Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 24
Found at i:4265297 original size:41 final size:41
Alignment explanation
Indices: 4265250--4265382 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 41
4265240 ACAAAAAAAT
* *
4265250 GCCGCAATAGATTAGTAATTTAGTAGCGTTTTTATACAAAC
1 GCCGCAATAGATTAGTAATTTAGTGGCGTTTTTCTACAAAC
* * *
4265291 ACCGCAATAGAGTT-GT--TTATAGTGGCGTTTGTGCTAAAAAC
1 GCCGCAATAGA-TTAGTAATT-TAGTGGCGTTT-TTCTACAAAC
* * *
4265332 GCCGTAATAGAGTAATAATTTAGTGGCGTTTTTCCTACAAAC
1 GCCGCAATAGATTAGTAATTTAGTGGCGTTTTT-CTACAAAC
4265374 GCCGCAATA
1 GCCGCAATA
4265383 TGTTTTTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
39 2 0.03
40 11 0.15
41 30 0.41
42 28 0.38
43 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (41 bp):
GCCGCAATAGATTAGTAATTTAGTGGCGTTTTTCTACAAAC
Found at i:4265363 original size:82 final size:83
Alignment explanation
Indices: 4265216--4265400 Score: 214
Period size: 83 Copynumber: 2.2 Consensus size: 83
4265206 ACACCAAAAT
* * * * *
4265216 ATAA-TTGTTTATAGTGGCATTTTTACAAAAAAATGCCGCAATAGATTAGTAATTTAGTAGCGTT
1 ATAAGTTGTTTATAGTGGCGTTTGTACAAAAAAACGCCGCAATAGAGTAATAATTTAGTAGCGTT
4265280 TTT-ATACAAACACCGCA
66 TTTCATACAAACACCGCA
* * * *
4265297 ATAGAGTTGTTTATAGTGGCGTTTGTGC-TAAAAACGCCGTAATAGAGTAATAATTTAGTGGCGT
1 ATA-AGTTGTTTATAGTGGCGTTTGTACAAAAAAACGCCGCAATAGAGTAATAATTTAGTAGCGT
* *
4265361 TTTTCCTACAAACGCCGCA
65 TTTTCATACAAACACCGCA
* *
4265380 ATATGTTTTTCTATAGTGGCG
1 ATAAGTTGTT-TATAGTGGCG
4265401 CTTTTAGAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 3 0.03
82 40 0.46
83 44 0.51
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (83 bp):
ATAAGTTGTTTATAGTGGCGTTTGTACAAAAAAACGCCGCAATAGAGTAATAATTTAGTAGCGTT
TTTCATACAAACACCGCA
Found at i:4266882 original size:42 final size:42
Alignment explanation
Indices: 4266830--4267220 Score: 577
Period size: 42 Copynumber: 9.3 Consensus size: 42
4266820 TGTTATAAAA
* *
4266830 AAACGTCGCAATAGAGTAGTAATATAGCGGTGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
*
4266872 AAACGCCGCAATATAGT-GTAATATAGCGGCGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
*
4266913 AAACGCCGCAATAGAGTAGTAATATAGCGACGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* *
4266955 AAATGCCGCAATAGAGTCGTAATATAGCGGCGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* *
4266997 AAATGCCGTAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* *
4267039 AAACGTCGCAATAGAGTAGTATTATAGCGGCGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* * *
4267081 AAACGCAGCAATAGAGTCGTAATATAGCGGCATTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* * * *
4267123 AAACGCCGTAATATAGTAGTAATATAACGACGTTTATAGCTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
* * * *
4267165 AAACGCCGTAATAGAGTAGTAATATAGAGACGTTTATAGTTC
1 AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
*
4267207 AAATGCCGCAATAG
1 AAACGCCGCAATAG
4267221 GGTTAACATA
Statistics
Matches: 316, Mismatches: 32, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 39 0.12
42 277 0.88
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
AAACGCCGCAATAGAGTAGTAATATAGCGGCGTTTATAGCTC
Found at i:4271149 original size:21 final size:22
Alignment explanation
Indices: 4271123--4271170 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
4271113 AGCGGAAAAT
*
4271123 GAAGCAAG-GGAAGCAGAGAGA
1 GAAGCAAGCAGAAGCAGAGAGA
*
4271144 GCAGC-AGCAGAAGCAGAGAGA
1 GAAGCAAGCAGAAGCAGAGAGA
4271165 GAAGCA
1 GAAGCA
4271171 GTGGCAGCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.46, C:0.15, G:0.40, T:0.00
Consensus pattern (22 bp):
GAAGCAAGCAGAAGCAGAGAGA
Found at i:4271171 original size:21 final size:21
Alignment explanation
Indices: 4271132--4271194 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
4271122 TGAAGCAAGG
*
4271132 GAAGCAGAGAGAGCAGCAGCA
1 GAAGCAGAGAGAGAAGCAGCA
**
4271153 GAAGCAGAGAGAGAAGCAGTG
1 GAAGCAGAGAGAGAAGCAGCA
* *
4271174 GCAGCACAGAGAGAAGCAGCA
1 GAAGCAGAGAGAGAAGCAGCA
4271195 TATCAGCAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.38, T:0.02
Consensus pattern (21 bp):
GAAGCAGAGAGAGAAGCAGCA
Found at i:4271599 original size:44 final size:44
Alignment explanation
Indices: 4271551--4271699 Score: 158
Period size: 44 Copynumber: 3.4 Consensus size: 44
4271541 ATACCAAACA
* * **
4271551 TTTAGAGGCGTTTGTAACCTAAAAACGCTGTTATATATTGGTAT
1 TTTAGAGGCGTTTGTATCCTAAAAATGCTGTTATATAACGGTAT
* *
4271595 TTTAGCA-GCGTTTTTATCCTAAAAATG-TCGTAATATAACGGTAT
1 TTTAG-AGGCGTTTGTATCCTAAAAATGCT-GTTATATAACGGTAT
* * * * *
4271639 GTTAGCGGCGTTTGTATCCTAAAAATGCTGCTATATAGCGGTCT
1 TTTAGAGGCGTTTGTATCCTAAAAATGCTGTTATATAACGGTAT
*
4271683 TTTAGCGGCGTTTGTAT
1 TTTAGAGGCGTTTGTAT
4271700 GAAAAAATGC
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 84 0.97
45 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (44 bp):
TTTAGAGGCGTTTGTATCCTAAAAATGCTGTTATATAACGGTAT
Found at i:4271631 original size:88 final size:88
Alignment explanation
Indices: 4271526--4271695 Score: 198
Period size: 88 Copynumber: 1.9 Consensus size: 88
4271516 GCGTTTGTAA
* * **
4271526 TAAAAAAGTCGCAATATACCAAACAT-TTAGAGGCGTTTGTAACCTAAAAACGCTGTTATATATT
1 TAAAAAAGTCGCAATATAAC-AACATGTTAGAGGCGTTTGTAACCTAAAAACGCTGCTATATAGC
4271590 GGTATTTTAGCAGCGTTTTTATCC
65 GGTATTTTAGCAGCGTTTTTATCC
* * *** * * *
4271614 TAAAAATGTCGTAATATAACGGTATGTTAGCGGCGTTTGTATCCTAAAAATGCTGCTATATAGCG
1 TAAAAAAGTCGCAATATAACAACATGTTAGAGGCGTTTGTAACCTAAAAACGCTGCTATATAGCG
* *
4271679 GTCTTTTAGCGGCGTTT
66 GTATTTTAGCAGCGTTT
4271696 GTATGAAAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 2 0.03
88 65 0.97
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (88 bp):
TAAAAAAGTCGCAATATAACAACATGTTAGAGGCGTTTGTAACCTAAAAACGCTGCTATATAGCG
GTATTTTAGCAGCGTTTTTATCC
Found at i:4272664 original size:18 final size:17
Alignment explanation
Indices: 4272643--4272681 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
4272633 TTATTTTCGG
4272643 AAAAATATTATAT-TTAAA
1 AAAAATATT-T-TCTTAAA
4272661 AAAAATATTTTCTTAAA
1 AAAAATATTTTCTTAAA
4272678 AAAA
1 AAAA
4272682 TCAAAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATTTTCTTAAA
Found at i:4272867 original size:34 final size:34
Alignment explanation
Indices: 4272814--4272904 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 34
4272804 AGCAATTACC
* * * *
4272814 ATTTGCCGAACACGTTTAGGGTTAGACAATTGCT
1 ATTTACCGACCACGATTAGGGTTAAACAATTGCT
*
4272848 ATTTACCGGCCACGATTAGGGTTAAACAATTGCT
1 ATTTACCGACCACGATTAGGGTTAAACAATTGCT
*
4272882 ATTTACCGACCAGGATTAGGGTT
1 ATTTACCGACCACGATTAGGGTT
4272905 TTAAAAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (34 bp):
ATTTACCGACCACGATTAGGGTTAAACAATTGCT
Found at i:4272954 original size:83 final size:84
Alignment explanation
Indices: 4272862--4273041 Score: 299
Period size: 83 Copynumber: 2.2 Consensus size: 84
4272852 ACCGGCCACG
* * *
4272862 ATTAGGGTTAAACAATTGCTATTTACCGACCAGGATTAGGGTTTTAAAAATTAGGGTTAGGGATT
1 ATTAGGGTTAAACAATTGCTACTTACCAACCAGGATTAGGGCTTTAAAAATTAGGGTTAGGGATT
4272927 TAAATATTAAGGCTAGAAA
66 TAAATATTAAGGCTAGAAA
*
4272946 ATTA-GGTTAAACAATTGCTACTTACCAACCAGGATTAGGGCTTTAAAAATTAGGGTTAGGGTTT
1 ATTAGGGTTAAACAATTGCTACTTACCAACCAGGATTAGGGCTTTAAAAATTAGGGTTAGGGATT
* *
4273010 TAAATGTTAAGGTTAGAAA
66 TAAATATTAAGGCTAGAAA
4273029 ATTAGGGTTAAAC
1 ATTAGGGTTAAAC
4273042 TGACTATGGC
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 77 0.87
84 12 0.13
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (84 bp):
ATTAGGGTTAAACAATTGCTACTTACCAACCAGGATTAGGGCTTTAAAAATTAGGGTTAGGGATT
TAAATATTAAGGCTAGAAA
Found at i:4273023 original size:21 final size:21
Alignment explanation
Indices: 4272980--4273025 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4272970 CCAACCAGGA
*
4272980 TTAGGGCTTTAAAAATTAGGG
1 TTAGGGCTTTAAAAATTAAGG
* **
4273001 TTAGGGTTTTAAATGTTAAGG
1 TTAGGGCTTTAAAAATTAAGG
4273022 TTAG
1 TTAG
4273026 AAAATTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.39
Consensus pattern (21 bp):
TTAGGGCTTTAAAAATTAAGG
Found at i:4277016 original size:24 final size:24
Alignment explanation
Indices: 4276986--4277043 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
4276976 TGACTGGCTG
4276986 TGATGTTTTCGAGAAACGTAAGGA
1 TGATGTTTTCGAGAAACGTAAGGA
4277010 TGATGTTTTCGAGAAACGTAAGGA
1 TGATGTTTTCGAGAAACGTAAGGA
4277034 TGATGTTTTC
1 TGATGTTTTC
4277044 AAATCTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (24 bp):
TGATGTTTTCGAGAAACGTAAGGA
Found at i:4277504 original size:27 final size:27
Alignment explanation
Indices: 4277449--4277533 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
4277439 AATACCTTGC
* * *
4277449 TACCAAATTTCTCAAACCATGCCCTGT
1 TACCAAGTTGCTCGAACCATGCCCTGT
* * * *
4277476 TATCAAGTTGTTCGAATCATGCCTTGT
1 TACCAAGTTGCTCGAACCATGCCCTGT
* *
4277503 TACCAAGTTGCTCGAACCATGCTCTGC
1 TACCAAGTTGCTCGAACCATGCCCTGT
4277530 TACC
1 TACC
4277534 CCGACACTAC
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (27 bp):
TACCAAGTTGCTCGAACCATGCCCTGT
Found at i:4277636 original size:33 final size:33
Alignment explanation
Indices: 4277589--4277675 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
4277579 TGAACAATTT
*
4277589 GGTAGCAGGGCATAGTTCGAGCAGCTTGATCAA
1 GGTAACAGGGCATAGTTCGAGCAGCTTGATCAA
* *
4277622 GGTAACAGGGCATAGTTCAAGCAGCTTGATCAG
1 GGTAACAGGGCATAGTTCGAGCAGCTTGATCAA
4277655 GGTAACAGGGCAT-GATTCGAG
1 GGTAACAGGGCATAG-TTCGAG
4277676 AAATTTGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (33 bp):
GGTAACAGGGCATAGTTCGAGCAGCTTGATCAA
Found at i:4277783 original size:27 final size:27
Alignment explanation
Indices: 4277745--4277798 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4277735 GTAGTGTCAA
4277745 GGTAGCAGGGCATGGTTCAAACAACTT
1 GGTAGCAGGGCATGGTTCAAACAACTT
*
4277772 GGTAGTAGGGCATGGTTCAAACAACTT
1 GGTAGCAGGGCATGGTTCAAACAACTT
4277799 AACCAGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (27 bp):
GGTAGCAGGGCATGGTTCAAACAACTT
Found at i:4290444 original size:98 final size:98
Alignment explanation
Indices: 4290272--4290466 Score: 372
Period size: 98 Copynumber: 2.0 Consensus size: 98
4290262 AATCCCTTAT
*
4290272 GCAAAAGGTTTATCTTTTGGTTTCTTTTTGAGGGTCTTGACTCAAAGTTTCCTCTTTAACCTTTG
1 GCAAAAGGTTTATCTTTTGGTTTCTTTTTGAGGGTCTTAACTCAAAGTTTCCTCTTTAACCTTTG
*
4290337 GAAATCAGTCACTAAATATGTAGCCATGAAATG
66 GAAACCAGTCACTAAATATGTAGCCATGAAATG
4290370 GCAAAAGGTTTATCTTTTGGTTTCTTTTTGAGGGTCTTAACTCAAAGTTTCCTCTTTAACCTTTG
1 GCAAAAGGTTTATCTTTTGGTTTCTTTTTGAGGGTCTTAACTCAAAGTTTCCTCTTTAACCTTTG
4290435 GAAACCAGTCACTAAATATGTAGCCATGAAAT
66 GAAACCAGTCACTAAATATGTAGCCATGAAAT
4290467 ACCCTCTCCT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (98 bp):
GCAAAAGGTTTATCTTTTGGTTTCTTTTTGAGGGTCTTAACTCAAAGTTTCCTCTTTAACCTTTG
GAAACCAGTCACTAAATATGTAGCCATGAAATG
Found at i:4291078 original size:5 final size:5
Alignment explanation
Indices: 4291070--4291103 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
4291060 TTTTTTTCTC
4291070 GTATT GTATT GTATT GTATT GTATT GTATT GTAT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTAT
4291104 GTTTGCTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (5 bp):
GTATT
Found at i:4301697 original size:2 final size:2
Alignment explanation
Indices: 4301683--4301717 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4301673 AAAAAATTAA
*
4301683 AT AT A- AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4301718 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4314198 original size:33 final size:33
Alignment explanation
Indices: 4314156--4314218 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
4314146 CCTCTAATGG
4314156 GTGGAATAGGGAACCGGCAGTAGCTAGCGATGT
1 GTGGAATAGGGAACCGGCAGTAGCTAGCGATGT
4314189 GTGGAATAGGGAACCGGCAGTAGCTAGCGA
1 GTGGAATAGGGAACCGGCAGTAGCTAGCGA
4314219 CGAAGATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.40, T:0.16
Consensus pattern (33 bp):
GTGGAATAGGGAACCGGCAGTAGCTAGCGATGT
Found at i:4321757 original size:30 final size:32
Alignment explanation
Indices: 4321709--4321781 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
4321699 ATCGAATGTA
*
4321709 ATATTTTTTATAAGTTTTTGTAT-TCAT-AAAT
1 ATATTTTTTAGAAGTTTTT-TATATCATGAAAT
* *
4321740 ATATTTTTTGGAA-TTTTTTATATCATGAATT
1 ATATTTTTTAGAAGTTTTTTATATCATGAAAT
4321771 ACTATTTTTTA
1 A-TATTTTTTA
4321782 ATTTAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.09
30 9 0.26
31 15 0.43
32 8 0.23
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (32 bp):
ATATTTTTTAGAAGTTTTTTATATCATGAAAT
Found at i:4323021 original size:129 final size:126
Alignment explanation
Indices: 4322714--4323033 Score: 376
Period size: 126 Copynumber: 2.5 Consensus size: 126
4322704 CCTCCTCCTA
* * * *
4322714 TTCCCCCAGAGGGACTAGAAAACCCAAAAAATTCTGCGAAAATGTCATCAGCAGTCCTGGGGTTG
1 TTCCCCCAGAGGGACTAGAAAACCCGAAATACTCTGAGAAAATGTCATCAGCAGTCCTGGGGTTG
** * *
4322779 ACACCAGAGGGTGTTGACCTTGAACCACCATTCATCCCACTGTTACCACCACCTTCTCCCC
66 ACACCAGAGGGTGTTGACCTTGAACCACCATTCATCCCACTGTTACCACCACCACCACCAC
* * * * * * *
4322840 TTCTCCCGGAGGGTCTAGAAAACTCGAAATACTATGAAAAAATGTCATCAGCAGTCTTGGGGTTG
1 TTCCCCCAGAGGGACTAGAAAACCCGAAATACTCTGAGAAAATGTCATCAGCAGTCCTGGGGTTG
* * * *
4322905 AGACC-GAAGGGTTTTGGCCTTGAACCACC-TCTCATCCCACTGCTGCCT-CCTCCACCACCACC
66 ACACCAG-AGGGTGTTGACCTTGAACCACCAT-TCATCCCACTG-T---TACCACCACCACCACC
4322967 AC
125 AC
* *
4322969 TTCCCCCTGAGGGACTAAAAAACCCGAAATACTCTGAGAAAATGTCATCAGCAGTCCTGGGGTTG
1 TTCCCCCAGAGGGACTAGAAAACCCGAAATACTCTGAGAAAATGTCATCAGCAGTCCTGGGGTTG
4323034 GACTTGGACC
Statistics
Matches: 161, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
125 2 0.01
126 89 0.55
127 1 0.01
129 68 0.42
130 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (126 bp):
TTCCCCCAGAGGGACTAGAAAACCCGAAATACTCTGAGAAAATGTCATCAGCAGTCCTGGGGTTG
ACACCAGAGGGTGTTGACCTTGAACCACCATTCATCCCACTGTTACCACCACCACCACCAC
Found at i:4323781 original size:21 final size:21
Alignment explanation
Indices: 4323755--4323807 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
4323745 GTTTCCAGAT
4323755 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
4323776 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
4323797 TCGCAATGCGA
1 TCGCAACGCGA
4323808 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:4323848 original size:21 final size:20
Alignment explanation
Indices: 4323822--4323929 Score: 103
Period size: 21 Copynumber: 5.3 Consensus size: 20
4323812 CATATTGGCA
4323822 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTC-CG
** * *
4323843 TTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCGAAGTTCCG
4323862 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCGAAGTTC-CG
** * *
4323883 TTGCGATTTTCTAAATT-CG
1 TTGCGATAGTCGAAGTTCCG
4323902 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTC-CG
4323923 TTGCGAT
1 TTGCGAT
4323930 TTATTCCAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
19 30 0.45
21 37 0.55
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCGAAGTTCCG
Found at i:4323869 original size:40 final size:40
Alignment explanation
Indices: 4323822--4323943 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
4323812 CATATTGGCA
4323822 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
* *
4323862 TTGCGATAGTCGAAGTTCACGTTGCGATTTTCTAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
4323902 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
4323944 CAACGACTGG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 64 0.84
41 2 0.03
42 10 0.13
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:4323920 original size:19 final size:19
Alignment explanation
Indices: 4323822--4323920 Score: 90
Period size: 19 Copynumber: 5.0 Consensus size: 19
4323812 CATATTGGCA
4323822 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTT--CG
** * *
4323843 TTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCG
4323862 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCGAAGTT--CG
** * *
4323883 TTGCGATTTTCTAAATTCG
1 TTGCGATAGTCGAAGTTCG
4323902 TTGCGATAGTCGAAGTTCG
1 TTGCGATAGTCGAAGTTCG
4323921 CGTTGCGATT
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
19 32 0.53
21 28 0.47
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCGAAGTTCG
Found at i:4324039 original size:6 final size:6
Alignment explanation
Indices: 4324028--4324052 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4324018 GACACGTATT
4324028 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
4324053 GACGGACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4324766 original size:62 final size:62
Alignment explanation
Indices: 4324694--4324812 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
4324684 ATCGCAATGC
* * *
4324694 GATTTGCGATACCGCAGATCGA-ATTGCGAATTATCGATCGCATTGCGATTTAGTTGGAAATT
1 GATTTACGATACCGAAGATC-ACATTACGAATTATCGATCGCATTGCGATTTAGTTGGAAATT
*
4324756 GATTTACGATATCGAAGATCACATTACGAATTATCGATCGCATTGCGATTTAGTTGG
1 GATTTACGATACCGAAGATCACATTACGAATTATCGATCGCATTGCGATTTAGTTGG
4324813 TCATTTTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 1 0.02
62 51 0.98
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (62 bp):
GATTTACGATACCGAAGATCACATTACGAATTATCGATCGCATTGCGATTTAGTTGGAAATT
Found at i:4325991 original size:25 final size:26
Alignment explanation
Indices: 4325947--4326002 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
4325937 ACTATTTCTA
* *
4325947 AAAAATCATTTTAAATTTAAA-ATGT
1 AAAAATCATTTTAAACTTAAATATAT
4325972 AAAAAT-ATTTTAAAACTTAAATATAT
1 AAAAATCATTTT-AAACTTAAATATAT
4325998 AAAAA
1 AAAAA
4326003 ATTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (26 bp):
AAAAATCATTTTAAACTTAAATATAT
Found at i:4326014 original size:23 final size:23
Alignment explanation
Indices: 4325981--4326024 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4325971 TAAAAATATT
*
4325981 TTAAAACTTAAATATA-TAAAAAA
1 TTAAAAATTAAAT-TACTAAAAAA
4326004 TTAAAAATTAAATTACTAAAA
1 TTAAAAATTAAATTACTAAAA
4326025 GTTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (23 bp):
TTAAAAATTAAATTACTAAAAAA
Found at i:4326034 original size:2 final size:2
Alignment explanation
Indices: 4326027--4326067 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4326017 TACTAAAAGT
4326027 TA TA TA 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 TA TA TA T
4326068 TAAAAGTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4326251 original size:27 final size:28
Alignment explanation
Indices: 4326221--4326289 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
4326211 TACGATTATA
*
4326221 TTTTAAATGTTTAAAT-AAAATGATATC
1 TTTTAAATATTTAAATCAAAATGATATC
*
4326248 TTTTAAATATTTGAATCAAAATGATAT-
1 TTTTAAATATTTAAATCAAAATGATATC
4326275 TACTTTAAATATTTA
1 T--TTTAAATATTTA
4326290 TTTTTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 15 0.42
28 10 0.28
29 11 0.31
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (28 bp):
TTTTAAATATTTAAATCAAAATGATATC
Found at i:4333373 original size:18 final size:19
Alignment explanation
Indices: 4333338--4333375 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
4333328 CACGGAATGT
4333338 AAGATTACCAGTGAGAATAA
1 AAGATTACCAG-GAGAATAA
4333358 AAGATTACCA-GAGAATAA
1 AAGATTACCAGGAGAATAA
4333376 GATTACTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGAGAATAA
Found at i:4341079 original size:5 final size:5
Alignment explanation
Indices: 4341069--4341093 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4341059 CTTTCTCCGG
4341069 CACTC CACTC CACTC CACTC CACTC
1 CACTC CACTC CACTC CACTC CACTC
4341094 AATAGCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
CACTC
Found at i:4347498 original size:15 final size:17
Alignment explanation
Indices: 4347478--4347509 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4347468 GATTTTTTTG
4347478 TAAATT-CAA-ATAGAT
1 TAAATTGCAAGATAGAT
4347493 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
4347510 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:4347775 original size:20 final size:20
Alignment explanation
Indices: 4347750--4347794 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 20
4347740 AATAAAGTAG
4347750 AGTGGTGGTAATGTAGAGAT
1 AGTGGTGGTAATGTAGAGAT
4347770 A---GTGGTAATGTAGAGAT
1 AGTGGTGGTAATGTAGAGAT
4347787 AGTGGTGG
1 AGTGGTGG
4347795 AGATGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 17 0.77
20 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.42, T:0.29
Consensus pattern (20 bp):
AGTGGTGGTAATGTAGAGAT
Found at i:4347776 original size:17 final size:17
Alignment explanation
Indices: 4347754--4347792 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4347744 AAGTAGAGTG
4347754 GTGGTAATGTAGAGATA
1 GTGGTAATGTAGAGATA
4347771 GTGGTAATGTAGAGATA
1 GTGGTAATGTAGAGATA
4347788 GTGGT
1 GTGGT
4347793 GGAGATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (17 bp):
GTGGTAATGTAGAGATA
Found at i:4360971 original size:24 final size:22
Alignment explanation
Indices: 4360928--4360970 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4360918 AATTTGAATT
4360928 TAATTATAAATATATTTTTTTG
1 TAATTATAAATATATTTTTTTG
4360950 TAATTATATAATA-ATTTTTTT
1 TAATTATA-AATATATTTTTTT
4360971 TATTTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATTATAAATATATTTTTTTG
Found at i:4361955 original size:19 final size:19
Alignment explanation
Indices: 4361931--4361976 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4361921 TTCGGGAAAG
4361931 TTTCGCCAGTCGTCGGTGT
1 TTTCGCCAGTCGTCGGTGT
*
4361950 TTTCGCCAGTCGTCGTTGT
1 TTTCGCCAGTCGTCGGTGT
4361969 TTTCGCCA
1 TTTCGCCA
4361977 ACGGCGTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.07, C:0.28, G:0.26, T:0.39
Consensus pattern (19 bp):
TTTCGCCAGTCGTCGGTGT
Found at i:4363923 original size:62 final size:62
Alignment explanation
Indices: 4363847--4363971 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
4363837 TTCAATTTAT
4363847 GCTTGAAATCTCAAGGGCTCTCACCTCTTTGTTTAACTGTGGGAGAGGAAAGGAAAAAAGAA
1 GCTTGAAATCTCAAGGGCTCTCACCTCTTTGTTTAACTGTGGGAGAGGAAAGGAAAAAAGAA
4363909 GCTTGAAATCTCAAGGGCTCTCACCTCTTTGTTTAACTGTGGGAGAGGAAAGGAAAAAAGAA
1 GCTTGAAATCTCAAGGGCTCTCACCTCTTTGTTTAACTGTGGGAGAGGAAAGGAAAAAAGAA
4363971 G
1 G
4363972 AGGATATATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (62 bp):
GCTTGAAATCTCAAGGGCTCTCACCTCTTTGTTTAACTGTGGGAGAGGAAAGGAAAAAAGAA
Found at i:4365473 original size:51 final size:50
Alignment explanation
Indices: 4365418--4365529 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
4365408 TCTCTTGTTT
**
4365418 CGCGTTATACGATGATTTGACGCCACGTGGGGTATAGCGCGCCCCCTGCAC
1 CGCGTTATACGATGAGCTGACGCCACGT-GGGTATAGCGCGCCCCCTGCAC
* * * * *
4365469 CGCGTTATACGGTGAGCTGGCGCCACGTGGGTATAGGGCGGCCCCTGCAG
1 CGCGTTATACGATGAGCTGACGCCACGTGGGTATAGCGCGCCCCCTGCAC
*
4365519 CGCGCTATACG
1 CGCGTTATACG
4365530 CCACGTAGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 29 0.55
51 24 0.45
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (50 bp):
CGCGTTATACGATGAGCTGACGCCACGTGGGTATAGCGCGCCCCCTGCAC
Found at i:4367182 original size:19 final size:19
Alignment explanation
Indices: 4367143--4367179 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4367133 CCTTAAAAAG
*
4367143 AGAGTATTTGAGAGAAATT
1 AGAGAATTTGAGAGAAATT
4367162 AGAGAATTTGAGA-AAATT
1 AGAGAATTTGAGAGAAATT
4367180 TAGTGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (19 bp):
AGAGAATTTGAGAGAAATT
Found at i:4367405 original size:48 final size:48
Alignment explanation
Indices: 4367316--4367417 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
4367306 CTTCAGGGGC
* **
4367316 CGCGTTATACCCACGTGACGCCAGCTCACCGTACAGCGCGGTGCAGGG
1 CGCGCTATACCCACGTGACGCCAAATCACCGTACAGCGCGGTGCAGGG
* * *
4367364 CGCGCTATACCCCACGTGGCGCCAAATCATCGTATA-CGCGGTGCAGGG
1 CGCGCTATA-CCCACGTGACGCCAAATCACCGTACAGCGCGGTGCAGGG
*
4367412 GGCGCT
1 CGCGCT
4367418 TTACTGCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
48 25 0.54
49 21 0.46
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.16
Consensus pattern (48 bp):
CGCGCTATACCCACGTGACGCCAAATCACCGTACAGCGCGGTGCAGGG
Found at i:4369038 original size:20 final size:20
Alignment explanation
Indices: 4369015--4369058 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4369005 AATAATCACA
* *
4369015 CAAAATATAACAATTAAACT
1 CAAAATAAAACAACTAAACT
*
4369035 CAAAATAAAATAACTAAACT
1 CAAAATAAAACAACTAAACT
4369055 CAAA
1 CAAA
4369059 TAACGAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (20 bp):
CAAAATAAAACAACTAAACT
Found at i:4370914 original size:23 final size:23
Alignment explanation
Indices: 4370870--4370932 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
4370860 AAGCTCATAT
* * *
4370870 AAATGCACCGAAGTACCACGTA-
1 AAATGCACTGAAGTGCCGCGTAG
*
4370892 AAATTGCACTGTAGTGCCGCGTAG
1 AAA-TGCACTGAAGTGCCGCGTAG
4370916 AAATGCACTGAAGTGCC
1 AAATGCACTGAAGTGCC
4370933 ATATAAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
AAATGCACTGAAGTGCCGCGTAG
Found at i:4378737 original size:20 final size:21
Alignment explanation
Indices: 4378712--4378804 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
4378702 TTTTCCCAAT
*
4378712 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4378732 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
4378753 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4378773 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4378794 TCGCAATGCGA
1 TCGCAATGCGA
4378805 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4378819 original size:41 final size:41
Alignment explanation
Indices: 4378712--4378804 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
4378702 TTTTCCCAAT
4378712 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4378753 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4378794 TCGCAATGCGA
1 TCGCAATGCGA
4378805 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:4378883 original size:20 final size:20
Alignment explanation
Indices: 4378835--4378887 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4378825 TAATACAAAA
* *
4378835 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
4378855 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
4378875 TCGCAACGCGATT
1 TCGCAACGCGATT
4378888 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:4379441 original size:19 final size:19
Alignment explanation
Indices: 4379403--4379469 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
4379393 TTCGAGAATG
4379403 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
4379423 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
4379442 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
4379461 AAAATCGCA
1 AAAATCGCA
4379470 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:4379516 original size:33 final size:33
Alignment explanation
Indices: 4379479--4379566 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
4379469 ATTGCGATTT
* *
4379479 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
4379512 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
4379545 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
4379567 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:4379568 original size:20 final size:20
Alignment explanation
Indices: 4379534--4379591 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
4379524 GCGATTCTCT
**
4379534 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
4379554 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
4379574 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
4379592 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:4381616 original size:21 final size:21
Alignment explanation
Indices: 4381592--4381661 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
4381582 TCATTCCTCG
4381592 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
4381613 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
4381634 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
4381655 AGA-TCCC
1 AGAGTCCC
4381662 GATTCACATG
Statistics
Matches: 34, Mismatches: 13, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 30 0.88
22 1 0.03
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.20
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:4382997 original size:14 final size:14
Alignment explanation
Indices: 4382978--4383013 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4382968 ATTGTTTAAT
4382978 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
4382992 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
4383006 TGATTTGT
1 TGATTTGT
4383014 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:4383237 original size:33 final size:31
Alignment explanation
Indices: 4383189--4383284 Score: 111
Period size: 33 Copynumber: 3.0 Consensus size: 31
4383179 AATTAAATTC
* * *
4383189 GCGTTACGATTTTCATTTCGCATTGTGATTCCC
1 GCGTTGCGATTTTCATTTCGCATTGCGATT--A
* *
4383222 TCGTTGCGATTTTCATTTTGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
4383255 GCGTTGCGATTTTCATTTCGCATTGCGATT
1 GCGTTGCGATTTTCATTTCGCATTGCGATT
4383285 TTCATTTCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
31 3 0.06
33 48 0.89
35 3 0.06
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (31 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTA
Found at i:4383280 original size:19 final size:19
Alignment explanation
Indices: 4383258--4383302 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
4383248 GAAATTAGCG
4383258 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4383277 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4383296 TTGCGAT
1 TTGCGAT
4383303 AGTAATTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4383310 original size:19 final size:19
Alignment explanation
Indices: 4383269--4383322 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
4383259 TGCGATTTTC
** *
4383269 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATAGTA
4383288 ATTTCGCATTGCGATAGTA
1 ATTTCGCATTGCGATAGTA
*
4383307 ATTTCCGCGTTGCGAT
1 ATTT-CGCATTGCGAT
4383323 GGACATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (19 bp):
ATTTCGCATTGCGATAGTA
Found at i:4385600 original size:12 final size:12
Alignment explanation
Indices: 4385583--4385607 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4385573 TCTACGGGGA
4385583 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4385595 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4385607 C
1 C
4385608 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:4385815 original size:24 final size:24
Alignment explanation
Indices: 4385781--4385833 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4385771 CTGAAACATC
* *
4385781 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
4385805 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
4385829 ATCAA
1 ATCAA
4385834 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:4386934 original size:14 final size:14
Alignment explanation
Indices: 4386915--4386968 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
4386905 GAAAATCGCA
4386915 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
4386929 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
4386946 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
4386962 TTGCGAT
1 TTGCGAT
4386969 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:4386934 original size:33 final size:33
Alignment explanation
Indices: 4386897--4386967 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
4386887 GAAATCGCAA
4386897 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
4386930 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
4386963 TGCGA
1 TGCGA
4386968 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:4386968 original size:33 final size:33
Alignment explanation
Indices: 4386910--4386987 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
4386900 GAAATGAAAA
***
4386910 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
4386943 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
4386976 TCGCGTTGCGAT
1 TCGCATTGCGAT
4386988 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:4387094 original size:14 final size:14
Alignment explanation
Indices: 4387075--4387111 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4387065 CATCAATTAA
4387075 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4387089 ACAAATCATCTTTT
1 ACAAATCAACATTT
4387103 ACAAATCAA
1 ACAAATCAA
4387112 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4388998 original size:19 final size:19
Alignment explanation
Indices: 4388974--4389040 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
4388964 GAAACTTAAA
4388974 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
4388993 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCG-AAATGACT
* **
4389013 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
4389032 ATCGCAACG
1 ATCGCAACG
4389041 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4388998 original size:39 final size:37
Alignment explanation
Indices: 4388955--4389091 Score: 105
Period size: 39 Copynumber: 3.9 Consensus size: 37
4388945 TAGTTTACTT
*
4388955 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGACTA
1 TCGCAACACGAAAC-TAAAATCGCAACGCGAAATGA-AA
* * *** *
4388994 TCGCAACGCGAAAATGGCTATCGCAATGCGAAATGAAAA
1 TCGCAACACGAAACT-AAAATCGCAACGCGAAATG-AAA
4389033 TCGC-A-ACG--AC-AAAATCGCAACGCGAAATGAAA
1 TCGCAACACGAAACTAAAATCGCAACGCGAAATGAAA
4389065 TCGC-A-ACG--AC-AAAATCGCAACGCGAAA
1 TCGCAACACGAAACTAAAATCGCAACGCGAAA
4389092 CACAAATCGC
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
32 30 0.36
33 15 0.18
35 1 0.01
37 2 0.02
38 2 0.02
39 32 0.39
40 1 0.01
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (37 bp):
TCGCAACACGAAACTAAAATCGCAACGCGAAATGAAA
Found at i:4389048 original size:14 final size:14
Alignment explanation
Indices: 4389029--4389086 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4389019 ATGCGAAATG
4389029 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4389043 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
4389059 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4389075 AAAATCGCAACG
1 AAAATCGCAACG
4389087 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4389071 original size:32 final size:33
Alignment explanation
Indices: 4389013--4389091 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
4389003 GAAAATGGCT
*
4389013 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4389046 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4389078 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
4389092 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:4389139 original size:14 final size:14
Alignment explanation
Indices: 4389120--4389177 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
4389110 TTTCATTTCG
4389120 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4389134 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
4389150 CGCATTGCAATTTTGT
1 CG--TTGCGATTTTGT
4389166 CGTTGCGATTTT
1 CGTTGCGATTTT
4389178 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4389150 original size:32 final size:33
Alignment explanation
Indices: 4389103--4389193 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
4389093 ACAAATCGCA
*
4389103 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
4389136 TTGCGA-TTTCATTTCGCATTGCAATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
4389168 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
4389194 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:4389212 original size:20 final size:19
Alignment explanation
Indices: 4389178--4389232 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4389168 TTGCGATTTT
*
4389178 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4389197 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
4389217 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
4389233 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:4389739 original size:18 final size:18
Alignment explanation
Indices: 4389713--4389757 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4389703 GTCGATCAGA
*
4389713 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
4389731 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
4389749 TGATGGCTC
1 TGATGGCTC
4389758 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:4391121 original size:20 final size:20
Alignment explanation
Indices: 4391073--4391131 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
4391063 AATAGTTTCT
**
4391073 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
4391093 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
** *
4391113 GAATTTGACTATCGTAACA
1 GAAAATGACTATCGCAACA
4391132 AGATAATCGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:4391421 original size:22 final size:22
Alignment explanation
Indices: 4391394--4391437 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4391384 GATGGAGATA
4391394 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
4391416 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
4391438 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:4391650 original size:20 final size:20
Alignment explanation
Indices: 4391625--4391675 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4391615 GATTATGTAT
*
4391625 TATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCAAAAGTAAG
4391645 TATCGCGTTGCAAAAGTAAG
1 TATCGCGTTGCAAAAGTAAG
*
4391665 TATCTCGTTGC
1 TATCGCGTTGC
4391676 GATTTTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGCGTTGCAAAAGTAAG
Found at i:4391690 original size:41 final size:41
Alignment explanation
Indices: 4391645--4391722 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
4391635 CAAAAGTCAG
* * *
4391645 TATCGCGTTGC-AAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAA-TAAGTATCGCATTGCGATTTTGTAT
* *
4391686 TATCGCATTGCGATAATCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAATAAGTATCGCATTGCGATTTT
4391723 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 28 0.90
42 3 0.10
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAATAAGTATCGCATTGCGATTTTGTAT
Found at i:4391737 original size:21 final size:21
Alignment explanation
Indices: 4391708--4391800 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
4391698 ATAATCAGTA
4391708 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
4391729 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
4391749 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
4391770 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
4391790 TCGCATTGCGA
1 TCGCATTGCGA
4391801 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:4391738 original size:41 final size:41
Alignment explanation
Indices: 4391708--4391800 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
4391698 ATAATCAGTA
* *
4391708 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
4391749 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
4391790 TCGCATTGCGA
1 TCGCATTGCGA
4391801 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:4393404 original size:64 final size:64
Alignment explanation
Indices: 4393351--4393513 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
4393341 CGGTGCACCA
*
4393351 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
4393415 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
4393480 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
4393514 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:4393485 original size:19 final size:19
Alignment explanation
Indices: 4393461--4393511 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
4393451 GAAAATATTC
4393461 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
4393480 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
4393499 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
4393512 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:4393553 original size:65 final size:65
Alignment explanation
Indices: 4393355--4393562 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
4393345 GCACCAAGTG
* * ** *
4393355 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
4393418 G-
64 GA
* * *
4393419 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
4393482 A
65 A
* *
4393483 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
4393545 CTGA
62 CTGA
4393549 TGCATCGGTGCATG
1 TGCATCGGTGCATG
4393563 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:4395203 original size:21 final size:21
Alignment explanation
Indices: 4395179--4395241 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
4395169 ATGAAGGAAA
*
4395179 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGAAGCAGC
* * *
4395200 GGAAACAGAGAAAGAAGCAGT
1 GGAAGCAGAGAGAGAAGCAGC
* *
4395221 GGTAGCACAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGAAGCAGC
4395242 ATATCAGCAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.38, T:0.03
Consensus pattern (21 bp):
GGAAGCAGAGAGAGAAGCAGC
Found at i:4395641 original size:44 final size:44
Alignment explanation
Indices: 4395583--4395667 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
4395573 AAAAAAAGGC
*
4395583 CGCAATATACCATACATTTAGCGGTGTTTGTATACTAGAAATGT
1 CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAATGT
*
4395627 CGCAATATATCATACATTTAGCGGCGTTTGTATACTAGAAA
1 CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAA
4395668 CGCCGCTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (44 bp):
CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAATGT
Found at i:4395797 original size:43 final size:42
Alignment explanation
Indices: 4395750--4395873 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
4395740 GTTTGTGGGA
* * * *
4395750 AAAACGCTGCAAAATATCAAAACCTACTGCGGCATTTTTAAGT
1 AAAACGCCGCTAAATATCAACACCTACTGCGGC-TTTTTAAGG
* * *
4395793 AAAACGCCGCTAAATCTCAACACCTACTACGGCTTTTTAGGG
1 AAAACGCCGCTAAATATCAACACCTACTGCGGCTTTTTAAGG
* *
4395835 AAAACGCCGCTAAACATCAACACCTATTGCGGCGTTTTT
1 AAAACGCCGCTAAATATCAACACCTACTGCGGC-TTTTT
4395874 TCTAAAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 36 0.52
43 33 0.48
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
AAAACGCCGCTAAATATCAACACCTACTGCGGCTTTTTAAGG
Found at i:4395842 original size:42 final size:43
Alignment explanation
Indices: 4395708--4395848 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
4395698 TTTTCGATAC
* * * * * *
4395708 AAACGCTGCTAAATCTGAAAACTTACTACGACGTTTGT-GGGAA
1 AAACGCCGCTAAATCTCAAAACCTACTACGGCATTTTTAGGG-A
* * * * * *
4395751 AAACGCTGCAAAATATCAAAACCTACTGCGGCATTTTTAAGTA
1 AAACGCCGCTAAATCTCAAAACCTACTACGGCATTTTTAGGGA
*
4395794 AAACGCCGCTAAATCTCAACACCTACTACGGC-TTTTTAGGGA
1 AAACGCCGCTAAATCTCAAAACCTACTACGGCATTTTTAGGGA
4395836 AAACGCCGCTAAA
1 AAACGCCGCTAAA
4395849 CATCAACACC
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 21 0.26
43 58 0.73
44 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAATCTCAAAACCTACTACGGCATTTTTAGGGA
Found at i:4395874 original size:86 final size:86
Alignment explanation
Indices: 4395708--4395873 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 86
4395698 TTTTCGATAC
* * * * *
4395708 AAACGCTGCTAAATCTGAAAACTTACTACGACGTTTGTGGGAAAAACGCTGCAAAATATCAAAAC
1 AAACGCCGCTAAATCTCAAAACCTACTACGACGTTTGTGGGAAAAACGCCGCAAAACATCAAAAC
4395773 CTACTGCGGCATTTTTAAGTA
66 CTACTGCGGCATTTTTAAGTA
* * * * *
4395794 AAACGCCGCTAAATCTCAACACCTACTACGGC-TTTTTAGGG-AAAACGCCGCTAAACATCAACA
1 AAACGCCGCTAAATCTCAAAACCTACTACGACGTTTGT-GGGAAAAACGCCGCAAAACATCAAAA
* *
4395857 CCTATTGCGGCGTTTTT
65 CCTACTGCGGCATTTTT
4395874 TCTAAAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
85 37 0.55
86 30 0.45
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAATCTCAAAACCTACTACGACGTTTGTGGGAAAAACGCCGCAAAACATCAAAAC
CTACTGCGGCATTTTTAAGTA
Found at i:4396136 original size:2 final size:2
Alignment explanation
Indices: 4396119--4396283 Score: 61
Period size: 2 Copynumber: 78.0 Consensus size: 2
4396109 ACATGTAAAT
*
4396119 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * *
4396162 TA TA AA TA TA AA CTA TA GTT TA TA TA TA TA T- TA TG TA CTA TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
4396204 TA AA TA GTT TA TA TA -A T- TCA CTA -A TA AA CTA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA T-A -TA TA TA TA -TA TA TA TA TA TA
* * * *
4396245 TA TA TA GA TCA TA TG TA AA CTA TA TA GTT TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA
4396284 GTTCATATGT
Statistics
Matches: 120, Mismatches: 24, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
1 5 0.04
2 96 0.80
3 18 0.15
4 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4396138 original size:9 final size:9
Alignment explanation
Indices: 4396124--4396165 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
4396114 TAAATTATAC
4396124 TATATAGTA
1 TATATAGTA
4396133 TATATAGTTTA
1 TATATAG--TA
4396144 TATATA-TAA
1 TATATAGT-A
4396153 TATATAGTA
1 TATATAGTA
4396162 TATA
1 TATA
4396166 AATATAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 1 0.03
11 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:4396149 original size:20 final size:19
Alignment explanation
Indices: 4396124--4396283 Score: 93
Period size: 20 Copynumber: 8.4 Consensus size: 19
4396114 TAAATTATAC
4396124 TATATAGTATATATAGTTTA
1 TATATA-TATATATAGTTTA
*
4396144 TATATATAATATATAGTATA
1 TATATAT-ATATATAGTTTA
* *
4396164 TAAATATAAACTATAGTTTA
1 TATATATATA-TATAGTTTA
4396184 TATATATAT-TAT-G--TA
1 TATATATATATATAGTTTA
*
4396199 -CTATATA-A-ATAGTTTA
1 TATATATATATATAGTTTA
* * *
4396215 TATA-ATTCACTAATAAACTATA
1 TATATA-T-A-T-ATATAGTTTA
* *
4396237 TATATATATATATAGATCA
1 TATATATATATATAGTTTA
* *
4396256 TATGTAAACTATATAGTTTA
1 TATATATA-TATATAGTTTA
4396276 TATATATA
1 TATATATA
4396284 GTTCATATGT
Statistics
Matches: 103, Mismatches: 22, Indels: 30
0.66 0.14 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 2 0.02
16 3 0.03
17 4 0.04
18 4 0.04
19 14 0.14
20 54 0.52
21 2 0.02
22 10 0.10
23 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (19 bp):
TATATATATATATAGTTTA
Found at i:4396189 original size:33 final size:32
Alignment explanation
Indices: 4396152--4396315 Score: 78
Period size: 31 Copynumber: 5.1 Consensus size: 32
4396142 TATATATATA
4396152 ATATATAGTATATAAATATAAACTATAGTTTAT
1 ATATATA-TATATAAATATAAACTATAGTTTAT
* *
4396185 ATATATAT-TATGTACTATATAA--ATAGTTTAT
1 ATATATATATAT-AAATATA-AACTATAGTTTAT
* *
4396216 ATA-AT-TCA-CT--A-ATAAACTATA-TATAT
1 ATATATAT-ATATAAATATAAACTATAGTTTAT
* * *
4396242 ATATATATAGATCATATGTAAACTATATAGTTTAT
1 ATATATATATAT-AAATATAAAC--TATAGTTTAT
*
4396277 ATATATAGTTCATATGTAAATATCAACTATAGTTTAT
1 ATATATA--T-ATA--TAAATATAAACTATAGTTTAT
4396314 AT
1 AT
4396316 GTAAACTACA
Statistics
Matches: 98, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
25 2 0.02
26 10 0.10
27 6 0.06
28 2 0.02
29 1 0.01
30 3 0.03
31 16 0.16
32 11 0.11
33 9 0.09
34 4 0.04
35 11 0.11
37 13 0.13
38 2 0.02
39 7 0.07
40 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATATATATATATAAATATAAACTATAGTTTAT
Found at i:4396192 original size:22 final size:21
Alignment explanation
Indices: 4396118--4396192 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
4396108 CACATGTAAA
4396118 TTATACTATATAGTATATATAGT
1 TTATA-TATATA-TATATATAGT
4396141 TTATATATATA-ATATATAG-
1 TTATATATATATATATATAGT
* *
4396160 -TATATAAATATAAACTATAGT
1 TTATATATATATATA-TATAGT
4396181 TTATATATATAT
1 TTATATATATAT
4396193 TATGTACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 9 0.20
19 2 0.04
20 13 0.29
22 16 0.36
23 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
TTATATATATATATATATAGT
Found at i:4396351 original size:75 final size:70
Alignment explanation
Indices: 4396230--4396446 Score: 231
Period size: 75 Copynumber: 2.9 Consensus size: 70
4396220 TTCACTAATA
* * *
4396230 AACTATA-TATATATATATATAGATCATATGTAAACTATATAGTTTATATATATAGTTCATATGT
1 AACTATAGTATATA-A-ATACAGTTCATATATAAACTATATAGTTTATATATATAGTTCATATGT
4396294 AAATATC
64 AAATATC
4396301 AACTATAGTTTATATGTAAACTACAGTT-AGTATATAAACTATATAGTTTATATGTAAACTATAG
1 AACTATAG--TATA--TAAA-TACAGTTCA-TATATAAACTATATAGTTTATA--T--A-TATAG
*
4396365 TTCATATATAAATATC
55 TTCATATGTAAATATC
* * * *
4396381 AACTATAGTATATATATAGAGTTCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAA
1 AACTATAGTATATAAATACAGTTCATATATAAACTATATAGTTTATATATATAGTTCATATGTAA
4396446 A
66 A
4396447 GTATAATTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
70 15 0.12
71 8 0.06
73 1 0.01
74 6 0.05
75 54 0.44
76 6 0.05
77 1 0.01
78 4 0.03
79 1 0.01
80 28 0.23
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (70 bp):
AACTATAGTATATAAATACAGTTCATATATAAACTATATAGTTTATATATATAGTTCATATGTAA
ATATC
Found at i:4396428 original size:33 final size:33
Alignment explanation
Indices: 4396228--4396783 Score: 182
Period size: 33 Copynumber: 15.3 Consensus size: 33
4396218 AATTCACTAA
* *
4396228 TAAACTATATA-TATATATATATAGATCATATG
1 TAAACTATATAGTTTATATATATAGTTCATATG
4396260 TAAACTATATAGTTTATATATATAGTTCATATG
1 TAAACTATATAGTTTATATATATAGTTCATATG
* * *
4396293 TAAATATCAACTATAGTTTATATGTAAACTACAGTT-AGTATA
1 T-AA-A-CTA-TATAGTTTATA--T--A-TATAGTTCA-TATG
*
4396335 TAAACTATATAGTTTATATGTAAACTATAGTTCATATA
1 TAAACTATATAGTTTATA--T--A-TATAGTTCATATG
* * *
4396373 TAAATATCAACTATAGTATATATATAGAGTTCATATG
1 T-AA-A-CTA-TATAGTTTATATATATAGTTCATATG
*
4396410 TAAACTATATAGTTTATATATACAGTTCATATG
1 TAAACTATATAGTTTATATATATAGTTCATATG
* *
4396443 TAAAGTATAATTCA-TATGTAAATATCAACTATAGTTTATATG
1 TAAACTAT-A-T-AGT-T-T--ATAT--A-TATAGTTCATATG
* *
4396485 TAAACTATAGTTAGTATATAAATTATATAGTTTATATG
1 TAAACTATA--TAGT-T-TATA-TATATAGTTCATATG
* *
4396523 TAAAC--TATAGTTCATATATA-AATATCAACTATAG
1 TAAACTATATAGTTTATATATATAGT-TC-A-TAT-G
* * * * * *
4396557 TATA-TATATAGTTCATATGTAAACTAT-ATAGTT
1 TAAACTATATAGTTTATATATATAGT-TCATA-TG
* * *
4396590 TATA-TATATAGTTCATATGTAAACTATAGTTCATATA
1 TAAACTATATAGTT--TA--TATA-TATAGTTCATATG
* *
4396627 TAAATATCAACTATAGTTTATATGTAAACTATAGTT-AGTATA
1 T-AA-A-CTA-TATAGTTTATA--T--A-TATAGTTCA-TATG
*
4396669 TAAACTATATAGTTTATATGTAAACTATAGTTCATATA
1 TAAACTATATAGTTTATA--T--A-TATAGTTCATATG
*
4396707 TAAA-TATCAACTA-TAGTATATATATAGTTCATATG
1 TAAACTAT--A-TAGT-TTATATATATAGTTCATATG
*
4396742 TAAACTATTTAGTTTATATATATAGTTCATATG
1 TAAACTATATAGTTTATATATATAGTTCATATG
4396775 TAAACTATA
1 TAAACTATA
4396784 GTTCATATGT
Statistics
Matches: 421, Mismatches: 43, Indels: 119
0.72 0.07 0.20
Matches are distributed among these distances:
30 2 0.00
31 5 0.01
32 14 0.03
33 99 0.24
34 16 0.04
35 35 0.08
36 16 0.04
37 32 0.08
38 92 0.22
39 17 0.04
40 14 0.03
41 14 0.03
42 65 0.15
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (33 bp):
TAAACTATATAGTTTATATATATAGTTCATATG
Found at i:4396514 original size:150 final size:148
Alignment explanation
Indices: 4396235--4396526 Score: 351
Period size: 150 Copynumber: 2.0 Consensus size: 148
4396225 TAATAAACTA
* *
4396235 TATATATATATATATAGATCATATGTAAACTATATAGTTTATATATATAGTTCATATGTAAATAT
1 TATATATATATATAGAGATCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAAATAT
* * * * *
4396300 CAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAG
66 CAACTATAGTGTAAATATAAACTACAGTTAGTATATAAAC-ATATAGTTTATATATAAAATATAG
4396365 TTCATATATAAATATCAAC
130 TTCATATATAAATATCAAC
*
4396384 TATAGTATATATATAGAGTTCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAAAGT
1 TATA-TATATATATAGAGATCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAAA-T
* * * *
4396449 AT-AATTCATA-TGTAAATATCAACTATAGTTTA-TATGTAAAC-TATAG-TTAGTATATAAATT
64 ATCAACT-ATAGTGTAAATATAAACTACAG-TTAGTATATAAACATATAGTTTA-TATATAAA--
* *
4396509 ATATAGTTTATATGTAAA
124 ATATAGTTCATATATAAA
4396527 CTATAGTTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
147 3 0.02
148 12 0.10
149 4 0.03
150 94 0.77
151 9 0.07
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (148 bp):
TATATATATATATAGAGATCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAAATAT
CAACTATAGTGTAAATATAAACTACAGTTAGTATATAAACATATAGTTTATATATAAAATATAGT
TCATATATAAATATCAAC
Found at i:4396545 original size:80 final size:75
Alignment explanation
Indices: 4396400--4396563 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 75
4396390 ATATATATAG
* * * *
4396400 AGTTCATATGTAAACTATATAGTTTATATATACAGTTCATATGTAAAGTATAATTCATATGTAAA
1 AGTTTATATGTAAACTATATAGTTTAAATATACAGTTCATATGTAAACTATAATTCATATATAAA
4396465 TATCAACTAT
66 TATCAACTAT
* * *
4396475 AGTTTATATGTAAACTATAGTTAGTATATAAATTATATAGTTTATATGTAAACTATAGTTCATAT
1 AGTTTATATGTAAACTATA--TAGT-T-TAAA-TATACAGTTCATATGTAAACTATAATTCATAT
4396540 ATAAATATCAACTAT
61 ATAAATATCAACTAT
*
4396555 AGTATATAT
1 AGTTTATAT
4396564 ATAGTTCATA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 18 0.24
77 4 0.05
78 1 0.01
79 3 0.04
80 50 0.66
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (75 bp):
AGTTTATATGTAAACTATATAGTTTAAATATACAGTTCATATGTAAACTATAATTCATATATAAA
TATCAACTAT
Found at i:4396626 original size:86 final size:90
Alignment explanation
Indices: 4396472--4396815 Score: 456
Period size: 86 Copynumber: 4.0 Consensus size: 90
4396462 AAATATCAAC
* *
4396472 TATAGTTTATATGTAAACTATAGTTAGTATATAAATTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTCATATGTAAACTATAG-TAGTATATAAATTATATAGTTCATATGTAAACTATAGTTCA
4396537 TATATAAATATCAACTATAGTATATA
65 TATATAAATATCAACTATAGTATATA
*
4396563 TATAGTTCATATGTAAACTATA-TAGT-T-TATA-TATATAGTTCATATGTAAACTATAGTTCAT
1 TATAGTTCATATGTAAACTATAGTAGTATATAAATTATATAGTTCATATGTAAACTATAGTTCAT
4396624 ATATAAATATCAACTATAG------
66 ATATAAATATCAACTATAGTATATA
* *
4396643 --T--TT-ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTCATATGTAAACTATAG-TAGTATATAAATTATATAGTTCATATGTAAACTATAGTTCA
4396703 TATATAAATATCAACTATAGTATATA
65 TATATAAATATCAACTATAGTATATA
* *
4396729 TATAGTTCATATGTAAACTAT-TTAGT-T-TATA-TATATAGTTCATATGTAAACTATAGTTCAT
1 TATAGTTCATATGTAAACTATAGTAGTATATAAATTATATAGTTCATATGTAAACTATAGTTCAT
* *
4396790 ATGTAAATATCAACTATAGTTTATA
66 ATATAAATATCAACTATAGTATATA
4396815 T
1 T
4396816 GTAACCTATA
Statistics
Matches: 227, Mismatches: 10, Indels: 37
0.83 0.04 0.14
Matches are distributed among these distances:
75 14 0.06
76 2 0.01
77 4 0.02
78 2 0.01
79 3 0.01
80 48 0.21
86 101 0.44
87 6 0.03
88 3 0.01
89 8 0.04
90 2 0.01
91 34 0.15
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (90 bp):
TATAGTTCATATGTAAACTATAGTAGTATATAAATTATATAGTTCATATGTAAACTATAGTTCAT
ATATAAATATCAACTATAGTATATA
Found at i:4396659 original size:166 final size:166
Alignment explanation
Indices: 4396280--4397040 Score: 1184
Period size: 166 Copynumber: 4.6 Consensus size: 166
4396270 AGTTTATATA
*
4396280 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
4396345 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGAGTTCATATG
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATAT--AGTTCATATG
* *
4396410 TAAACTATATAGTTTATATATACAGTTCATATGTAAAG
129 TAAACTATATAGTTTATATATATAGTTCATATGTAAAC
* *
4396448 TATAATTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAATTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
4396513 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
4396578 AACTATATAGTTTATATATATAGTTCATATGTAAAC
131 AACTATATAGTTTATATATATAGTTCATATGTAAAC
*
4396614 TATAGTTCATATATAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
4396679 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
*
4396744 AACTATTTAGTTTATATATATAGTTCATATGTAAAC
131 AACTATATAGTTTATATATATAGTTCATATGTAAAC
*
4396780 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAACCTATAGTTAGTATATAAACTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
*
4396845 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGCATATATATAGTTCATATGTA
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
* *
4396910 AAATATATTTCA-TATGTAAATATCAACTATAGTTTATATGTAAAC
131 AACTATA--T-AGT-T-T--ATAT--A-TATAGTTCATATGTAAAC
* * *
4396955 TATAGTT-AGTATAT-AA-A-CTA-TATAGTTTATATGTAAACTATA--TAGT-T-TATA-TATA
1 TATAGTTCA-TATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATA
* *
4397010 TAGTTCATATGTAAACTATAATTCATATATA
65 TAGTTTATATGTAAACTATAGTTCATATATA
4397041 TAGTATATAA
Statistics
Matches: 561, Mismatches: 21, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
166 373 0.66
167 3 0.01
168 118 0.21
169 6 0.01
170 1 0.00
171 21 0.04
172 6 0.01
173 1 0.00
174 4 0.01
175 28 0.05
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (166 bp):
TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATAT
AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTA
AACTATATAGTTTATATATATAGTTCATATGTAAAC
Found at i:4396786 original size:31 final size:31
Alignment explanation
Indices: 4396715--4396791 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 31
4396705 TATAAATATC
4396715 AACTATAG--TATATATATAGTTCATATGTA
1 AACTATAGTTTATATATATAGTTCATATGTA
4396744 AACTATTTAGTTTATATATATAGTTCATATGTA
1 AACTA--TAGTTTATATATATAGTTCATATGTA
*
4396777 AACTATAGTTCATAT
1 AACTATAGTTTATAT
4396792 GTAAATATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
29 5 0.12
31 12 0.28
33 26 0.60
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (31 bp):
AACTATAGTTTATATATATAGTTCATATGTA
Found at i:4396927 original size:133 final size:133
Alignment explanation
Indices: 4396508--4396996 Score: 453
Period size: 133 Copynumber: 3.8 Consensus size: 133
4396498 GTATATAAAT
* * *
4396508 TATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAG--TATA--T--A-TAT
1 TATATAGTTCATATGTAAAATATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT
* *
4396566 AGTTCA-TATGTAAACTATATAGTTTATA--T--A-TATAGTTCATATGTAAACTATAGTTCATA
66 AGTT-AGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATAT-AA--ATA--TCA-A
*
4396625 -TATA-AATA
124 CTATAGCATA
* * * *
4396633 TCAACTATAGTTTATATGTAAACTATAGTT-AGTATAT-AA-A-CTA-TATAGTTTATATGTAAA
1 T--A-TATAGTTCATATGTAAAATATAGTTCA-TATGTAAATATCAACTATAGTTTATATGTAAA
* * *
4396693 CTATAGTTCA-TATATAAA-TATCA-A--CTATA-GTATATA-TATAGTTCATATGTAAACTATT
62 CTATAGTT-AGTATATAAACTAT-ATAGTTTATATGTA-A-ACTATAGTTCATATATAAA-TATC
* * *
4396751 TAGT-T--TATA
122 AACTATAGCATA
* *
4396760 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAACCTAT
1 TATATAGTTCATATGTAAAATATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT
4396825 AGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGC
66 AGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGC
4396890 ATA
131 ATA
*
4396893 TATATAGTTCATATGTAAAATATATTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT
1 TATATAGTTCATATGTAAAATATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT
4396958 AGTTAGTATATAAACTATATAGTTTATATGTAAACTATA
66 AGTTAGTATATAAACTATATAGTTTATATGTAAACTATA
4396997 TAGTTTATAT
Statistics
Matches: 311, Mismatches: 19, Indels: 60
0.80 0.05 0.15
Matches are distributed among these distances:
124 33 0.11
125 7 0.02
126 6 0.02
127 11 0.04
128 70 0.23
129 7 0.02
130 12 0.04
131 41 0.13
132 5 0.02
133 119 0.38
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (133 bp):
TATATAGTTCATATGTAAAATATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTAT
AGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGC
ATA
Found at i:4397020 original size:33 final size:33
Alignment explanation
Indices: 4396937--4397077 Score: 137
Period size: 33 Copynumber: 4.2 Consensus size: 33
4396927 AAATATCAAC
*
4396937 TATAGTTTATATGTAAACTATAGTTAGTATATAAACTA
1 TATAGTTTATATGTAAACTATA--TAGT-T-TATA-TA
4396975 TATAGTTTATATGTAAACTATATAGTTTATATA
1 TATAGTTTATATGTAAACTATATAGTTTATATA
* *
4397008 TATAGTTCATATGTAAACTATA-A-TTCATATA
1 TATAGTTTATATGTAAACTATATAGTTTATATA
* *
4397039 TATAGTATATAAATTTAAAC--TATAGTTTATATA
1 TATAGT-T-TATATGTAAACTATATAGTTTATATA
*
4397072 AATAGT
1 TATAGT
4397078 ATAAAATATA
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
31 15 0.16
32 3 0.03
33 43 0.47
34 3 0.03
35 1 0.01
36 4 0.04
38 22 0.24
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.44
Consensus pattern (33 bp):
TATAGTTTATATGTAAACTATATAGTTTATATA
Found at i:4397034 original size:18 final size:18
Alignment explanation
Indices: 4396301--4397037 Score: 260
Period size: 18 Copynumber: 39.8 Consensus size: 18
4396291 TGTAAATATC
*
4396301 AACTATAGTTTATATGTA
1 AACTATAGTTCATATGTA
* *
4396319 AACTACAGTT-AGTATATA
1 AACTATAGTTCA-TATGTA
*
4396337 AACTATATAGTTTATATGTA
1 AAC--TATAGTTCATATGTA
*
4396357 AACTATAGTTCATATATA
1 AACTATAGTTCATATGTA
**
4396375 AA-TATCAACT-ATA-GTA
1 AACTAT-AGTTCATATGTA
4396391 TATA-TATAGAGTTCATATGTA
1 -A-ACTAT--AGTTCATATGTA
4396412 AACTATATAGTT--TA--TA
1 AAC--TATAGTTCATATGTA
* *
4396428 TA-TACAGTTCATATGTA
1 AACTATAGTTCATATGTA
* *
4396445 AAGTATAATTCATATGTAAATA
1 AACTATAGTTCATATG----TA
*
4396467 TCAACTATAGTTTATATGTA
1 --AACTATAGTTCATATGTA
*
4396487 AACTATAGTT-AGTATATA
1 AACTATAGTTCA-TATGTA
* *
4396505 AATTATATAGTTTATATGTA
1 AA--CTATAGTTCATATGTA
*
4396525 AACTATAGTTCATATATA
1 AACTATAGTTCATATGTA
**
4396543 AA-TATCAACT-ATA-GTA
1 AACTAT-AGTTCATATGTA
4396559 TATA-TATAGTTCATATGTA
1 -A-ACTATAGTTCATATGTA
4396578 AACTATATAGTT--TA--TA
1 AAC--TATAGTTCATATGTA
*
4396594 TA-TATAGTTCATATGTA
1 AACTATAGTTCATATGTA
*
4396611 AACTATAGTTCATATATAAATA
1 AACTATAGTTC--ATAT--GTA
*
4396633 TCAACTATAGTTTATATGTA
1 --AACTATAGTTCATATGTA
*
4396653 AACTATAGTT-AGTATATA
1 AACTATAGTTCA-TATGTA
*
4396671 AACTATATAGTTTATATGTA
1 AAC--TATAGTTCATATGTA
*
4396691 AACTATAGTTCATATATA
1 AACTATAGTTCATATGTA
**
4396709 AA-TATCAACT-ATA-GTA
1 AACTAT-AGTTCATATGTA
4396725 TATA-TATAGTTCATATGTA
1 -A-ACTATAGTTCATATGTA
4396744 AACTATTTAGTT--TA--TA
1 AACTA--TAGTTCATATGTA
*
4396760 TA-TATAGTTCATATGTA
1 AACTATAGTTCATATGTA
4396777 AACTATAGTTCATATGTAAATA
1 AACTATAGTTCATATG----TA
*
4396799 TCAACTATAGTTTATATGTA
1 --AACTATAGTTCATATGTA
* *
4396819 ACCTATAGTT-AGTATATA
1 AACTATAGTTCA-TATGTA
*
4396837 AACTATATAGTTTATATGTA
1 AAC--TATAGTTCATATGTA
*
4396857 AACTATAGTTCATATATA
1 AACTATAGTTCATATGTA
**
4396875 AA-TATCAACT-ATA-GCATA
1 AACTAT-AGTTCATATG--TA
*
4396893 TA-TATAGTTCATATGTA
1 AACTATAGTTCATATGTA
* *
4396910 AAATATATTTCATATGTAAATA
1 AACTATAGTTCATATG----TA
*
4396932 TCAACTATAGTTTATATGTA
1 --AACTATAGTTCATATGTA
*
4396952 AACTATAGTT-AGTATATA
1 AACTATAGTTCA-TATGTA
*
4396970 AACTATATAGTTTATATGTA
1 AAC--TATAGTTCATATGTA
4396990 AACTATATAGTT--TA--TA
1 AAC--TATAGTTCATATGTA
*
4397006 TA-TATAGTTCATATGTA
1 AACTATAGTTCATATGTA
*
4397023 AACTATAATTCATAT
1 AACTATAGTTCATAT
4397038 ATATAGTATA
Statistics
Matches: 554, Mismatches: 70, Indels: 190
0.68 0.09 0.23
Matches are distributed among these distances:
13 25 0.05
15 10 0.02
16 18 0.03
17 55 0.10
18 248 0.45
19 10 0.02
20 114 0.21
21 8 0.01
22 15 0.03
24 51 0.09
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (18 bp):
AACTATAGTTCATATGTA
Found at i:4397062 original size:20 final size:20
Alignment explanation
Indices: 4397038--4397111 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
4397028 TAATTCATAT
4397038 ATATAGTATATAAATTTAAA
1 ATATAGTATATAAATTTAAA
*
4397058 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAAT--T-TAAA
*
4397083 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATTTAAA
*
4397103 TTATAGTAT
1 ATATAGTAT
4397112 GTAGTTTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 17 0.38
22 9 0.20
23 9 0.20
24 1 0.02
25 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (20 bp):
ATATAGTATATAAATTTAAA
Found at i:4397099 original size:13 final size:13
Alignment explanation
Indices: 4397054--4397100 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4397044 TATATAAATT
*
4397054 TAAACTATAGTTTA
1 TAAA-TATAGTATA
4397068 TATAA-ATAGTATA
1 TA-AATATAGTATA
4397081 -AAATATAGTATA
1 TAAATATAGTATA
4397093 TAAATATA
1 TAAATATA
4397101 AATTATAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.07
12 9 0.31
13 14 0.48
14 2 0.07
15 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
TAAATATAGTATA
Found at i:4397393 original size:50 final size:50
Alignment explanation
Indices: 4397334--4397433 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
4397324 TTTTATTTGT
*
4397334 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTTCATCTGAAA
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
*
4397384 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAA
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
4397434 TTGACCCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (50 bp):
AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
Found at i:4397628 original size:265 final size:265
Alignment explanation
Indices: 4397122--4397648 Score: 912
Period size: 265 Copynumber: 2.0 Consensus size: 265
4397112 GTAGTTTATA
*
4397122 TCATATTTGTCCAATTTAATCCTCCAAATTTTATTTGCATATAAAATTGACCCCTACTTATTACT
1 TCATATTTGTCCAATTTAATCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTATTACT
* *
4397187 TTTTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
66 TATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGTATTA
4397252 ATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAATTTA
131 ATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAATTTA
* *
4397317 TTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTTCATCTGA
196 TTTAAATTTTTATTTGGAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCT-A
4397382 AAAATT
260 AAAATT
* * * * *
4397388 TCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACT
1 TCATATTTGTCCAATTTAATCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTATTACT
4397453 TATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTAC-TTTTTGTATTA
66 TATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGTATTA
* ** *
4397517 ATTTCAACCTCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTGATTTA
131 ATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAATTTA
4397582 TTTAAATTTTTATTTGGAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAA
196 TTTAAATTTTTATTTGGAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAA
4397647 AA
261 AA
4397649 TTGACCTATA
Statistics
Matches: 247, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
264 4 0.02
265 133 0.54
266 110 0.45
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (265 bp):
TCATATTTGTCCAATTTAATCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTATTACT
TATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGTATTA
ATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAATTTA
TTTAAATTTTTATTTGGAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAA
AAATT
Found at i:4397687 original size:215 final size:216
Alignment explanation
Indices: 4397384--4397836 Score: 770
Period size: 215 Copynumber: 2.1 Consensus size: 216
4397374 TCATCTGAAA
* * *
4397384 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTAT
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTGAT
4397449 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATG-GATATAATTTAGTAC-TTTTTG
66 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGAG-TATAATTTAGTACTTTTTTG
*
4397512 TATTAATTTCAACCTCACAATTTAAAATTATTTTGATTTGATCCCT-CATCAATGTGTGTTGTTT
130 TATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGAT-CCTACATCAATGTGTGTTGTTT
*
4397576 GATTT-ATTTAAATTTTTATTTGG
194 AATTTAATTT-AATTTTTATTTGG
*
4397599 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCTATACTGAT
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTGAT
4397664 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTTTTTGT
66 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTTTTTGT
4397729 ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCTACATCAATGTGTGTTGTTTAA
131 ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCTACATCAATGTGTGTTGTTTAA
*
4397794 TTTAATTTAATTTTTATTTGT
196 TTTAATTTAATTTTTATTTGG
* *
4397815 AATTTAATATTTGCTCAATTTA
1 AATTTCATATTTGTTCAATTTA
4397837 ATTCTTAATT
Statistics
Matches: 225, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
215 119 0.53
216 102 0.45
217 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.50
Consensus pattern (216 bp):
AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTAAAATTGACCCATACTGAT
TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTTTTTTGT
ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCTACATCAATGTGTGTTGTTTAA
TTTAATTTAATTTTTATTTGG
Found at i:4407509 original size:84 final size:84
Alignment explanation
Indices: 4407260--4407697 Score: 384
Period size: 84 Copynumber: 5.2 Consensus size: 84
4407250 ATGTTGGTAT
* ** * * * * * * *
4407260 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAGATGTGTCTTTAAGCTGAGTGTAA--GAACTC
1 ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAATATAATCAAACTC
*
4407323 AAAAGGTCTTTTGTTAACAG
66 -AAAGGTCTTTTGTTGACAG
* * * * *
4407343 ATAACCCTTCTAGCCTTGAGTTTTGCTATAAATGACGTGCCTTGGAGCTGAATGA-AATCGAATC
1 ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAAT-ATAATC-AAAC
* *
4407407 TCAAAGGT-ATTTGATGACAG
64 TCAAAGGTCTTTTGTTGACAG
* * * * * * ** *
4407427 ATAGCTCTTCTCGCCTTGAGTTTTACTGCAAATGATGTGCCTTTGAGCTGAATATAATTGAACTT
1 ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAATATAATCAAACTC
* *
4407492 GAAGGTCTTTTATTGACAG
66 AAAGGTCTTTTGTTGACAG
* * * *** *
4407511 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTAGAGCTGAGCGTAGTCAAACTC
1 ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAATATAATCAAACTC
* *
4407576 AAAGGTCTTTGGTTGGCAG
66 AAAGGTCTTTTGTTGACAG
* * * * * *
4407595 ATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCC-TTGAGCTGAGTATAATCAAACTC
1 ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAATATAATCAAACTC
*
4407659 GAAGGTCTTTTGTT-AGCAG
66 AAAGGTCTTTTGTTGA-CAG
*
4407678 ATAACCCTTCTTGCCTTGAG
1 ATAACCCTTCTAGCCTTGAG
4407698 CTAAGCTGCA
Statistics
Matches: 283, Mismatches: 65, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
83 107 0.38
84 166 0.59
85 6 0.02
86 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (84 bp):
ATAACCCTTCTAGCCTTGAGTTATACTACAAATGACGTGCCTTTGAGCTGAATATAATCAAACTC
AAAGGTCTTTTGTTGACAG
Found at i:4407696 original size:167 final size:168
Alignment explanation
Indices: 4407325--4407712 Score: 485
Period size: 168 Copynumber: 2.3 Consensus size: 168
4407315 AAGAACTCAA
* * ** *
4407325 AAGGTCTTTTGTTAACAGATAACCCTTCTAGCCTTGAGTTTTGCTATAAATGACGTGCCTTGGAG
1 AAGGTCTTTTGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTAGAG
* * * * * * * * *
4407390 CTGAATGAAATCGAATCTCAAAGGTATTTGATGACAGATAGCTCTTCTCGCCTTGAGTTTTACTG
66 CTGAACGAAATCGAAACTCAAAGGTATTTGATGACAGATAACCCTTCTCGACTTAAGCTATACTA
** *
4407455 CAAATGATGTGCCTTTGAGCTGAATATAATTGAACTTG
131 CAAATGATGTGCCTTTGAGCTGAATATAATCAAACTCG
*
4407493 AAGGTCTTTTATT-GACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTAGA
1 AAGGTCTTTTGTTAG-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTAGA
* * * * * *
4407557 GCTGAGCGTAGTC-AAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATAC
65 GCTGAACGAAATCGAAACTCAAAGGTATTT-GATGACAGATAACCCTTCTCGACTTAAGCTATAC
*
4407621 TACAAATGATGTGCC-TTGAGCTGAGTATAATCAAACTCG
129 TACAAATGATGTGCCTTTGAGCTGAATATAATCAAACTCG
* * *
4407660 AAGGTCTTTTGTTAGCAGATAACCCTTCTTGCCTTGAGCTAAGCTGCAAATGA
1 AAGGTCTTTTGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
4407713 GCACGATATC
Statistics
Matches: 188, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
167 81 0.43
168 107 0.57
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (168 bp):
AAGGTCTTTTGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTAGAG
CTGAACGAAATCGAAACTCAAAGGTATTTGATGACAGATAACCCTTCTCGACTTAAGCTATACTA
CAAATGATGTGCCTTTGAGCTGAATATAATCAAACTCG
Found at i:4408116 original size:43 final size:44
Alignment explanation
Indices: 4408068--4408178 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 44
4408058 CGATTCCCTT
* * *
4408068 CGTCATGAAGTTGAAACCGTGGATGT-GTGGGCATGATATCCTC
1 CGTCATGGAGTTGAAATCGTGGATGTCGTGGGCACGATATCCTC
* * *
4408111 CGTCATGGAGTTAAAATCATGGAT-TCGTGGGTACGATATCCTC
1 CGTCATGGAGTTGAAATCGTGGATGTCGTGGGCACGATATCCTC
* *
4408154 CGTCGTGGAGTTGAAATTGTGGATG
1 CGTCATGGAGTTGAAATCGTGGATG
4408179 GCCCATTCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (44 bp):
CGTCATGGAGTTGAAATCGTGGATGTCGTGGGCACGATATCCTC
Found at i:4408449 original size:43 final size:43
Alignment explanation
Indices: 4408408--4408547 Score: 181
Period size: 43 Copynumber: 3.3 Consensus size: 43
4408398 TTCGTTGTGA
* * * * * * *
4408408 AGTTGAAACCGTGAATGTATGGGCACGATATCCTCCATTGTGG
1 AGTTAAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
* *
4408451 AGTTAAAATCGTGGATCTGTTGGTACGATATCCTCCGTCGTGG
1 AGTTAAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
*
4408494 AGTTAAAATTGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
1 AGTTAAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
*
4408537 AGTTGAAATCG
1 AGTTAAAATCG
4408548 CAGATGACCC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
AGTTAAAATCGTGGATGTGTGGGTACGATATCCTCCGTCGTGG
Found at i:4408872 original size:63 final size:64
Alignment explanation
Indices: 4408718--4408874 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 64
4408708 GAGCAAATTG
* * * *
4408718 TGAGCTCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGCTTGT
1 TGAGCACAAGATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGCTTAT
* * * * * *
4408782 TGAGTACAATATCCTTCGGTGTGAAGTTGAAATTGACTCTGGATGAAA-TTGAAAAGTTGTTTAT
1 TGAGCACAAGATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAA-TTGCTTAT
* * *
4408846 TGA-CAGACGCTCCTTCGCTGTGAAGTTGA
1 TGAGCACAAGATCCTTCGCTGTGAAGTTGA
4408875 GCACCCACCA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
63 26 0.33
64 53 0.67
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (64 bp):
TGAGCACAAGATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGCTTAT
Found at i:4409179 original size:32 final size:32
Alignment explanation
Indices: 4409105--4409193 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
4409095 TTGTATCAGG
* * *
4409105 ATGTTGAATCCCCAAATATGCCACAATATTCA
1 ATGTTGAATCTCCAAATATGCCCCAACATTCA
*
4409137 ATGTTGAATCTCCAAATATGCCCCAACATTTA
1 ATGTTGAATCTCCAAATATGCCCCAACATTCA
* ** *
4409169 CTGTTGAATCTTTAAAGATGCCCCA
1 ATGTTGAATCTCCAAATATGCCCCA
4409194 TTATTCCTCA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATGCCCCAACATTCA
Found at i:4409346 original size:23 final size:23
Alignment explanation
Indices: 4409320--4409387 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
4409310 CTTCTTCTTT
4409320 TATTTTCAAAAGTTTTGAAAATG
1 TATTTTCAAAAGTTTTGAAAATG
** *
4409343 TA-TTAGAAGAGTTTTGAAAAATG
1 TATTTTCAAAAGTTTTG-AAAATG
*
4409366 T-TTAATCAAAAGTTTTGAAAAT
1 TATT-TTCAAAAGTTTTGAAAAT
4409388 ATTGCCCCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 11 0.31
23 15 0.43
24 9 0.26
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (23 bp):
TATTTTCAAAAGTTTTGAAAATG
Found at i:4412958 original size:144 final size:145
Alignment explanation
Indices: 4412779--4413067 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 145
4412769 CAGTTAGTAC
4412779 AACTATTTACTTGGAAAAAAAATAATCAAAGATAAATAATTGGAATCGAATAAATAAATTAAAAT
1 AACTATTTACTTGGAAAAAAAATAATCAAAGATAAATAATTGGAATCGAATAAATAAATTAAAAT
4412844 TTAAACTTGTAATTTTCGCTAAAAAAGACAAACGAAAATTAATTATGGCCTGACTCACTTACCTA
66 TTAAACTTGTAATTTTCGCTAAAAAAGACAAACGAAAATTAATTATGGCCTGACTCACTTACCTA
4412909 TTCCCAGCGGAGTCG
131 TTCCCAGCGGAGTCG
4412924 AACTATTTACTTGG-AAAAAAATAATCAAAGATAAATAATTGGAATCGAATAAATAAATTAAAAT
1 AACTATTTACTTGGAAAAAAAATAATCAAAGATAAATAATTGGAATCGAATAAATAAATTAAAAT
4412988 TTAAACTTGTAATTTTCGCTAAAAAAGACAAACGAAAATTAATTATGGCCTGACTCACTTACCTA
66 TTAAACTTGTAATTTTCGCTAAAAAAGACAAACGAAAATTAATTATGGCCTGACTCACTTACCTA
4413053 TTCCCAGCGGAGTCG
131 TTCCCAGCGGAGTCG
4413068 CCAAGCTGTC
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 130 0.90
145 14 0.10
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (145 bp):
AACTATTTACTTGGAAAAAAAATAATCAAAGATAAATAATTGGAATCGAATAAATAAATTAAAAT
TTAAACTTGTAATTTTCGCTAAAAAAGACAAACGAAAATTAATTATGGCCTGACTCACTTACCTA
TTCCCAGCGGAGTCG
Found at i:4421496 original size:43 final size:42
Alignment explanation
Indices: 4421443--4421599 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
4421433 GCTTATATTG
* *
4421443 TAAAAGTAAAATGTGAGATTGAAAAAATTAGGAGTTTCAGTTA
1 TAAAAGTAAAAAGTGAGATTGAAAAAATTAGG-GTTTCAATTA
* * * *
4421486 TAAAGGTAAAAAGTTAGCTT-----AATTAGGGGCTTCAATTA
1 TAAAAGTAAAAAGTGAGATTGAAAAAATTA-GGGTTTCAATTA
* * *
4421524 TAAAAGTAGAAAA-TGAGATTGAAAAAAATTAAGGTCTCATTTA
1 TAAAAGTA-AAAAGTGAGATTG-AAAAAATTAGGGTTTCAATTA
4421567 T-AAAGATAAAAAGTGAGATTGAAAAAATTAGGG
1 TAAAAG-TAAAAAGTGAGATTGAAAAAATTAGGG
4421600 GCCTTGAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
38 25 0.28
39 6 0.07
42 19 0.21
43 35 0.39
44 5 0.06
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (42 bp):
TAAAAGTAAAAAGTGAGATTGAAAAAATTAGGGTTTCAATTA
Found at i:4421642 original size:93 final size:95
Alignment explanation
Indices: 4421520--4421778 Score: 300
Period size: 93 Copynumber: 2.8 Consensus size: 95
4421510 AGGGGCTTCA
* * ** *
4421520 ATTATAAAAGTAGAAAA-TGAGATTGAAAAAAATTA-AGGTCTCATTTATAAAGATAAAAAGTGA
1 ATTATAAATGTA-AAAAGTGAGATTTAAAAAAATTAGAGACCTCAATTATAAAGATAAAAAGTGA
* * * *
4421583 GATT-GAAAAAATTAGGGGCCTTGAATCTCG
65 AATTAAAAAAAATTAAGGACCTTGAATCTCG
* * *
4421613 ATTATAAATGTAAAAAGTGGGATTT--AAAAATTAGAGACCTTAATTATAAAGGTAAAAAGTGAA
1 ATTATAAATGTAAAAAGTGAGATTTAAAAAAATTAGAGACCTCAATTATAAAGATAAAAAGTGAA
4421676 ATTAAAAAAAATTAAGGACCTTGAATCTCG
66 ATTAAAAAAAATTAAGGACCTTGAATCTCG
* * *
4421706 ATTATAAATGTAAAAAGTGAGATTT--AAAAATTAGGGACCTTAATTATAAAGGTAAAAAGTTG-
1 ATTATAAATGTAAAAAGTGAGATTTAAAAAAATTAGAGACCTCAATTATAAAGATAAAAAG-TGA
*
4421768 TATTAAAAAAA
65 AATTAAAAAAA
4421779 TTAGGTGCTT
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
91 8 0.05
92 30 0.20
93 107 0.73
94 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.28
Consensus pattern (95 bp):
ATTATAAATGTAAAAAGTGAGATTTAAAAAAATTAGAGACCTCAATTATAAAGATAAAAAGTGAA
ATTAAAAAAAATTAAGGACCTTGAATCTCG
Found at i:4421660 original size:42 final size:42
Alignment explanation
Indices: 4421613--4421848 Score: 158
Period size: 42 Copynumber: 5.4 Consensus size: 42
4421603 TTGAATCTCG
* *
4421613 ATTATAAATGTAAAAAGTGGGATTTAAAAATTAGAGACCTTA
1 ATTATAAAGGTAAAAAGTGAGATTTAAAAATTAGAGACCTTA
* *
4421655 ATTATAAAGGTAAAAAGTGAAATTAAAAAAAATTA-AGGACCTTGAA
1 ATTATAAAGGTAAAAAGTGAGATT--TAAAAATTAGA-GACCTT--A
* *
4421701 TCTCGATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGACCTTA
1 -----ATTATAAAGGTAAAAAGTGAGATTTAAAAATTAGAGACCTTA
* * **
4421748 ATTATAAAGGTAAAAAGTTG-TATTAAAAAAATTAG-GTGCTTCA
1 ATTATAAAGGTAAAAAG-TGAGATT-TAAAAATTAGAGACCTT-A
* * *
4421791 ATCATAAAGGTAAAACA-TGAGA-TTACAGAAATTAGGGACTTTA
1 ATTATAAAGGTAAAA-AGTGAGATTTA-A-AAATTAGAGACCTTA
* *
4421834 GTTATAAAGATAAAA
1 ATTATAAAGGTAAAA
4421849 TACAAAATTG
Statistics
Matches: 153, Mismatches: 22, Indels: 37
0.72 0.10 0.17
Matches are distributed among these distances:
41 1 0.01
42 48 0.31
43 48 0.31
44 18 0.12
46 1 0.01
47 1 0.01
49 14 0.09
51 22 0.14
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (42 bp):
ATTATAAAGGTAAAAAGTGAGATTTAAAAATTAGAGACCTTA
Found at i:4421669 original size:92 final size:92
Alignment explanation
Indices: 4421564--4421783 Score: 343
Period size: 93 Copynumber: 2.4 Consensus size: 92
4421554 AAGGTCTCAT
* * * *
4421564 TTATAAAGATAAAAAGTGAGATTGAAAAAATTAGGGGCCTTGAATCTCGATTATAAATGTAAAAA
1 TTATAAAGGTAAAAAGTGAAATTAAAAAAATTAGGGACCTTGAATCTCGATTATAAATGTAAAAA
*
4421629 GTGGGATTTAAAAATTAGAGACCTTAA
66 GTGAGATTTAAAAATTAGAGACCTTAA
*
4421656 TTATAAAGGTAAAAAGTGAAATTAAAAAAAATTAAGGACCTTGAATCTCGATTATAAATGTAAAA
1 TTATAAAGGTAAAAAGTGAAATT-AAAAAAATTAGGGACCTTGAATCTCGATTATAAATGTAAAA
*
4421721 AGTGAGATTTAAAAATTAGGGACCTTAA
65 AGTGAGATTTAAAAATTAGAGACCTTAA
*
4421749 TTATAAAGGTAAAAAGTTG-TATTAAAAAAATTAGG
1 TTATAAAGGTAAAAAG-TGAAATTAAAAAAATTAGG
4421784 TGCTTCAATC
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
92 32 0.27
93 83 0.71
94 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (92 bp):
TTATAAAGGTAAAAAGTGAAATTAAAAAAATTAGGGACCTTGAATCTCGATTATAAATGTAAAAA
GTGAGATTTAAAAATTAGAGACCTTAA
Found at i:4421841 original size:43 final size:41
Alignment explanation
Indices: 4421706--4421848 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 41
4421696 TTGAATCTCG
* *
4421706 ATTATAAATGTAAAAAGTGAGATTTAAAAATTAGGGACCTTA
1 ATTATAAAGGTAAAAAGTGAGA-TTAAAAATTAGGGACTTTA
* *
4421748 ATTATAAAGGTAAAAAGTTG-TATTAAAAAAATTAGGTG-CTTCA
1 ATTATAAAGGTAAAAAG-TGAGATT--AAAAATTAGG-GACTTTA
*
4421791 ATCATAAAGGTAAAACA-TGAGATTACAGAAATTAGGGACTTTA
1 ATTATAAAGGTAAAA-AGTGAGATTA-A-AAATTAGGGACTTTA
* *
4421834 GTTATAAAGATAAAA
1 ATTATAAAGGTAAAA
4421849 TACAAAATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
41 3 0.04
42 21 0.26
43 56 0.68
44 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (41 bp):
ATTATAAAGGTAAAAAGTGAGATTAAAAATTAGGGACTTTA
Found at i:4435191 original size:54 final size:54
Alignment explanation
Indices: 4435107--4435229 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
4435097 GTACCCCCTT
* ** *
4435107 GGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCAAAACTGTTTA
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCAAAACCATTCA
* *
4435160 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCAAACCATTCA
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCAAAACCATTCA
*
4435214 GGGGGGAATCAGTTCC
1 GGGGGGAATCGGTTCC
4435230 TCCTATGGGG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 6 0.10
54 56 0.90
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.22
Consensus pattern (54 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCAAAACCATTCA
Found at i:4435870 original size:15 final size:15
Alignment explanation
Indices: 4435850--4435891 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
4435840 ACCATTCATA
*
4435850 AATCCAAAATCCAAC
1 AATCCAAAATCAAAC
4435865 AATCCACAAAATCAAAC
1 AAT-C-CAAAATCAAAC
4435882 AATCCAAAAT
1 AATCCAAAAT
4435892 GTTGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 13 0.54
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (15 bp):
AATCCAAAATCAAAC
Found at i:4435876 original size:17 final size:17
Alignment explanation
Indices: 4435854--4435887 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4435844 TTCATAAATC
*
4435854 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
4435871 CAAAATCAAACAATCCA
1 CAAAATCAAACAATCCA
4435888 AAATGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:4437847 original size:21 final size:21
Alignment explanation
Indices: 4437821--4437860 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4437811 CAGAACCCCA
*
4437821 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4437842 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4437861 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Done.