Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 203 of 318
Found at i:64075880 original size:38 final size:38
Alignment explanation
Indices: 64075829--64075902 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
64075819 ATAAAGTTAA
*
64075829 TTTCACATATCACTGTTATATCTTTTGTGTTTTTGTAT
1 TTTCACATATCACTATTATATCTTTTGTGTTTTTGTAT
*
64075867 TTTCACATTTCACTATTATATCTTTTGTGTTTTTGT
1 TTTCACATATCACTATTATATCTTTTGTGTTTTTGT
64075903 CTTTCATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (38 bp):
TTTCACATATCACTATTATATCTTTTGTGTTTTTGTAT
Found at i:64078670 original size:53 final size:55
Alignment explanation
Indices: 64078550--64078694 Score: 206
Period size: 53 Copynumber: 2.7 Consensus size: 55
64078540 GCAAGGAAAT
* *
64078550 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGCAAAGGTAC
* * *
64078605 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGCTAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGCAAAGG-TAC
*
64078658 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
64078695 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 4 0.05
53 42 0.52
54 1 0.01
55 33 0.41
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGCAAAGGTAC
Found at i:64078954 original size:16 final size:16
Alignment explanation
Indices: 64078933--64078963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64078923 ATAAATTTGA
64078933 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
64078949 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
64078964 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:64081069 original size:12 final size:12
Alignment explanation
Indices: 64081052--64081090 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
64081042 GTTATTAATA
64081052 TAATTTAGTTCT
1 TAATTTAGTTCT
64081064 TAATTTAGTTC-
1 TAATTTAGTTCT
64081075 TAATTT-GTT-T
1 TAATTTAGTTCT
64081085 TAATTT
1 TAATTT
64081091 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:64081927 original size:21 final size:21
Alignment explanation
Indices: 64081901--64081940 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
64081891 TGAATGCTAG
64081901 GTTGATCAAATTCTCATCATA
1 GTTGATCAAATTCTCATCATA
64081922 GTTGATCAAATTCTCATCA
1 GTTGATCAAATTCTCATCA
64081941 CAAAGGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
GTTGATCAAATTCTCATCATA
Found at i:64089496 original size:25 final size:25
Alignment explanation
Indices: 64089451--64089500 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
64089441 TCTTGTTTTA
* *
64089451 GTATTTGTTTTTTATGTTTTTAAAT
1 GTATTTGTTTATTATGATTTTAAAT
64089476 GTATTTGATTTATTAT-ATTTTAAAT
1 GTATTTG-TTTATTATGATTTTAAAT
64089501 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (25 bp):
GTATTTGTTTATTATGATTTTAAAT
Found at i:64092859 original size:32 final size:32
Alignment explanation
Indices: 64092823--64092884 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
64092813 AGAATGATAG
64092823 TTTGATAATTTTTAATTATTAGTGTTTAATAA
1 TTTGATAATTTTTAATTATTAGTGTTTAATAA
64092855 TTTGATAATTTTTAATTATTAGTGTTTAAT
1 TTTGATAATTTTTAATTATTAGTGTTTAAT
64092885 TAAGTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTGATAATTTTTAATTATTAGTGTTTAATAA
Found at i:64094248 original size:47 final size:47
Alignment explanation
Indices: 64094194--64094510 Score: 463
Period size: 47 Copynumber: 6.6 Consensus size: 47
64094184 TATTTGAATA
64094194 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64094241 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64094292 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64094339 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64094390 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
64094437 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
64094484 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64094511 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
47 155 0.63
51 91 0.37
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:64094266 original size:51 final size:51
Alignment explanation
Indices: 64094206--64094455 Score: 417
Period size: 51 Copynumber: 5.1 Consensus size: 51
64094196 TGTGAAAGTG
64094206 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
64094257 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64094304 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
64094355 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG----
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64094402 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64094453 TAT
1 TAT
64094456 GTGACAGGGC
Statistics
Matches: 185, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
47 91 0.49
51 94 0.51
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (51 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:64094304 original size:98 final size:98
Alignment explanation
Indices: 64094194--64094510 Score: 516
Period size: 98 Copynumber: 3.3 Consensus size: 98
64094184 TATTTGAATA
64094194 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
64094259 TATATGTGATAAGGCCTAATGGCCGACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
64094292 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
64094357 TATATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
64094390 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
64094451 TATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATATGTGATAAGGCCTAATGGCCGACGTGATG
* *
64094484 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64094511 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 53 0.25
98 155 0.75
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (98 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATG
Found at i:64094685 original size:37 final size:37
Alignment explanation
Indices: 64094629--64094707 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
64094619 CCGAGCTCTA
* *
64094629 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
64094666 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
64094703 AAGAC
1 AAGAC
64094708 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:64105295 original size:30 final size:30
Alignment explanation
Indices: 64105255--64105315 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
64105245 ATATTCAGAT
*
64105255 ACAGTTATGTTTCCCTGTTTGAGCTCTAAA
1 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
64105285 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
1 ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
64105315 A
1 A
64105316 ATTCTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (30 bp):
ACAGTCATGTTTCCCTGTTTGAGCTCTAAA
Found at i:64132285 original size:38 final size:38
Alignment explanation
Indices: 64132234--64132394 Score: 173
Period size: 38 Copynumber: 4.2 Consensus size: 38
64132224 GCAAGCTATA
*
64132234 TGCTGG-AATTATATCTGGGTTAAATCTCC-TAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATC-CCGTAGGCTTCG
*
64132272 TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTGG
1 TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCG
* * * *
64132310 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCG
* * * * *
64132348 TGCTGATATTATATCTGAGTTTAAAGTCTCGTAGGCTTCG
1 TGCTGGTAATATATCCG-GGTTAAA-TCCCGTAGGCTTCG
64132388 TGCTGGT
1 TGCTGGT
64132395 GTTATGTTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.02
38 79 0.75
39 8 0.08
40 16 0.15
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCG
Found at i:64132324 original size:76 final size:78
Alignment explanation
Indices: 64132234--64132431 Score: 195
Period size: 76 Copynumber: 2.5 Consensus size: 78
64132224 GCAAGCTATA
* * * * *
64132234 TGCTGGAATTATATCTGGGTTAAATCTCC-TAGGCTTCGTGCTGGTAATATATCCG-GGTTAAA-
1 TGCTGGTATTATATCTGGGTTAAATC-CCGCAGGCCTAGTGCTGATAATATATCCGAGGTTAAAG
*
64132296 TCCCGTAGGCTTGG
65 TCCCGTAGGCTTCG
* * * *
64132310 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGATATTATATCTGAGTTTAAAGT
1 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGATAATATATCCGAGGTTAAAGT
*
64132375 CTCGTAGGCTTCG
66 CCCGTAGGCTTCG
* * * ** *
64132388 TGCTGGTGTTATGTTTGGGTTTTATACCTCGCAGGCCAAGTGCT
1 TGCTGGTATTATATCTGGGTTAAAT-CC-CGCAGGCCTAGTGCT
64132432 AGTGAATTTG
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
75 2 0.02
76 44 0.44
77 6 0.06
78 31 0.31
79 2 0.02
80 14 0.14
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (78 bp):
TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGATAATATATCCGAGGTTAAAGT
CCCGTAGGCTTCG
Found at i:64134138 original size:12 final size:13
Alignment explanation
Indices: 64134110--64134142 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64134100 TTATCTCTTT
64134110 TTCTCCATCTACC
1 TTCTCCATCTACC
*
64134123 TTCTCC-TCTTCC
1 TTCTCCATCTACC
64134135 TTCTCCAT
1 TTCTCCAT
64134143 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:64135242 original size:28 final size:28
Alignment explanation
Indices: 64135210--64135274 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
64135200 ATTTACTAGA
*
64135210 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* * *
64135238 ATACCTCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
64135266 ATACCCCTA
1 ATACCCCTA
64135275 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64135419 original size:27 final size:29
Alignment explanation
Indices: 64135380--64135441 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
64135370 AGGAAGCGTC
* **
64135380 CTGGTGGCCCTGCCAC-GTATATCTGT-T
1 CTGGTGGCACTGCCACAAAATATCTGTAT
64135407 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGTAT
64135436 CTGGTG
1 CTGGTG
64135442 ACTATCACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 15 0.50
28 8 0.27
29 7 0.23
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (29 bp):
CTGGTGGCACTGCCACAAAATATCTGTAT
Found at i:64141937 original size:12 final size:13
Alignment explanation
Indices: 64141909--64141941 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64141899 CTTTATTCTT
64141909 TTCTCCATCTACC
1 TTCTCCATCTACC
*
64141922 TTCTCC-TCTTCC
1 TTCTCCATCTACC
64141934 TTCTCCAT
1 TTCTCCAT
64141942 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:64143022 original size:27 final size:27
Alignment explanation
Indices: 64142992--64143051 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
64142982 GATTTACTAG
*
64142992 ATACCCTATGTATGCAAAATTACCATT
1 ATACCCTATGTATGCAAAATGACCATT
* *
64143019 ATACCCTATGTGTGCAAAATGACCTTT
1 ATACCCTATGTATGCAAAATGACCATT
64143046 ATACCC
1 ATACCC
64143052 CTAGGGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (27 bp):
ATACCCTATGTATGCAAAATGACCATT
Found at i:64143204 original size:24 final size:27
Alignment explanation
Indices: 64143167--64143241 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 27
64143157 CCTGTGGCTA
*
64143167 TGCCACAATTATCTGTTCTGGTGGC-C
1 TGCCACAAATATCTGTTCTGGTGGCAC
*
64143193 TG-C-CATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTGGCAC
64143218 TGCCACAAATATCTGTATCTGGTG
1 TGCCACAAATATCTGT-TCTGGTG
64143242 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 18 0.43
25 4 0.10
26 3 0.07
27 10 0.24
28 7 0.17
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:64155742 original size:40 final size:39
Alignment explanation
Indices: 64155687--64155832 Score: 247
Period size: 40 Copynumber: 3.7 Consensus size: 39
64155677 GATGATAACG
64155687 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-TTCC
64155727 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT-ATTCC
* *
64155767 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT-TCC
64155807 GGGCTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGC
64155833 GAACTACTAT
Statistics
Matches: 102, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
39 2 0.02
40 99 0.97
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTCC
Found at i:64155833 original size:40 final size:40
Alignment explanation
Indices: 64155687--64155851 Score: 246
Period size: 40 Copynumber: 4.1 Consensus size: 40
64155677 GATGATAACG
*
64155687 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TATCC
*
64155727 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCC
*
64155767 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
*
64155807 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATATCC
64155847 GGGCT
1 GGGCT
64155852 CGTAAAATCC
Statistics
Matches: 118, Mismatches: 3, Indels: 8
0.91 0.02 0.06
Matches are distributed among these distances:
40 115 0.97
41 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
Found at i:64159363 original size:12 final size:13
Alignment explanation
Indices: 64159335--64159367 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64159325 TTATCTCTTT
64159335 TTCTCCATCTACC
1 TTCTCCATCTACC
*
64159348 TTCTCC-TCTTCC
1 TTCTCCATCTACC
64159360 TTCTCCAT
1 TTCTCCAT
64159368 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:64160466 original size:28 final size:28
Alignment explanation
Indices: 64160434--64160498 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
64160424 ATTTACTAGA
*
64160434 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
64160462 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
64160490 ATACCCCTA
1 ATACCCCTA
64160499 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64160704 original size:29 final size:28
Alignment explanation
Indices: 64160614--64160704 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
64160604 CTAGTGGCTA
* * *
64160614 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* ** *
64160642 TGCCGC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
64160669 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
64160698 TGTCACA
1 TGCCACA
64160705 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:64162129 original size:43 final size:43
Alignment explanation
Indices: 64162081--64162345 Score: 388
Period size: 43 Copynumber: 6.2 Consensus size: 43
64162071 GCATGAAACT
* *
64162081 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
64162124 CGGTGATGTGTATTCGGGCCTTTC-TGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCC-TTCGTGCCTAGCAGGCTTCGTGC
* *
64162167 CGGTGATGAGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * * *
64162210 CGGTGATGTGTATTAGAGCCTTCATGCCTAGCAGGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
64162253 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTCCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * **
64162296 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
64162339 CGGTGAT
1 CGGTGAT
64162346 TCGAGCAAGG
Statistics
Matches: 197, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 2 0.01
43 193 0.98
44 2 0.01
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:64162535 original size:54 final size:55
Alignment explanation
Indices: 64162477--64162608 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 55
64162467 ATGAATATGG
* *
64162477 GCACTATGTGTGCG-AAT-G-ATTAGAGGCACTGTGTGTGTAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAAATCGAATT-GAGGCACTGTGTGTGCAAATT-CTTCAACCGA
* *
64162531 GCACTATGTGTGCGAAATCGGTAATTGAGGCACTGTGTGTGCGAGTTCTTCAACCGA
1 GCACTATGTGTGCGAAATC-G-AATTGAGGCACTGTGTGTGCAAATTCTTCAACCGA
* *
64162588 GCACTATGTGTGTGAGATCGA
1 GCACTATGTGTGCGAAATCGA
64162609 TCAGTGGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
54 14 0.21
55 4 0.06
56 1 0.01
57 27 0.40
58 18 0.27
59 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (55 bp):
GCACTATGTGTGCGAAATCGAATTGAGGCACTGTGTGTGCAAATTCTTCAACCGA
Found at i:64162597 original size:28 final size:28
Alignment explanation
Indices: 64162524--64162599 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
64162514 TAAATTCCTT
64162524 TAACCGAGCACTATGTGTGCGAAATCGG
1 TAACCGAGCACTATGTGTGCGAAATCGG
** * ** *
64162552 TAATTGAGGCACTGTGTGTGCGAGTTC-T
1 TAACCGA-GCACTATGTGTGCGAAATCGG
64162580 TCAACCGAGCACTATGTGTG
1 T-AACCGAGCACTATGTGTG
64162600 TGAGATCGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
28 17 0.46
29 20 0.54
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (28 bp):
TAACCGAGCACTATGTGTGCGAAATCGG
Found at i:64166801 original size:38 final size:38
Alignment explanation
Indices: 64166738--64166926 Score: 195
Period size: 38 Copynumber: 4.9 Consensus size: 38
64166728 ATTTGATGTG
* * *
64166738 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTG
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
64166778 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* * *
64166816 TATCCGGGTTAAATCCCGTAGGCTTGGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* *
64166854 TATCCGGGTTAAATCCCGCAGGCCTAGTGCT-GATATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGA-ATTA
* * *
64166892 TATCTGAGTTCAAAGTCCCGTAGGCTTCGTGCTGG
1 TATCCGGGTT-AAA-TCCCGCAGGCTTCGTGCTGG
64166927 TGTTATGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
37 3 0.02
38 90 0.71
39 10 0.08
40 23 0.18
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:64166847 original size:76 final size:78
Alignment explanation
Indices: 64166767--64166926 Score: 225
Period size: 76 Copynumber: 2.1 Consensus size: 78
64166757 GCAGGCTATA
* * * * *
64166767 TGCTGGAATTGTATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTT-AAA-T
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGATAATATATCCGAGTTCAAAGT
*
64166830 CCCGTAGGCTTGG
66 CCCGTAGGCTTCG
* * *
64166843 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGATATTATATCTGAGTTCAAAGT
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGATAATATATCCGAGTTCAAAGT
64166908 CCCGTAGGCTTCG
66 CCCGTAGGCTTCG
64166921 TGCTGG
1 TGCTGG
64166927 TGTTATGTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 51 0.70
77 3 0.04
78 19 0.26
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (78 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGATAATATATCCGAGTTCAAAGT
CCCGTAGGCTTCG
Found at i:64168808 original size:40 final size:40
Alignment explanation
Indices: 64168764--64168947 Score: 237
Period size: 40 Copynumber: 4.5 Consensus size: 40
64168754 CAACAACTCG
*
64168764 GCTATGTATGGCGCTTAGTGTGCGATTCAAGATAGCTTCA
1 GCTATGTATGGCACTTAGTGTGCGATTCAAGATAGCTTCA
64168804 GCTATGTATGGCACTTAGTGTGCGATTCAAGATAGCTTCA
1 GCTATGTATGGCACTTAGTGTGCGATTCAAGATAGCTTCA
* * *
64168844 GCTATGTATGGCACTCAGTGTGCGACTCGAA-ATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGCGATTC-AAGATAGCTTCA
* * * **
64168884 GCTATGTATGGTACTTAGTGTGCGAGATT-AAAACAGCTTTG
1 GCTATGTATGGCACTTAGTGTGC--GATTCAAGATAGCTTCA
64168925 GCTATGTATTGGCACTTAGTGTG
1 GCTATGTA-TGGCACTTAGTGTG
64168948 TGAGAATTTG
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
40 96 0.74
41 17 0.13
42 16 0.12
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
GCTATGTATGGCACTTAGTGTGCGATTCAAGATAGCTTCA
Found at i:64171059 original size:42 final size:42
Alignment explanation
Indices: 64171012--64171092 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
64171002 TATTTTAACT
64171012 AAATTAACTAAATAAAAGTATCCATCTTCTCAATTTAGTACA
1 AAATTAACTAAATAAAAGTATCCATCTTCTCAATTTAGTACA
*
64171054 AAATTAACTAAATAAAAGTGTCCATCTTCTCAATTTAGT
1 AAATTAACTAAATAAAAGTATCCATCTTCTCAATTTAGT
64171093 CCCCCATAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (42 bp):
AAATTAACTAAATAAAAGTATCCATCTTCTCAATTTAGTACA
Found at i:64174571 original size:26 final size:28
Alignment explanation
Indices: 64174535--64174596 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
64174525 ATATTTTCTT
**
64174535 AAAATTTTACCA-GGG-GCAAAATAGTC
1 AAAATTTTACCATGGGTAAAAAATAGTC
*
64174561 AAAATTTTACCATGGGTAAAAAATCGTC
1 AAAATTTTACCATGGGTAAAAAATAGTC
64174589 AAAATTTT
1 AAAATTTT
64174597 GGTGGGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.39
27 3 0.10
28 16 0.52
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (28 bp):
AAAATTTTACCATGGGTAAAAAATAGTC
Found at i:64175527 original size:31 final size:31
Alignment explanation
Indices: 64175459--64175527 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
64175449 CCTAGAAGAC
* *
64175459 TATCTATTCTATGTTTGCTGTCCCAGTGGAT
1 TATCTATTCTATGTTTCCTGTCCCAGCGGAT
* * *
64175490 TGTCTATTCTATTTTTCCTGTCCCAGCGGGT
1 TATCTATTCTATGTTTCCTGTCCCAGCGGAT
64175521 TATCTAT
1 TATCTAT
64175528 ATGGATGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (31 bp):
TATCTATTCTATGTTTCCTGTCCCAGCGGAT
Found at i:64178267 original size:46 final size:44
Alignment explanation
Indices: 64178217--64178379 Score: 141
Period size: 46 Copynumber: 3.5 Consensus size: 44
64178207 GATGAGAGCT
64178217 AGTGTAAGACATGTTTGGGACATGCATCGTCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCG-CCTACGAGATGT--GCC
** * * **
64178263 AGTGTAAGACATGTCCGAGACATGCATCGGCTACGAGATGTGTT
1 AGTGTAAGACATGTTTGGGACATGCATCGCCTACGAGATGTGCC
* * *
64178307 AATGTAAGACCATGTTTGGGACATGGCATCGGCACGTA-TAGAGGTGCC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATC-GC-C-TACGAGATGTGCC
*
64178355 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
64178380 GCGTCGGCCT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
44 9 0.10
45 13 0.14
46 39 0.41
47 2 0.02
48 29 0.31
49 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGCCTACGAGATGTGCC
Found at i:64179415 original size:28 final size:29
Alignment explanation
Indices: 64179380--64179434 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
64179370 CACGGGCTGA
*
64179380 GACACGGGCGTGT-CGAGGTCGTGTGAGG
1 GACACGGGCGTGTACGAGGCCGTGTGAGG
*
64179408 GACACGGGCGTGTACTAGGCCGTGTGA
1 GACACGGGCGTGTACGAGGCCGTGTGA
64179435 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.16, C:0.20, G:0.45, T:0.18
Consensus pattern (29 bp):
GACACGGGCGTGTACGAGGCCGTGTGAGG
Found at i:64188373 original size:21 final size:22
Alignment explanation
Indices: 64188332--64188377 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
64188322 ATAATTTTTC
* *
64188332 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAATAACCTTT
64188354 ATAAATTAATATAA-AACCTTT
1 ATAAATTAATATAATAACCTTT
64188375 ATA
1 ATA
64188378 TTGGTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATTAATATAATAACCTTT
Found at i:64192520 original size:26 final size:26
Alignment explanation
Indices: 64192491--64192565 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
64192481 GGCGTAATAG
64192491 GCTTTATGTCGGTGTATATTTAGCAA
1 GCTTTATGTCGGTGTATATTTAGCAA
*
64192517 GCTTTGT-TCCGGTGTATATTTAGCAA
1 GCTTTATGT-CGGTGTATATTTAGCAA
*
64192543 GCTTTCTGTCGGTGTATATTTAG
1 GCTTTATGTCGGTGTATATTTAG
64192566 TAGGCATTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.02
26 43 0.96
27 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (26 bp):
GCTTTATGTCGGTGTATATTTAGCAA
Found at i:64193825 original size:28 final size:28
Alignment explanation
Indices: 64193794--64193852 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
64193784 TAGAAAAGGG
*
64193794 TAAGGACTAAATTGGAAATAGAAATAAT
1 TAAGGACTAAATCGGAAATAGAAATAAT
64193822 TAAGGACTAAATCGGAAATAGAAATAAT
1 TAAGGACTAAATCGGAAATAGAAATAAT
64193850 TAA
1 TAA
64193853 AGATGATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (28 bp):
TAAGGACTAAATCGGAAATAGAAATAAT
Found at i:64195715 original size:21 final size:22
Alignment explanation
Indices: 64195689--64195729 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
64195679 TGCTAGACAC
*
64195689 AGGGGC-ACACGCTCGTGTGGG
1 AGGGGCAACAAGCTCGTGTGGG
64195710 AGGGGCAACAAGCTCGTGTG
1 AGGGGCAACAAGCTCGTGTG
64195730 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.22, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCAACAAGCTCGTGTGGG
Found at i:64198877 original size:22 final size:21
Alignment explanation
Indices: 64198826--64198880 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
64198816 ACGACCTACA
**
64198826 ACACGGGCGTGTCCTAGGGTC
1 ACACGGGCGTGTCCTAGGACC
* *
64198847 ACACAGGCGTGTCCCTTGGACC
1 ACACGGGCGTGT-CCTAGGACC
64198869 ACACGGGCGTGT
1 ACACGGGCGTGT
64198881 GAGCCCTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (21 bp):
ACACGGGCGTGTCCTAGGACC
Found at i:64201288 original size:22 final size:21
Alignment explanation
Indices: 64201246--64201288 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
64201236 TTAATATATT
*
64201246 AATAAATAAATTATTATAGTA
1 AATAAATAAATTATTAAAGTA
64201267 AATATAATAATATT-TTAAAGTA
1 AATA-AATAA-ATTATTAAAGTA
64201289 TGACATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAAATAAATTATTAAAGTA
Found at i:64212766 original size:35 final size:35
Alignment explanation
Indices: 64212723--64213162 Score: 562
Period size: 35 Copynumber: 12.6 Consensus size: 35
64212713 ACTCATTGTC
64212723 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* *
64212758 TGGTGTGTTAT-GGTTGGATTAGCTCTTATGAGCAC
1 TGGCGTGTT-TCGGTTGGATTAGCTCTTATGAGCAT
*
64212793 TAGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
*
64212828 TGGTGCT-TTTCGGTTGGATTAGCTCTTATGAGCAT
1 TGGCG-TGTTTCGGTTGGATTAGCTCTTATGAGCAT
* * * *
64212863 TGGCATGTTTCGGTTGGATTAACTCTTATGAACAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
*
64212898 TAGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* * * *
64212933 TGGTGTGTTACGGTTGGATTAGCTTTTATGAGCAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* *
64212968 TAGCGTGTTTCGGTTGGATTAGCTCTTATGAGTAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* * * * * *
64213003 TGACATGTTACGATTAGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* * *
64213038 TAGCATGTTTCGGTTAGATTAGCTCTTATGAGCAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
* * * * *
64213073 TGGCATGTTACAGTTGGATTAGCTCTAATGAGCAC
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
64213108 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
1 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
*
64213143 CGGCGTGTTAT-GGTTGGATT
1 TGGCGTGTT-TCGGTTGGATT
64213163 GACAACGTAC
Statistics
Matches: 347, Mismatches: 53, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
34 2 0.01
35 342 0.99
36 3 0.01
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (35 bp):
TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAT
Found at i:64212830 original size:21 final size:21
Alignment explanation
Indices: 64212806--64212865 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
64212796 CGTGTTTCGG
64212806 TTGGATTAGCTCTTATGAGCA
1 TTGGATTAGCTCTTATGAGCA
64212827 TTGG--T-GCT-TT-TCG-G--
1 TTGGATTAGCTCTTAT-GAGCA
64212841 TTGGATTAGCTCTTATGAGCA
1 TTGGATTAGCTCTTATGAGCA
64212862 TTGG
1 TTGG
64212866 CATGTTTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
14 4 0.13
16 3 0.10
17 6 0.20
18 6 0.20
19 3 0.10
21 8 0.27
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (21 bp):
TTGGATTAGCTCTTATGAGCA
Found at i:64215242 original size:20 final size:20
Alignment explanation
Indices: 64215217--64215286 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
64215207 GAAATGAAGA
64215217 AGTGCCCCTGTTTGCACATT
1 AGTGCCCCTGTTTGCACATT
* * *
64215237 AGTGCCCCTATTTGTACTTT
1 AGTGCCCCTGTTTGCACATT
* * *
64215257 GGTGCCCTTGTTTGCACATC
1 AGTGCCCCTGTTTGCACATT
64215277 AGTGCCCCTG
1 AGTGCCCCTG
64215287 ATTGTACTTC
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (20 bp):
AGTGCCCCTGTTTGCACATT
Found at i:64215354 original size:40 final size:40
Alignment explanation
Indices: 64215218--64215346 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
64215208 AAATGAAGAA
* *
64215218 GTGCCCCTGTTTGCACATTAGTGCCCCTATTTGTACTTTG
1 GTGCCCCTGTTTGCACATCAGTGCCCCTATTTGTACTTCG
*
64215258 GTGCCCTTGTTTGCACATCAGTGCCCCTGA-TTGTACTTCG
1 GTGCCCCTGTTTGCACATCAGTGCCCCT-ATTTGTACTTCG
* ** * * *
64215298 GTACCAATGTTTGCACATCAATGCCTCTATTTGCACTTCG
1 GTGCCCCTGTTTGCACATCAGTGCCCCTATTTGTACTTCG
64215338 GTGCCCCTG
1 GTGCCCCTG
64215347 AATGCACACT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 73 0.97
41 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (40 bp):
GTGCCCCTGTTTGCACATCAGTGCCCCTATTTGTACTTCG
Found at i:64215382 original size:39 final size:40
Alignment explanation
Indices: 64215327--64215425 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 40
64215317 AATGCCTCTA
* *
64215327 TTTGCACTTCGGTGCCCCTGAATGCACAC-TT-GTGC-CCTG
1 TTTGCACTTTGGTGCCCCT-AAT-CACACATTCGTGCTACTG
* *
64215366 TTTGCACTTTGCTGCCCCTAATCTCACATTCGTGCTACTG
1 TTTGCACTTTGGTGCCCCTAATCACACATTCGTGCTACTG
*
64215406 ATTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTA
64215426 TTATGCATCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.08
38 5 0.10
39 21 0.41
40 21 0.41
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.34
Consensus pattern (40 bp):
TTTGCACTTTGGTGCCCCTAATCACACATTCGTGCTACTG
Found at i:64217254 original size:20 final size:20
Alignment explanation
Indices: 64217229--64217275 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
64217219 GATTTGATAT
64217229 ACATGATATGCATGATATGC
1 ACATGATATGCATGATATGC
*
64217249 ACATGATATGTATGATATGC
1 ACATGATATGCATGATATGC
64217269 ACATGAT
1 ACATGAT
64217276 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:64217255 original size:11 final size:10
Alignment explanation
Indices: 64217223--64217275 Score: 58
Period size: 9 Copynumber: 5.4 Consensus size: 10
64217213 ACATGGGATT
64217223 TGATAT-ACA
1 TGATATGACA
64217232 TGATATG-CA
1 TGATATGACA
64217241 TGATATGCACA
1 TGATATG-ACA
*
64217252 TGATATG-TA
1 TGATATGACA
64217261 TGATATGCACA
1 TGATATG-ACA
64217272 TGAT
1 TGAT
64217276 GTATTCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 23 0.62
11 14 0.38
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (10 bp):
TGATATGACA
Found at i:64217355 original size:25 final size:24
Alignment explanation
Indices: 64217321--64217379 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
64217311 GAAGGAAGTG
64217321 CAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTTGCCCCAG-TTAT
*
64217346 CAAAAGGGC-TTTGGCCCAGTTAT
1 CAAAAGGGCTTTTGCCCCAGTTAT
*
64217369 TAAAAGAGGCT
1 CAAAAG-GGCT
64217380 AGGCCTCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.30
24 12 0.40
25 9 0.30
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTTGCCCCAGTTAT
Found at i:64217384 original size:23 final size:24
Alignment explanation
Indices: 64217321--64217384 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
64217311 GAAGGAAGTG
* *
64217321 CAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGC-TTAGGCCCAGTTTAT
*
64217346 CAAAAGGGCTTTGGCCCAG-TTAT
1 CAAAAGGGCTTAGGCCCAGTTTAT
*
64217369 TAAAAGAGGC-TAGGCC
1 CAAAAG-GGCTTAGGCC
64217385 TCTAGTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.40
24 12 0.34
25 9 0.26
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTAGGCCCAGTTTAT
Found at i:64217621 original size:31 final size:31
Alignment explanation
Indices: 64217586--64217669 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
64217576 TTGTTACAGT
* *
64217586 AAAGGCTTCAGCCCAGTGATATTAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
64217617 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
64217648 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
64217670 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:64225320 original size:20 final size:20
Alignment explanation
Indices: 64225295--64225341 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
64225285 ATCTTGATAT
64225295 ACATGATATGCATGATATGC
1 ACATGATATGCATGATATGC
*
64225315 ACATGATATGTATGATATGC
1 ACATGATATGCATGATATGC
*
64225335 ATATGAT
1 ACATGAT
64225342 GTATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:64225329 original size:9 final size:9
Alignment explanation
Indices: 64225289--64225336 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
64225279 CATGGGATCT
*
64225289 TGATATACA
1 TGATATGCA
64225298 TGATATGCA
1 TGATATGCA
64225307 TGATATGCACA
1 TGATATG--CA
*
64225318 TGATATGTA
1 TGATATGCA
64225327 TGATATGCA
1 TGATATGCA
64225336 T
1 T
64225337 ATGATGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 25 0.74
11 9 0.26
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (9 bp):
TGATATGCA
Found at i:64225454 original size:24 final size:25
Alignment explanation
Indices: 64225387--64225470 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
64225377 GGAGGAAGTG
64225387 CAAAAGGGCTTTTGCCCCAATTTAT
1 CAAAAGGGCTTTTGCCCCAATTTAT
*
64225412 CAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTTGCCCCAATTTAT
64225437 CAAAAGGGC-TTTGCCCCAA-TTAT
1 CAAAAGGGCTTTTGCCCCAATTTAT
*
64225460 TAAAAGAGGCT
1 CAAAAG-GGCT
64225471 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
23 9 0.17
24 12 0.22
25 33 0.61
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCCAATTTAT
Found at i:64225481 original size:49 final size:50
Alignment explanation
Indices: 64225387--64225482 Score: 126
Period size: 49 Copynumber: 1.9 Consensus size: 50
64225377 GGAGGAAGTG
**
64225387 CAAAAGGGCTTTTGCCCCAATTTATCAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTTGCCCCAATTTATCAAAAGGGCTTAGGCCCCAGTTTAT
*
64225437 CAAAAGGGC-TTTGCCCCAA-TTATTAAAAGAGGC-TAGGCCTCCAGTT
1 CAAAAGGGCTTTTGCCCCAATTTATCAAAAG-GGCTTAGGCC-CCAGTT
64225483 ATATGATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
48 13 0.32
49 19 0.46
50 9 0.22
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (50 bp):
CAAAAGGGCTTTTGCCCCAATTTATCAAAAGGGCTTAGGCCCCAGTTTAT
Found at i:64225715 original size:31 final size:31
Alignment explanation
Indices: 64225677--64225817 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
64225667 TTGTTACAGT
64225677 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
**
64225708 AAAGGCTTCACCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
64225739 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
64225770 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
64225801 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
64225818 AATTTGGGCT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:64233807 original size:46 final size:45
Alignment explanation
Indices: 64233737--64233908 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
64233727 TATGTGTGCT
64233737 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAG-ATGAGAGCC
* * * *
64233783 AGTGTAAGACATGTTTGGGGCATGCATCGGCCTCGAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGATGA---GAGCC
* * * * *
64233831 AGTGTAAGACATGTCGGGGACATGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA--CAGATGAGAGCC
64233877 AGTGTAAGACATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
64233909 TCGCGATATA
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 63 0.61
47 6 0.06
48 32 0.31
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGAGCC
Found at i:64233886 original size:94 final size:94
Alignment explanation
Indices: 64233737--64233917 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
64233727 TATGTGTGCT
* * * *
64233737 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGCATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCGGGGACATGCATCGGACACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
*
64233802 GCATGCATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATTTAAGCC
* *
64233831 AGTGTAAGACATGTCGGGGACATGCATC-GACATTGAG-ACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCGGGGACATGCATCGGACA--CAGCACGAGAGCCAGTGTAAGACATGTCTG
*
64233894 GGACATGCATCGGCCTCGCGATAT
64 GGACATGCATCGGCCTCGAGATAT
64233918 ACAAGTAGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 3 0.04
94 72 0.94
95 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCGGGGACATGCATCGGACACAGCACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTCGAGATATTTAAGCC
Found at i:64234022 original size:49 final size:49
Alignment explanation
Indices: 64233737--64234089 Score: 166
Period size: 46 Copynumber: 7.5 Consensus size: 49
64233727 TATGTGTGCT
* * * *
64233737 AGTGTAAGACATGTCTGGGACATG-CATCG-GC-C-ACAGCATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAG-ATGAAAGCC
* * * * * * **
64233783 AGTGTAAGACATGTTTGGGGCATG-CATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * * * * * *
64233831 AGTGTAAGACATGTCGGGGACATG-CATCGACATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * ** * *
64233877 AGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGCGATAT-ACAAG-T
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGA-AAGCC
* * * * * * *
64233924 AGTGTAAGACCTGTCT-GGACATGGCGTC-AGCTTG-T-GGTG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * *
64233967 AATGTAAGACCCGTCTGGGACATGACATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAGATGAAAGCC
* * * * * * *
64234016 AGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGCTATATTAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
64234065 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
64234090 GAGTCAACAT
Statistics
Matches: 232, Mismatches: 57, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.00
43 14 0.06
44 11 0.05
45 2 0.01
46 75 0.32
47 24 0.10
48 41 0.18
49 52 0.22
50 12 0.05
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
Found at i:64237021 original size:14 final size:14
Alignment explanation
Indices: 64237002--64237031 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64236992 TTATATCGAG
64237002 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
64237016 ACCAATCCAATTCA
1 ACCAATCCAAATCA
64237030 AC
1 AC
64237032 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:64239885 original size:30 final size:30
Alignment explanation
Indices: 64239850--64239958 Score: 191
Period size: 30 Copynumber: 3.6 Consensus size: 30
64239840 ATTACAAGAC
64239850 GTGTGTCTAGCCCGTGTGGCTCACATGGAT
1 GTGTGTCTAGCCCGTGTGGCTCACATGGAT
64239880 GTGTGTCTAGCCCGTGTGGCTCACATGGAT
1 GTGTGTCTAGCCCGTGTGGCTCACATGGAT
*
64239910 GTGTGTCTAGCCCGTGTGGCTCACATGGAC
1 GTGTGTCTAGCCCGTGTGGCTCACATGGAT
* *
64239940 GTGTGCCTAGCCCATGTGG
1 GTGTGTCTAGCCCGTGTGG
64239959 AAATACCCAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.13, C:0.25, G:0.34, T:0.28
Consensus pattern (30 bp):
GTGTGTCTAGCCCGTGTGGCTCACATGGAT
Found at i:64245071 original size:12 final size:12
Alignment explanation
Indices: 64245056--64245082 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64245046 AAATAATCAT
64245056 AAAAGAAAAAGA
1 AAAAGAAAAAGA
64245068 AAAAGAAAAAGA
1 AAAAGAAAAAGA
64245080 AAA
1 AAA
64245083 CAAATAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:64246765 original size:25 final size:24
Alignment explanation
Indices: 64246737--64246815 Score: 86
Period size: 25 Copynumber: 3.0 Consensus size: 24
64246727 GAAGCATAAT
*
64246737 AAAACAAATAAATAAGAATAAAATA
1 AAAATAAATAAATAA-AATAAAATA
64246762 AAAATAAATAATATAACAATTAAGAATA
1 AAAATAAATAA-ATAA-AA-TAA-AATA
*
64246790 ATAAATATATAAATAAAATAAAATA
1 A-AAATAAATAAATAAAATAAAATA
64246815 A
1 A
64246816 GGAAAAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 15 0.32
26 9 0.19
27 5 0.11
28 9 0.19
29 9 0.19
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (24 bp):
AAAATAAATAAATAAAATAAAATA
Found at i:64246771 original size:15 final size:15
Alignment explanation
Indices: 64246753--64246812 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
64246743 AATAAATAAG
64246753 AATAAAATAAAAATA
1 AATAAAATAAAAATA
* * *
64246768 AATAATATAACAATT
1 AATAAAATAAAAATA
*
64246783 AAGAATAATAAATATATA
1 AATAA-AATAAA-A-ATA
64246801 AATAAAATAAAA
1 AATAAAATAAAA
64246813 TAAGGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 16 0.47
16 5 0.15
17 7 0.21
18 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAAAATAAAAATA
Found at i:64246773 original size:37 final size:37
Alignment explanation
Indices: 64246732--64246806 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
64246722 AAGCAGAAGC
*
64246732 ATAATAAAACAAATAAATAAGAATAAA-ATAAAAATAA
1 ATAATAAAAC-AATAAAGAAGAATAAATATAAAAATAA
* * * *
64246769 ATAATATAACAATTAAGAATAATAAATATATAAATAA
1 ATAATAAAACAATAAAGAAGAATAAATATAAAAATAA
64246806 A
1 A
64246807 ATAAAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (37 bp):
ATAATAAAACAATAAAGAAGAATAAATATAAAAATAA
Found at i:64248662 original size:136 final size:136
Alignment explanation
Indices: 64248418--64248680 Score: 454
Period size: 136 Copynumber: 1.9 Consensus size: 136
64248408 ACATTCGTTA
* * *
64248418 GGCACATAATAGGCTGATTTCGACTCGATTAATGTCATTTTGAATATGTATTTTGGTTGGTCTTT
1 GGCACAAAATAGGCTGATTTCGACTCGATTAATGTCATTTCGAAGATGTATTTTGGTTGGTCTTT
*
64248483 AAATTACTGAGGGTCCAAGCAAGTTTGAAATGGTAAACTTGTGGTTTAAGGTTCATTTTGGGGAC
66 AAATTACTGAGGGTCCAAGCAAGCTTGAAATGGTAAACTTGTGGTTTAAGGTTCATTTTGGGGAC
64248548 ACACTG
131 ACACTG
* * *
64248554 GGCACAAAATAGGTTGATTTGGGCTCGATTAATGTCATTTCGAAGATGTATTTTGGTTGGTCTTT
1 GGCACAAAATAGGCTGATTTCGACTCGATTAATGTCATTTCGAAGATGTATTTTGGTTGGTCTTT
*
64248619 GAATTACTGAGGGTCCAAGCAAGCTTGAAATGGTAAACTTGTGGTTTAAGGTTCATTTTGGG
66 AAATTACTGAGGGTCCAAGCAAGCTTGAAATGGTAAACTTGTGGTTTAAGGTTCATTTTGGG
64248681 TCCACATGGC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 119 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (136 bp):
GGCACAAAATAGGCTGATTTCGACTCGATTAATGTCATTTCGAAGATGTATTTTGGTTGGTCTTT
AAATTACTGAGGGTCCAAGCAAGCTTGAAATGGTAAACTTGTGGTTTAAGGTTCATTTTGGGGAC
ACACTG
Found at i:64254505 original size:60 final size:58
Alignment explanation
Indices: 64254441--64254588 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 58
64254431 TCCCTAGACC
* * *
64254441 CCCAAATCAGTCACACGGCCATGTGTCCCGAAGCACACGCCCGTATGGGAA-CCCTAATTT
1 CCCAAATCAGTCACACGGCCGTGTGTCCAGAA-CACACGCCAGTAT-GGAAGCCCTAA-TT
* ** * * *
64254501 CCCAAATCAGTTACACAACTGTGTGTCCATAACACACGCCAGTGTGGAAGCCCTAATT
1 CCCAAATCAGTCACACGGCCGTGTGTCCAGAACACACGCCAGTATGGAAGCCCTAATT
* *
64254559 GCCAACATCAGTCACACGGTCGTGTGTCCA
1 CCCAA-ATCAGTCACACGGCCGTGTGTCCA
64254589 ATGGACACGG
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
58 10 0.14
59 36 0.51
60 25 0.35
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (58 bp):
CCCAAATCAGTCACACGGCCGTGTGTCCAGAACACACGCCAGTATGGAAGCCCTAATT
Found at i:64255466 original size:16 final size:16
Alignment explanation
Indices: 64255445--64255486 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
64255435 TAGGTTGAGA
64255445 AAATT-ATTTAATTTAG
1 AAATTAATTT-ATTTAG
64255461 AAATTAATTTATTT--
1 AAATTAATTTATTTAG
64255475 AAATTAATTTAT
1 AAATTAATTTAT
64255487 GATGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.48
16 9 0.36
17 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
AAATTAATTTATTTAG
Found at i:64265335 original size:23 final size:22
Alignment explanation
Indices: 64265299--64265343 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
64265289 TTATTTTTAA
64265299 TTTTAAAAAGTAAAAAAATAATT
1 TTTTAAAAAGTAAAAAAA-AATT
64265322 TTTTAGAAAA-TAAAAAAAAATT
1 TTTTA-AAAAGTAAAAAAAAATT
64265344 CGTACACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TTTTAAAAAGTAAAAAAAAATT
Found at i:64265980 original size:11 final size:11
Alignment explanation
Indices: 64265964--64265994 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
64265954 AAAAAAAAAC
64265964 TATTGTTTTTT
1 TATTGTTTTTT
64265975 TATTGTTTTTT
1 TATTGTTTTTT
64265986 TATTGTTTT
1 TATTGTTTT
64265995 GTTGCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (11 bp):
TATTGTTTTTT
Found at i:64267786 original size:18 final size:18
Alignment explanation
Indices: 64267749--64267787 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
64267739 AAAATTATTG
**
64267749 TTTGATTTTTTTAATTTT
1 TTTGATTTTTTTAAAATT
64267767 TTTGATTTTTTTAAAATT
1 TTTGATTTTTTTAAAATT
64267785 TTT
1 TTT
64267788 TGTTGACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTGATTTTTTTAAAATT
Found at i:64269582 original size:127 final size:124
Alignment explanation
Indices: 64269426--64269655 Score: 338
Period size: 127 Copynumber: 1.8 Consensus size: 124
64269416 GTCATTTTTA
* *
64269426 TATAATCTAAAAAATAGAGAGACAAAATTGCAATTTAACCATTATTGTTAATAATGTAAAAAA-A
1 TATAATCTAAAAAATAGAGAGACAAAATTGCAATTTAACCATTATTATTAATAATATAAAAAAGA
* * *
64269490 GAAGAAAGAAAGGACATGTGATTAAAGAAGGAAGGTCTTAGGGCCTTCTTTTTATATATAT
66 -AAGAAAGAAAGGACATAT-ATCAAAGAAGGAAGGCCTTAGGGCCTTCTTTTTATATATAT
* *
64269551 TATAATCTAAAAAAATAGAG-GTACCATAATTGCAATTTAATCATTATTATTAATAATATAAAAA
1 TATAATCT-AAAAAATAGAGAG-A-CAAAATTGCAATTTAACCATTATTATTAATAATATAAAAA
64269615 AGAAAGAAAGAAAGGACATATATCAAAGAAGGAAGGCCTTA
63 AGAAAGAAAGAAAGGACATATATCAAAGAAGGAAGGCCTTA
64269656 AGAAGTAGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
125 9 0.10
126 30 0.32
127 54 0.57
128 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (124 bp):
TATAATCTAAAAAATAGAGAGACAAAATTGCAATTTAACCATTATTATTAATAATATAAAAAAGA
AAGAAAGAAAGGACATATATCAAAGAAGGAAGGCCTTAGGGCCTTCTTTTTATATATAT
Found at i:64272289 original size:27 final size:26
Alignment explanation
Indices: 64272236--64272289 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
64272226 AGCTTAATCA
* * * *
64272236 TTTAATTAATTTGACTTTTATCTTTT
1 TTTAATTAATTTCACCTTTAACATTT
64272262 TTTAATTAAATTTCACCTTTAACATTT
1 TTTAATT-AATTTCACCTTTAACATTT
64272289 T
1 T
64272290 AAAAATAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTAATTAATTTCACCTTTAACATTT
Found at i:64272887 original size:4 final size:4
Alignment explanation
Indices: 64272878--64272904 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
64272868 GTCTTAGACC
64272878 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
64272905 CCGTCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:64275060 original size:15 final size:16
Alignment explanation
Indices: 64275040--64275069 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64275030 ACAAAACACA
64275040 TTCTTTT-CATTTTTT
1 TTCTTTTGCATTTTTT
64275055 TTCTTTTGCATTTTT
1 TTCTTTTGCATTTTT
64275070 ATCTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTTTTGCATTTTTT
Found at i:64286805 original size:42 final size:42
Alignment explanation
Indices: 64286759--64286869 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
64286749 CCTTGTGCTG
64286759 GTGTATTAAGTCGGGCTTTATTGCCTAGTAGGCTTTATGCCA
1 GTGTATTAAGTCGGGCTTTATTGCCTAGTAGGCTTTATGCCA
*
64286801 GTGTATTATA-TCGGACTTTATTGCCTAGTAGGCTTTATGCCA
1 GTGTATTA-AGTCGGGCTTTATTGCCTAGTAGGCTTTATGCCA
* * *
64286843 GTGTATTATGTCAGGC-CTATTGCCTAG
1 GTGTATTAAGTCGGGCTTTATTGCCTAG
64286870 CAGGTTCTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.16
42 51 0.82
43 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (42 bp):
GTGTATTAAGTCGGGCTTTATTGCCTAGTAGGCTTTATGCCA
Found at i:64294070 original size:30 final size:29
Alignment explanation
Indices: 64294029--64294086 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
64294019 AACGGAAGTT
*
64294029 TTGGTACTAAGTGTGCGATTTAAACTAGCC
1 TTGGCACTAAGTGTGCGATTT-AACTAGCC
64294059 TTGGCACTAAGTGTGCGATTTAACTAGC
1 TTGGCACTAAGTGTGCGATTTAACTAGC
64294087 TTCGGCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (29 bp):
TTGGCACTAAGTGTGCGATTTAACTAGCC
Found at i:64304417 original size:42 final size:42
Alignment explanation
Indices: 64304320--64304487 Score: 155
Period size: 42 Copynumber: 4.0 Consensus size: 42
64304310 GCAAGCCTTG
* * * *
64304320 TGCTGGTGTATTAAATTGGGCTTTGTTGCCTAGCAGACTTTA
1 TGCTGGTGTATTATATCGGGCTTTATTGCCTAGCAAACTTTA
* *
64304362 TGCCGGTGTATTATATCGGGCTTTATTGCCTAGTAAACTTTA
1 TGCTGGTGTATTATATCGGGCTTTATTGCCTAGCAAACTTTA
* * * * ** *
64304404 TGCTAGTGTATTATGTCAGGC-CTATTGCCTAGC-AGGTTCTG
1 TGCTGGTGTATTATATCGGGCTTTATTGCCTAGCAAACTT-TA
* *
64304445 TGCTGGTGTATTATA-CTAGGCTTTA-TGCCTAGCAAATTTTA
1 TGCTGGTGTATTATATC-GGGCTTTATTGCCTAGCAAACTTTA
64304486 TG
1 TG
64304488 TTATACTAGG
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
40 4 0.04
41 39 0.39
42 58 0.57
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (42 bp):
TGCTGGTGTATTATATCGGGCTTTATTGCCTAGCAAACTTTA
Found at i:64304497 original size:33 final size:33
Alignment explanation
Indices: 64304455--64304521 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
64304445 TGCTGGTGTA
64304455 TTATACTAGGCTTTATGCCTAGCAAATTTTATG
1 TTATACTAGGCTTTATGCCTAGCAAATTTTATG
64304488 TTATACTAGGCTTTATGCCTAGCAAATTTTATG
1 TTATACTAGGCTTTATGCCTAGCAAATTTTATG
64304521 T
1 T
64304522 GAGCAATGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TTATACTAGGCTTTATGCCTAGCAAATTTTATG
Found at i:64307182 original size:34 final size:34
Alignment explanation
Indices: 64307137--64307220 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
64307127 GATTGAATCC
64307137 ACTAGCTTTTGGATTAATTGTTCTTTTAGTCCTA
1 ACTAGCTTTTGGATTAATTGTTCTTTTAGTCCTA
*
64307171 ATTAGCTTTTGGATTAATTGTTCTTTTAGTCCTA
1 ACTAGCTTTTGGATTAATTGTTCTTTTAGTCCTA
*
64307205 ACTAG-TTTGGGATTAA
1 ACTAGCTTTTGGATTAA
64307221 ATTATAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 10 0.21
34 37 0.79
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.49
Consensus pattern (34 bp):
ACTAGCTTTTGGATTAATTGTTCTTTTAGTCCTA
Found at i:64307196 original size:17 final size:17
Alignment explanation
Indices: 64307142--64307197 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
64307132 AATCCACTAG
64307142 CTTTTGGATTAATTGTT
1 CTTTTGGATTAATTGTT
*
64307159 CTTTTAG-TCCTAATTAG--
1 CTTTTGGAT--TAATT-GTT
64307176 CTTTTGGATTAATTGTT
1 CTTTTGGATTAATTGTT
64307193 CTTTT
1 CTTTT
64307198 AGTCCTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 17 0.55
18 6 0.19
19 1 0.03
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.57
Consensus pattern (17 bp):
CTTTTGGATTAATTGTT
Found at i:64308353 original size:25 final size:24
Alignment explanation
Indices: 64308292--64308357 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
64308282 ACTAATATTC
* * *
64308292 AGCTCGTATGAGCTTACCGTTTAT
1 AGCTCGTATGAGCATACCATTTAG
* * *
64308316 AGTTCTTAAGAGCATACCAATTTAG
1 AGCTCGTATGAGCATACC-ATTTAG
64308341 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
64308358 ATGTACAGGA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCTCGTATGAGCATACCATTTAG
Found at i:64309438 original size:30 final size:30
Alignment explanation
Indices: 64309404--64309460 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
64309394 ATCAATTTTC
* * *
64309404 AAGTCTAGGGGTAAAATGGTTATTTTGTGA
1 AAGTCTAGGGGCAAAATGATCATTTTGTGA
64309434 AAGTCTAGGGGCAAAATGATCATTTTG
1 AAGTCTAGGGGCAAAATGATCATTTTG
64309461 CCCAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (30 bp):
AAGTCTAGGGGCAAAATGATCATTTTGTGA
Found at i:64309868 original size:46 final size:46
Alignment explanation
Indices: 64309801--64309920 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 46
64309791 TATGTGTGCT
* **
64309801 AGTGTAAGACATGTCTGGGACATGCATCAGC-TACAGCACGGGAGCA
1 AGTGTAAGACATGTCTAGGACATGCATCAGCATACAG-ACAAGAGCA
* ** *
64309847 AGTGTAAGACATGTCTCGGACATGCATCAGCATTGAGACAAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCATACAGACAAGAGCA
*
64309893 AGTATAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTAGGACATGCATC
64309921 GACCTCGCAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
46 62 0.95
47 3 0.05
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCATACAGACAAGAGCA
Found at i:64315750 original size:42 final size:42
Alignment explanation
Indices: 64315689--64315849 Score: 207
Period size: 42 Copynumber: 3.7 Consensus size: 42
64315679 TCTTTTTCTT
** *
64315689 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-ATC
*
64315731 GATGCCATAGCCCAGCTATGGTCTTACACATGTTCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATC
*
64315773 GATGCCATAGCCCAGCTATGGTCTTATACGGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AT--C-T-TCACATATC
64315821 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
64315850 GAATCACATA
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
41 2 0.02
42 63 0.60
44 2 0.02
47 1 0.01
48 37 0.35
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATATC
Found at i:64315816 original size:48 final size:48
Alignment explanation
Indices: 64315764--64315861 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
64315754 TTACACATGT
* *
64315764 TCACATATCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATA
64315812 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATA
64315860 TC
1 TC
64315862 TCACTGATGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (48 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATA
Found at i:64316001 original size:53 final size:53
Alignment explanation
Indices: 64315902--64316003 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
64315892 ATATATCACA
* *
64315902 CCGATGACATATCCCAGATATGGTCTTATACGGAAGCAGATAATCACATCTCT
1 CCGATGACATAGCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCT
* * *
64315955 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-ATCACAT
1 CCGATGACATAGCCCAGATATGGTCTTATACGG-AAGCACATAATCACAT
64316004 GTTGCCATGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 37 0.86
54 6 0.14
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (53 bp):
CCGATGACATAGCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCT
Found at i:64322646 original size:40 final size:40
Alignment explanation
Indices: 64322562--64322786 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
64322552 TTGAATGATG
* * * *
64322562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64322602 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64322642 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64322681 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64322721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64322762 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64322787 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64322808 original size:119 final size:119
Alignment explanation
Indices: 64322562--64322819 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
64322552 TTGAATGATG
* *
64322562 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
64322627 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
64322681 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
64322744 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
64322801 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64322820 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:64330670 original size:40 final size:40
Alignment explanation
Indices: 64330586--64330810 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
64330576 TTGAATGATG
* * * *
64330586 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64330626 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64330666 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64330705 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64330745 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64330786 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64330811 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64330832 original size:119 final size:119
Alignment explanation
Indices: 64330586--64330843 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
64330576 TTGAATGATG
* *
64330586 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
64330651 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
64330705 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
64330768 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
64330825 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64330844 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:64333214 original size:30 final size:30
Alignment explanation
Indices: 64333180--64333248 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
64333170 TACAATTTTG
* * *
64333180 TTTTATTTTTATTTTAATTCGGTCCTAATA
1 TTTTATATTTATTTCAATTCAGTCCTAATA
* *
64333210 TTTTATATTTGTTTCAATTTAGTCCTAATA
1 TTTTATATTTATTTCAATTCAGTCCTAATA
64333240 GTTATTATA
1 -TT-TTATA
64333249 ACTTATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 25 0.78
31 2 0.06
32 5 0.16
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (30 bp):
TTTTATATTTATTTCAATTCAGTCCTAATA
Found at i:64333661 original size:18 final size:16
Alignment explanation
Indices: 64333640--64333673 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
64333630 TCAATATATG
64333640 TTTTATTCATTATATTAT
1 TTTTATT-A-TATATTAT
64333658 TTTTATTATATATTAT
1 TTTTATTATATATTAT
64333674 ATTATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATATATTAT
Found at i:64333677 original size:26 final size:27
Alignment explanation
Indices: 64333643--64333706 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
64333633 ATATATGTTT
* *
64333643 TATTCATTATATTA-TTTTTAT-TATA
1 TATTTATTATATTACATTTTATATATA
64333668 TATTATATTATA-TACATTTTATATATA
1 TATT-TATTATATTACATTTTATATATA
*
64333695 TATTTTTTATAT
1 TATTTATTATAT
64333707 ATTACTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.19
26 18 0.56
27 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTATTATATTACATTTTATATATA
Found at i:64333694 original size:15 final size:15
Alignment explanation
Indices: 64333670--64333708 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
64333660 TTATTATATA
64333670 TTATATTATATACATT
1 TTATA-TATATACATT
**
64333686 TTATATATATATTTT
1 TTATATATATACATT
64333701 TTATATAT
1 TTATATAT
64333709 TACTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATATATACATT
Found at i:64333763 original size:42 final size:42
Alignment explanation
Indices: 64333686--64333772 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 42
64333676 TATATACATT
* * *
64333686 TTATATATATATTTTTTATATATTACTTATCATATGGTTTATA
1 TTATATATATATTTTTTATAAATTA-TTATCATATGCTATATA
*
64333729 TTAT-TATATACTTTGTTTATAAATT-TTATTATATGCTATATA
1 TTATATATATA-TTT-TTTATAAATTATTATCATATGCTATATA
64333771 TT
1 TT
64333773 TTACCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
42 22 0.58
43 7 0.18
44 9 0.24
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (42 bp):
TTATATATATATTTTTTATAAATTATTATCATATGCTATATA
Found at i:64333863 original size:24 final size:25
Alignment explanation
Indices: 64333827--64333876 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
64333817 ATATACATTA
* * *
64333827 TTTTATTACTTATTAACTACATATG
1 TTTTATTAATTATTAAATAAATATG
64333852 TTTT-TTAATTATTAAATAAATATG
1 TTTTATTAATTATTAAATAAATATG
64333876 T
1 T
64333877 GTAATATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTATTAATTATTAAATAAATATG
Found at i:64334597 original size:21 final size:21
Alignment explanation
Indices: 64334571--64334620 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
64334561 TTTCTGTTTG
64334571 TCTAAATACATAAAATATCCT
1 TCTAAATACATAAAATATCCT
*
64334592 TCTAAATACCTAAAATATCCT
1 TCTAAATACATAAAATATCCT
64334613 TCTAAATA
1 TCTAAATA
64334621 AGTTTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
TCTAAATACATAAAATATCCT
Found at i:64341569 original size:18 final size:19
Alignment explanation
Indices: 64341525--64341569 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
64341515 TTTAGAGGAA
*
64341525 TCTCAGGATTTTGAAGATG
1 TCTCAGGATTGTGAAGATG
64341544 TC-CAGGATTGTGAAG-TG
1 TCTCAGGATTGTGAAGATG
*
64341561 TCTCTGGAT
1 TCTCAGGAT
64341570 CTGTTTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
19 2 0.09
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (19 bp):
TCTCAGGATTGTGAAGATG
Found at i:64346115 original size:89 final size:87
Alignment explanation
Indices: 64345986--64346147 Score: 191
Period size: 89 Copynumber: 1.8 Consensus size: 87
64345976 ATTCAACGGA
* * * **
64345986 GAGCAGATCGAAGACATAGTAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAACCAGATCCAAGATG
64346051 ATTTGGCATCCTTGCTATTATAAG
64 ATTTGGCATCCTTGCTATTATAAG
* ** * * *
64346075 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAACCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAACCAGATCCAAGATGA
64346139 TTTGGCATC
65 TTTGGCATC
64346148 TCTGTATTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
87 24 0.39
88 1 0.02
89 35 0.57
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAACCAGATCCAAGATGAT
TTGGCATCCTTGCTATTATAAG
Found at i:64346272 original size:220 final size:220
Alignment explanation
Indices: 64345885--64346411 Score: 820
Period size: 220 Copynumber: 2.4 Consensus size: 220
64345875 AGATCTGACC
* **
64345885 TTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCCATATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* * *
64345950 CGAAGAAATAGATTTGGCATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGTAGATCTAAC
66 CGAAGAAACAAATTTGGCATCTCCATATTCAACGGAGAGCAAATCGAAGACATAGTAGATCTAAC
*
64346015 CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCTATTATAAGGAGCA
131 CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCTATTACAAGGAGCA
* *
64346080 GATCGAAGACATAGCAGATTTGGCT
196 AATCGAAGACATAGCAGATTTAGCT
* *
64346105 TTCACGTGTTTACGCTGAACCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* *
64346170 CGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAGACATAGTAGATCTAAC
66 CGAAGAAACAAATTTGGCATCTCCATATTCAACGGAGAGCAAATCGAAGACATAGTAGATCTAAC
64346235 CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCTATTACAAGGAGCA
131 CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCTATTACAAGGAGCA
* *
64346300 AATCGAAGATATAGTAGATTTAGCT
196 AATCGAAGACATAGCAGATTTAGCT
* * * * *
64346325 TTCACGTGTTTACGATGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTAAGAGAGC
1 TTCACGTGTTTACGCTGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTGTCAGAGAAC
*
64346390 AAATCAAAGATAACAAATTTGG
62 AAATCGAAGA-AACAAATTTGG
64346412 TATTCCTAAG
Statistics
Matches: 280, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
220 235 0.84
224 35 0.12
225 10 0.04
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (220 bp):
TTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
CGAAGAAACAAATTTGGCATCTCCATATTCAACGGAGAGCAAATCGAAGACATAGTAGATCTAAC
CTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCTATTACAAGGAGCA
AATCGAAGACATAGCAGATTTAGCT
Found at i:64348207 original size:16 final size:18
Alignment explanation
Indices: 64348178--64348211 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
64348168 TCAATATATG
64348178 TTTTATTCATTATATTAT
1 TTTTATTCATTATATTAT
64348196 TTTTATT-A-TATATTAT
1 TTTTATTCATTATATTAT
64348212 ATTATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTCATTATATTAT
Found at i:64348215 original size:26 final size:27
Alignment explanation
Indices: 64348181--64348244 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
64348171 ATATATGTTT
* *
64348181 TATTCATTATATTA-TTTTTAT-TATA
1 TATTTATTATATTACATTTTATATATA
64348206 TATTATATTATA-TACATTTTATATATA
1 TATT-TATTATATTACATTTTATATATA
*
64348233 TATTTTTTATAT
1 TATTTATTATAT
64348245 ATTACTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.19
26 18 0.56
27 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTATTATATTACATTTTATATATA
Found at i:64348232 original size:15 final size:15
Alignment explanation
Indices: 64348208--64348246 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
64348198 TTATTATATA
64348208 TTATATTATATACATT
1 TTATA-TATATACATT
**
64348224 TTATATATATATTTT
1 TTATATATATACATT
64348239 TTATATAT
1 TTATATAT
64348247 TACTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATATATACATT
Found at i:64348301 original size:42 final size:42
Alignment explanation
Indices: 64348224--64348310 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 42
64348214 TATATACATT
* * *
64348224 TTATATATATATTTTTTATATATTACTTATCATATGGTTTATA
1 TTATATATATATTTTTTATAAATTA-TTATCATATGCTATATA
*
64348267 TTAT-TATATACTTTGTTTATAAATT-TTATTATATGCTATATA
1 TTATATATATA-TTT-TTTATAAATTATTATCATATGCTATATA
64348309 TT
1 TT
64348311 TTACCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
42 22 0.58
43 7 0.18
44 9 0.24
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (42 bp):
TTATATATATATTTTTTATAAATTATTATCATATGCTATATA
Found at i:64350304 original size:17 final size:16
Alignment explanation
Indices: 64350275--64350307 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
64350265 CAAGAATTTC
64350275 TTCCTTTCTTCCTCAT
1 TTCCTTTCTTCCTCAT
64350291 TTCCTTTCCTTCCTCAT
1 TTCCTTT-CTTCCTCAT
64350308 CTTCACCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCCTTTCTTCCTCAT
Found at i:64354578 original size:29 final size:28
Alignment explanation
Indices: 64354512--64354612 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 28
64354502 TATAGTAAGT
* * *
64354512 CCGCACACTTAGTGTTATATAATCGAAC
1 CCGCACACTTAGTGCTATACAATTGAAC
*
64354540 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
*
64354569 CCGCACACTTAGTGCTATACAATTTCAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
64354598 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
64354613 CAATTTCATG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATTGAAC
Found at i:64356005 original size:18 final size:18
Alignment explanation
Indices: 64355982--64356033 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
64355972 AATATAAATA
64355982 AATTAATTTAATTTTCCC
1 AATTAATTTAATTTTCCC
* *
64356000 AATTAAATT-ATTTTCTC
1 AATTAATTTAATTTTCCC
64356017 AATTCAATTATAATTTT
1 AATT-AATT-TAATTTT
64356034 GTTAAAGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.39
18 11 0.39
19 1 0.04
20 5 0.18
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTTAATTTTCCC
Found at i:64366463 original size:21 final size:21
Alignment explanation
Indices: 64366414--64366486 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
64366404 ATCCAAACGC
*
64366414 CCATGTGAAGGGTA-GCACACGG
1 CCATGTGAA--GTAGGCACACGA
*
64366436 CCGTGTGATAG-AGGCACACGA
1 CCATGTGA-AGTAGGCACACGA
* *
64366457 CTATGTGAAGTAGGGACACGA
1 CCATGTGAAGTAGGCACACGA
64366478 CCATGTGAA
1 CCATGTGAA
64366487 CAGGCCGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.07
21 31 0.74
22 7 0.17
23 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (21 bp):
CCATGTGAAGTAGGCACACGA
Found at i:64367186 original size:16 final size:16
Alignment explanation
Indices: 64367149--64367184 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64367139 GATATGAAAA
*
64367149 AAAATTAAATAAAATT
1 AAAATTAAATAAAACT
64367165 AAAATTAAATAAACACT
1 AAAATTAAATAAA-ACT
64367182 AAA
1 AAA
64367185 TTTCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAAATAAAACT
Found at i:64375130 original size:95 final size:97
Alignment explanation
Indices: 64374905--64375174 Score: 298
Period size: 95 Copynumber: 2.8 Consensus size: 97
64374895 AGGTGCCAAC
* * ** *
64374905 GCCATGTCCTGGACATGGTCTTACACTGGCTCACA-C-ATCAAAGTCGATGCCATGTCCCAGGCA
1 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATC-GGGTCGATGCCATGTCCCAGACA
* * * * *
64374968 TGGTCTTACACTGACTCTCTTGTATTGAGGCTGAT
65 TGGTCTTACACTGAC-CAC-TATATTCAAGCTGAA
* * * *
64375003 GCCATGTTCTAGACATGGTTTTACATTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCAGACA
1 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATCGG-GTCGATGCCATGTCCCAGACA
64375068 TGGTCTTACACTGA-CAC-ATA-TCAAGCTGAA
65 TGGTCTTACACTGACCACTATATTCAAGCTGAA
* * * *
64375098 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAGGTCGATGCCATGTCCCAGAGA
1 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATCG-GGTCGATGCCATGTCCCAGACA
64375163 TGGTCTTACACT
65 TGGTCTTACACT
64375175 AGCTCTCATA
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
95 74 0.51
96 3 0.02
98 32 0.22
99 1 0.01
100 36 0.25
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTATCGGGTCGATGCCATGTCCCAGACAT
GGTCTTACACTGACCACTATATTCAAGCTGAA
Found at i:64375166 original size:145 final size:148
Alignment explanation
Indices: 64374896--64375183 Score: 336
Period size: 145 Copynumber: 2.0 Consensus size: 148
64374886 GATAGGGTAA
** * *
64374896 GGTGCCAACGCCATGTCCTGGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGTCGAAGCCATGTC
* * * * * * *
64374961 CCAGGCATGGTCTTACACTGACTCTCTTGTATTGAGGCTGATGCCATGTTCTAGACATGGTTTTA
66 CCAGACATGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTA
* *
64375026 CATTGGCTCTCATCTATC
131 CACTAGCTCTCATCTATC
* * *
64375044 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATC-AAG-CTGAAGCCATGT
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGTC-GAAGCCATGT
* * *
64375105 CCTAGACATGGTCTTACACT-AGCTCTCATATCTCGAGG-TCGATGCCATGTCCCAGAGATGGTC
65 CCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCT-GATGCCATGTCCCAGACATGGTC
64375168 TTACACTAGCTCTCAT
128 TTACACTAGCTCTCAT
64375184 ATCTCTATAG
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
144 3 0.03
145 75 0.64
146 7 0.06
147 1 0.01
148 32 0.27
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (148 bp):
GGTGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCAAAGTCGAAGCCATGTC
CCAGACATGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTA
CACTAGCTCTCATCTATC
Found at i:64375188 original size:50 final size:49
Alignment explanation
Indices: 64374905--64375185 Score: 234
Period size: 50 Copynumber: 5.8 Consensus size: 49
64374895 AGGTGCCAAC
** * * * * *
64374905 GCCATGTCCTGGACATGGTCTTACACTG-GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGTCGAT
* * * *
64374953 GCCATGTCCCAGGCATGGTCTTACACTGACTCTCTTGTATTGAGG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATATATCGAGGTC-GAT
* * * * * *
64375003 GCCATGTTCTAGACATGGTTTTACATTGGCTCTCATCTATCG-GTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCGAG-GTCGAT
* * * * *
64375053 GCCATGTCCCAGACATGGTCTTACACTG---ACACATATCAAGCT-GAA
1 GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGTCGAT
* *
64375098 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAGGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCGAGGTCGAT
*
64375148 GCCATGTCCCAGAGATGGTCTTACACTAGCTCTCATAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAT
64375186 CTCTATAGCA
Statistics
Matches: 182, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
45 28 0.15
46 7 0.04
47 1 0.01
48 25 0.14
49 12 0.07
50 107 0.59
51 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGTCGAT
Found at i:64377105 original size:11 final size:11
Alignment explanation
Indices: 64377068--64377104 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
64377058 TTTAACCTAT
*
64377068 TCAAAACATGA
1 TCAAAACATGC
64377079 TC-AAACATGC
1 TCAAAACATGC
64377089 TCAAAACATGC
1 TCAAAACATGC
64377100 -CAAAA
1 TCAAAA
64377105 ATATCATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.51, C:0.24, G:0.08, T:0.16
Consensus pattern (11 bp):
TCAAAACATGC
Found at i:64379077 original size:22 final size:22
Alignment explanation
Indices: 64379049--64379107 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
64379039 TTTTTATACT
*
64379049 AATATATTTAT-TATATAACTTA
1 AATATATATATATA-ATAACTTA
*
64379071 AATATATATATATAATAAGTTA
1 AATATATATATATAATAACTTA
*
64379093 ACATATAAATATATA
1 A-ATATATATATATA
64379108 TAATCTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATATATATATAATAACTTA
Found at i:64385542 original size:40 final size:40
Alignment explanation
Indices: 64385498--64385679 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
64385488 GCTACTTGCT
64385498 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
64385538 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
64385578 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
64385618 CAAATGCCTTCGGG-CTTAGCCCAG-AATTAGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
64385657 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
64385680 TGTTGTCATC
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 101 0.75
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:64390737 original size:12 final size:12
Alignment explanation
Indices: 64390720--64390758 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
64390710 CACGGTCTAG
*
64390720 CACGGCTTAGCA
1 CACGGCTTGGCA
64390732 CACGGCTTGGCA
1 CACGGCTTGGCA
*
64390744 CACCGCTTGGCA
1 CACGGCTTGGCA
64390756 CAC
1 CAC
64390759 AGGTGTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (12 bp):
CACGGCTTGGCA
Found at i:64410799 original size:68 final size:68
Alignment explanation
Indices: 64410652--64410807 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
64410642 AGCCGATTTG
* * * * *
64410652 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
64410717 TATC
65 TATA
* *
64410721 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
64410783 ATATAGTA
62 ATATA-TA
64410791 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
64410808 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:64420273 original size:13 final size:12
Alignment explanation
Indices: 64420255--64420294 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
64420245 GAAGAAATCA
64420255 CACACGAGCGTGT
1 CACACG-GCGTGT
64420268 CACACGGACGTGT
1 CACACGG-CGTGT
64420281 CACACGGGCGTGT
1 CACAC-GGCGTGT
64420294 C
1 C
64420295 CTTGTCGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (12 bp):
CACACGGCGTGT
Done.