAATATTACTATCGCAATGCGATTTA
1 TCGCAATGCGAATATTACTATCGCAATGCGATTTA
154110 CATAGCGCCA
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
81 1 0.01
82 58 0.60
83 35 0.36
84 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (83 bp):
TCGCAATGCGAATATTACTATCGCAATGCGATTTATCCAATTTCGCGTTGCGATTTTCACAATTC
GCAATGCGAATAAGAAAA
Found at i:154105 original size:62 final size:62
Alignment explanation
Indices: 153970--154113 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 62
153960 GATTTTCCCA
* * * * *
153970 ATTCGCAATGCGA-ATA-AGTAAATCGCAATGCGAATTTGGAAAATCGCATTGCGATTTATGT
1 ATTCGCAATGCGATTTACA-TAATTCGCAATGCGAATTAGGAAAATCGCAATGCGATTTATCT
** *
154031 ATTCGCGTTGCGATTTTCATAATTCGCAATGCGAATTAGGAAAATCGCAATGCGAATATTA-CT
1 ATTCGCAATGCGATTTACATAATTCGCAATGCGAATTAGGAAAATCGCAATGCG-AT-TTATCT
154094 A-TCGCAATGCGATTTACATA
1 ATTCGCAATGCGATTTACATA
154114 GCGCCATTCG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
61 11 0.16
62 49 0.72
63 5 0.07
64 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (62 bp):
ATTCGCAATGCGATTTACATAATTCGCAATGCGAATTAGGAAAATCGCAATGCGATTTATCT
Found at i:154658 original size:19 final size:19
Alignment explanation
Indices: 154620--154686 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
154610 TTCAAGAATG
154620 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
154640 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
154659 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
154678 AAAATCGCA
1 AAAATCGCA
154687 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:154704 original size:19 final size:19
Alignment explanation
Indices: 154682--154827 Score: 123
Period size: 19 Copynumber: 8.1 Consensus size: 19
154672 GAAACCAAAA
*
154682 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
154701 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
154720 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
154734 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
154753 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
154767 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
154786 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
154806 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
154826 TC
1 TC
154828 AACCAAAAGA
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
14 20 0.19
16 4 0.04
17 5 0.05
19 42 0.41
20 31 0.30
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:154742 original size:14 final size:14
Alignment explanation
Indices: 154723--154778 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
154713 TTTCATTTCG
154723 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
154737 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
154756 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
154770 CGTTGCGAT
1 CGTTGCGAT
154779 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:154752 original size:33 final size:33
Alignment explanation
Indices: 154704--154802 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
154694 TTTCATTTCG
**
154704 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
154737 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
154770 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATAGTCATTT-CGCGTTGCGATTCTC
154803 ATTATCTCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 48 0.76
34 15 0.24
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.40
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:156996 original size:21 final size:21
Alignment explanation
Indices: 156972--157038 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
156962 TCATTCCTCG
156972 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
156993 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
157014 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
157035 AGAG
1 AGAG
157039 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:156996 original size:42 final size:42
Alignment explanation
Indices: 156920--157038 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
156910 GACTCGCCTG
* * * * * * *
156920 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
156962 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
157004 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
157039 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:158394 original size:14 final size:14
Alignment explanation
Indices: 158375--158410 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
158365 ATTGTTTAAT
158375 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
158389 TGATTTGTAACAGT
1 TGATTTGTAAAAGG
158403 TGATTTGT
1 TGATTTGT
158411 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:158541 original size:19 final size:19
Alignment explanation
Indices: 158517--158563 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
158507 AAAAAGTACT
*
158517 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
158536 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
158555 ATCGCAACG
1 ATCGCAACG
158564 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:158610 original size:19 final size:19
Alignment explanation
Indices: 158588--158738 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
158578 CGAAATTAAA
158588 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
158607 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
158622 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
158640 TTCTCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
* *
158654 TTCACGTTGTGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
158673 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
158688 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
158706 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
158725 TTCTGCGTTGCGAT
1 TTC-GCGTTGCGAT
158739 AGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 46 0.49
20 9 0.10
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:158634 original size:33 final size:32
Alignment explanation
Indices: 158592--158718 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
158582 ATTAAATTCG
158592 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* *
158625 CGTTGCGATTTTCATTTCTCATTGCGAAATT-CA
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
158658 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
158691 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
158719 AGTAATTTCT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:158670 original size:66 final size:66
Alignment explanation
Indices: 158585--158717 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
158575 ACGCGAAATT
* *
158585 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCTCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
158650 G
66 G
* *
158651 AAATTCACGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
158716 G
66 G
158717 A
1 A
158718 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:161027 original size:12 final size:12
Alignment explanation
Indices: 161010--161034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
161000 TCTTCGGGGA
161010 CTTTTTCTTCTT
1 CTTTTTCTTCTT
161022 CTTTTTCTTCTT
1 CTTTTTCTTCTT
161034 C
1 C
161035 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:161243 original size:24 final size:24
Alignment explanation
Indices: 161209--161262 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
161199 CTGAAACATC
*
161209 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
161233 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
161257 ATCAAA
1 ATCAAA
161263 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:162072 original size:20 final size:21
Alignment explanation
Indices: 162047--162098 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
162037 TTTTCCTAAT
*
162047 TCGCAATGTGAA-TAAGTAAA
1 TCGCAATGTGAATTAAGAAAA
* *
162067 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGTGAATTAAGAAAA
162088 TCGCAATGTGA
1 TCGCAATGTGA
162099 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (21 bp):
TCGCAATGTGAATTAAGAAAA
Found at i:162120 original size:20 final size:20
Alignment explanation
Indices: 162087--162165 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
162077 AATTTAGAAA
* *
162087 ATCGCAATGTGATACTGACT
1 ATCGCAACGAGATACTGACT
* * *
162107 ATCGAAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
162128 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
162148 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
162166 AAATCGCAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 13 0.28
22 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:162172 original size:20 final size:20
Alignment explanation
Indices: 162125--162174 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
162115 GAGATAATAC
162125 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
162145 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
162165 AAAATCGCAA
1 AAAATCGCAA
162175 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:162483 original size:20 final size:20
Alignment explanation
Indices: 162388--162475 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
162378 CAACGGGGAA
162388 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
162408 ATCGCAACACGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
162428 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
162448 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
162468 ATCGCAAC
1 ATCGCAAC
162476 TAGAAAATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
19 5 0.09
20 45 0.82
21 5 0.09
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:162526 original size:14 final size:16
Alignment explanation
Indices: 162506--162579 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
162496 TGAAAATCGC
162506 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
162521 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
162538 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
162557 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
162573 -TTGCGAT
1 ATTGCGAT
162580 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:162543 original size:19 final size:19
Alignment explanation
Indices: 162502--162569 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
162492 GAAATGAAAA
162502 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
162518 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
162535 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
162554 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
162570 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:164207 original size:41 final size:42
Alignment explanation
Indices: 164153--164240 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
164143 CCTCTTCAAC
* * * *
164153 AATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 AATGATAGGGGCCTCTTGAACGAGTGGAGAGGACTCTTGAGG
* *
164194 GATGATAGGGGCCTCTTGAACGATTGGAGAGGACTCTTGAGG
1 AATGATAGGGGCCTCTTGAACGAGTGGAGAGGACTCTTGAGG
164236 AATGA
1 AATGA
164241 CAGGTGAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 19 0.49
42 20 0.51
ACGTcount: A:0.24, C:0.15, G:0.39, T:0.23
Consensus pattern (42 bp):
AATGATAGGGGCCTCTTGAACGAGTGGAGAGGACTCTTGAGG
Found at i:164608 original size:20 final size:20
Alignment explanation
Indices: 164583--164620 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
164573 AATAATAGTT
164583 TACTTTCGCAACACGAAACC
1 TACTTTCGCAACACGAAACC
*
164603 TACTTTCGCAACGCGAAA
1 TACTTTCGCAACACGAAA
164621 ATGACTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (20 bp):
TACTTTCGCAACACGAAACC
Found at i:164631 original size:20 final size:20
Alignment explanation
Indices: 164608--164680 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
164598 AAACCTACTT
164608 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
164628 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
164648 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
*
164668 TCGCAATGCGAAA
1 TCGCAACGCGAAA
164681 TGAAAATCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:164694 original size:39 final size:40
Alignment explanation
Indices: 164611--164694 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
164601 CCTACTTTCG
** *
164611 CAACGCGAAAATGACTATCGCAACGCGGAAATGACTATCG
1 CAACGCGAAAATGACTATCGCAACGCGGAAATGAAAATCA
* * *
164651 CAACGCGGAAATGGCTATCGCAATGC-GAAATGAAAATCA
1 CAACGCGAAAATGACTATCGCAACGCGGAAATGAAAATCA
164690 CAACG
1 CAACG
164695 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 15 0.39
40 23 0.61
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.14
Consensus pattern (40 bp):
CAACGCGAAAATGACTATCGCAACGCGGAAATGAAAATCA
Found at i:164702 original size:14 final size:14
Alignment explanation
Indices: 164683--164746 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
164673 ATGCGAAATG
*
164683 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
164697 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
164716 AAAATCGCAACGAC
1 AAAATCGCAACGAC
164730 AAAATCGCAACG-C
1 AAAATCGCAACGAC
164743 AAAA
1 AAAA
164747 CACAAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.12
14 21 0.50
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:164709 original size:33 final size:33
Alignment explanation
Indices: 164667--164739 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
164657 GGAAATGGCT
164667 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
*
164700 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
164733 ATCGCAA
1 ATCGCAA
164740 CGCAAAACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGACAAA
Found at i:164754 original size:33 final size:33
Alignment explanation
Indices: 164667--164757 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
164657 GGAAATGGCT
* ** *
164667 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAACGCGAAAACAAAATCGCAACGACAAA
* **
164700 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAAACAAAATCGCAACGACAAA
164733 ATCGCAACGC-AAAACACAAATCGCA
1 ATCGCAACGCGAAAACA-AAATCGCA
164758 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 4 0.08
33 49 0.92
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAAACAAAATCGCAACGACAAA
Found at i:164775 original size:19 final size:19
Alignment explanation
Indices: 164753--164849 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
164743 AAAACACAAA
164753 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
164772 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
164788 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
164805 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
164821 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
164838 TCGCATTGCGAT
1 TCGCATTGCGAT
164850 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 22 0.36
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:164794 original size:14 final size:14
Alignment explanation
Indices: 164775--164833 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
164765 TTTCATTTCG
164775 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
164789 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
164806 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
164822 CGTTGTGATTTT
1 CGTTGCGATTTT
164834 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:164800 original size:33 final size:33
Alignment explanation
Indices: 164758--164849 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
164748 ACAAATCGCA
*
164758 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
164791 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
164824 TTGTGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
164850 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:164868 original size:20 final size:19
Alignment explanation
Indices: 164834--164888 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
164824 TTGTGATTTT
*
164834 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
164853 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
164873 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
164889 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:165452 original size:18 final size:18
Alignment explanation
Indices: 165429--165476 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
165419 CGGGTCGATC
165429 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
165447 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
165465 AGGTGATGGCTC
1 AGGTGATGGCTC
165477 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:166820 original size:20 final size:20
Alignment explanation
Indices: 166795--166837 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
166785 AATAGTTTCT
166795 GAAAATGAAAACCGCAACAC
1 GAAAATGAAAACCGCAACAC
* * *
166815 GAAAATGACAATCGCAACGC
1 GAAAATGAAAACCGCAACAC
166835 GAA
1 GAA
166838 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.23, G:0.19, T:0.07
Consensus pattern (20 bp):
GAAAATGAAAACCGCAACAC
Found at i:167431 original size:41 final size:41
Alignment explanation
Indices: 167312--167490 Score: 164
Period size: 41 Copynumber: 4.4 Consensus size: 41
167302 CGCTTTGAAA
* * *
167312 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * ** * * *
167353 ATTGAGTTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
167393 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * ** * * *
167434 ACCGCGTTGTGATTTTCCA-AATTCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTA-TCGCGTTGCGAAAGTCAGT
*
167475 ATCGCATTGCGATTTT
1 ATCGCGTTGCGATTTT
167491 CCAAATTTGC
Statistics
Matches: 109, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 33 0.30
41 76 0.70
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:167441 original size:20 final size:20
Alignment explanation
Indices: 167332--167442 Score: 98
Period size: 20 Copynumber: 5.5 Consensus size: 20
167322 GATTATGTAT
*
167332 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
167352 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
167372 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
167392 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
167413 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
167433 TACCGCGTTG
1 TATCGCGTTG
167443 TGATTTTCCA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
19 3 0.04
20 54 0.74
21 14 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:167481 original size:20 final size:20
Alignment explanation
Indices: 167312--167487 Score: 74
Period size: 20 Copynumber: 8.7 Consensus size: 20
167302 CGCTTTGAAA
*
167312 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
167333 ATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
167353 ATTG-AGTTGCGAAATTAAGT
1 ATCGCA-TTGCGATAGTCAGT
*
167373 ATCG-AGTTGCGAAAGTCAGT
1 ATCGCA-TTGCGATAGTCAGT
* * *
167393 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
167414 ATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * ** *
167434 ACCGCGTTGTGATTTTCCA-A
1 ATCGCATTGCGATAGT-CAGT
167454 ATTCGCATTGCGATAGTCAGT
1 A-TCGCATTGCGATAGTCAGT
167475 ATCGCATTGCGAT
1 ATCGCATTGCGAT
167488 TTTCCAAATT
Statistics
Matches: 117, Mismatches: 29, Indels: 19
0.71 0.18 0.12
Matches are distributed among these distances:
19 5 0.04
20 73 0.62
21 37 0.32
22 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Done.