Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 129 of 343
Found at i:43477592 original size:27 final size:27
Alignment explanation
Indices: 43477562--43477971 Score: 441
Period size: 27 Copynumber: 15.2 Consensus size: 27
43477552 TTAACACCCT
* *
43477562 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
43477589 AGGGTAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
43477616 ACGGTAAAACAGTAATTTTGTAAAT-G
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
43477642 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* **
43477669 AGGATAAAATAGTAAATT-TGTAAATTA
1 AGGGTAAAATAGT-AATTCTGTAAATCG
** *
43477696 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
43477723 AGGTTAAAATAGTAATTCTGTAAATTG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* ** * *
43477750 AGCGTAAAACGGTAATTTTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
43477777 AGGGTAAAATAGTAATTCTATAAGTCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * * **
43477804 AGGTTAAAATGGTAATTCCGTAAATTA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
43477831 AGGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
43477858 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
43477885 AGGGTAAAATAGTAATT-TGGTAAATCG
1 AGGGTAAAATAGTAATTCT-GTAAATCG
* *
43477912 AGGGTAAAATAGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
43477939 AGGGTAAAACT-GTAATTCTATAAATCG
1 AGGGTAAAA-TAGTAATTCTGTAAATCG
43477966 AGGGTA
1 AGGGTA
43477972 TTTTGGTAAT
Statistics
Matches: 318, Mismatches: 59, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 29 0.09
27 283 0.89
28 6 0.02
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTCTGTAAATCG
Found at i:43477758 original size:81 final size:81
Alignment explanation
Indices: 43477562--43477971 Score: 536
Period size: 81 Copynumber: 5.1 Consensus size: 81
43477552 TTAACACCCT
* * * *
43477562 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATTGACGGTAAAACA
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
* *
43477627 GTAATTTTGTAAAT-G
66 GTAATTCTATAAATCG
* * * ** *
43477642 AGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAAATTTGTAAATTAAGGGTAAAACG
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
43477707 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
* * * ** * *
43477723 AGGTTAAAATAGTAATTCTGTAAATTGAGCGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATA
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
*
43477788 GTAATTCTATAAGTCG
66 GTAATTCTATAAATCG
* * * ** * *
43477804 AGGTTAAAATGGTAATTCCGTAAATTAAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACA
1 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
43477869 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*
43477885 AGGGTAAAATAGTAATT-TGGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAAC
1 AGGGTAAAATAGTAATTCT-GTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
*
43477949 TGTAATTCTATAAATCG
65 AGTAATTCTATAAATCG
43477966 AGGGTA
1 AGGGTA
43477972 TTTTGGTAAT
Statistics
Matches: 288, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
80 69 0.24
81 219 0.76
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
GTAATTCTATAAATCG
Found at i:43477980 original size:27 final size:27
Alignment explanation
Indices: 43477923--43478144 Score: 218
Period size: 27 Copynumber: 8.2 Consensus size: 27
43477913 GGGTAAAATA
* ***
43477923 GTAATTTTATAAATCGAGGGTAAAACT-
1 GTAATTTTACAAATCGAGGGT-ATTTTG
* *
43477950 GTAATTCTATAAATCGAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTG
* **
43477977 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTTG
* **
43478004 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTTG
*
43478031 GTAATTTCACAAATC-AGAGGTATTTTG
1 GTAATTTTACAAATCGAG-GGTATTTTG
*
43478058 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTTG
*
43478085 GTAATTTTACAAA-CCAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTTG
* * *
43478112 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTG
43478139 GTAATT
1 GTAATT
43478145 CTACCCTACA
Statistics
Matches: 173, Mismatches: 17, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
26 5 0.03
27 165 0.95
28 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTG
Found at i:43478007 original size:81 final size:80
Alignment explanation
Indices: 43477571--43478069 Score: 341
Period size: 81 Copynumber: 6.2 Consensus size: 80
43477561 TAGGGTAAAA
* * * *
43477571 TGGTAATTCTATA-AATCGAGGGTAAAATAGTAATTTTGTAAATTGACGGTAAAACAGTAATTTT
1 TGGTAATT-T-TACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
* ***
43477635 GTAAAT-GAGGGTAAAA
64 ATAAATCGAGGGTATTT
** * * * ** *
43477651 CAGTAATTCTGTA-AATCGAGGATAAAATAGTAAATTTGTAAATTAAGGGTAAAACGGTAATTCT
1 TGGTAATT-T-TACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
* ***
43477715 ATAAATCGAGGTTAAAA
64 ATAAATCGAGGGTATTT
* * * ** * * *
43477732 TAGTAATTCTGTA-AATTGAGCGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCT
1 TGGTAATT-T-TACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
* * ***
43477796 ATAAGTCGAGGTTAAAA
64 ATAAATCGAGGGTATTT
* ** * * *
43477813 TGGTAATTCCGTA-AATTAAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCT
1 TGGTAATT--TTACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
***
43477877 ATAAATCGAGGGTAAAA
64 ATAAATCGAGGGTATTT
* *
43477894 TAGTAATTTGGTA-AATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACTGTAATTCT
1 TGGTAATTT--TACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
43477958 ATAAATCGAGGGTATTT
64 ATAAATCGAGGGTATTT
** * * ***
43477975 TGGTAATTTTACAAGTCGAGGGT-ATTTCAGTAATTTTACAAGTCGAGGGTATTTCAGTAATT-T
1 TGGTAATTTTACAA-TCGAGGGTAAAAT-AGTAATTTTATAAATCGAGGGTAAAACAGTAATTCT
*
43478038 CACAAATC-AGAGGTATTT
64 -ATAAATCGAG-GGTATTT
43478056 TGGTAATTTTACAA
1 TGGTAATTTTACAA
43478070 ACTAGGGGTA
Statistics
Matches: 357, Mismatches: 53, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 67 0.19
81 287 0.80
82 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.33
Consensus pattern (80 bp):
TGGTAATTTTACAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTAT
AAATCGAGGGTATTT
Found at i:43478008 original size:54 final size:54
Alignment explanation
Indices: 43477896--43478144 Score: 216
Period size: 54 Copynumber: 4.6 Consensus size: 54
43477886 GGGTAAAATA
** *** * * *** *
43477896 GTAATTTGGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACT
1 GTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
* * *
43477950 GTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
* * ** * *
43478004 GTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATC-AGAGGTATTTTG
1 GTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAATCGAG-GGTATTTCG
* * * *
43478058 GTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTG
1 GTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCG
* *
43478112 GTAATTTTATAAACCAAGGGTATTTTGGTAATT
1 GTAATTTTATAAATCGAGGGTATTTTGGTAATT
43478145 CTACCCTACA
Statistics
Matches: 161, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.03
54 153 0.95
55 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
Found at i:43478079 original size:81 final size:82
Alignment explanation
Indices: 43477960--43478196 Score: 227
Period size: 81 Copynumber: 2.9 Consensus size: 82
43477950 GTAATTCTAT
* * **
43477960 AAATC-GAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAGTC-GAGG
1 AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAAACCAG-GG
43478023 GTATTTCAGTAATTTCAC
65 GTATTTCAGTAATTTCAC
**
43478041 AAATCAGA-GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAGGG
1 AAATCAGAGGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAGTAATTTTACAAACCAGGG
** * *
43478104 GTATTTTGGTAATTTTAT
65 GTATTTCAGTAATTTCAC
* * * * * * ** *
43478122 AAACCA-AGGGTATTTTGGTAATTCTAC-CCTACAGGGCATTTCAGTAATTCTACCCTA-CAAGG
1 AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTA-CAAACCAGGG
43478184 GTATTTCAGTAAT
65 GTATTTCAGTAAT
43478197 GCTAGCCTAT
Statistics
Matches: 127, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
79 3 0.02
80 31 0.24
81 86 0.68
82 7 0.06
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (82 bp):
AAATCAGAGGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAAACCAGGGG
TATTTCAGTAATTTCAC
Found at i:43478168 original size:26 final size:27
Alignment explanation
Indices: 43478139--43478205 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
43478129 GGGTATTTTG
43478139 GTAATTCTACCCTAC-AGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
43478165 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
43478192 GTAATGCTAGCCTA
1 GTAATTCTACCCTA
43478206 TAGATATGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:43478192 original size:27 final size:27
Alignment explanation
Indices: 43478126--43478205 Score: 108
Period size: 26 Copynumber: 3.0 Consensus size: 27
43478116 TTTTATAAAC
**
43478126 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
43478153 C-AGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
43478179 CAAGGGTATTTCAGTAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
43478206 TAGATATGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 23 0.50
27 23 0.50
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:43480323 original size:27 final size:27
Alignment explanation
Indices: 43480275--43480326 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
43480265 GCGAGGCTGC
* *
43480275 CAGATATTGTGACAATGTCACCAGATA
1 CAGATATTGTGACAAGGCCACCAGATA
* *
43480302 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACAAGGCCACCAGA
43480327 ACAAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACAAGGCCACCAGATA
Found at i:43480692 original size:27 final size:27
Alignment explanation
Indices: 43480662--43481065 Score: 368
Period size: 27 Copynumber: 15.1 Consensus size: 27
43480652 AATACCCTAG
* *
43480662 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
43480689 GGGTAAAATAGTTAA-TCTGTAAATCGA
1 GGGTAAAA-CGGTAATTCTATAAATCGA
* * * * * *
43480716 GGGTAGAACAGTAATTTTGTAAGTTGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
43480743 GGGTAAAATGATAATTCTATAAATTGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* ** * * *
43480770 -GGAAAAATAGTAATTTTGTAACTCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
43480796 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** * *
43480823 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
43480850 GGGTAGAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
43480877 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* ***
43480904 AGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
43480931 GGGTAAAACGATAATT-T-TGAAATCGA
1 GGGTAAAACGGTAATTCTAT-AAATCGA
*
43480957 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
43480984 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
43481011 GGGTAAAACAGTAATTCTATAAAT-TA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
43481037 AGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
43481064 GG
1 GG
43481066 TTACTTTGGT
Statistics
Matches: 306, Mismatches: 64, Indels: 14
0.80 0.17 0.04
Matches are distributed among these distances:
25 1 0.00
26 67 0.22
27 233 0.76
28 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:43480731 original size:54 final size:54
Alignment explanation
Indices: 43480662--43481065 Score: 406
Period size: 54 Copynumber: 7.5 Consensus size: 54
43480652 AATACCCTAG
** * *
43480662 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTTAA-TCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGA
* * * *
43480716 GGGTAGAACAGTAATTTTGTAAGTTGAGGGTAAAAT-GATAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGA
* * * ** * *
43480770 -GGAAAAATAGTAATTTTGTAACTCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* * * * ** * *
43480823 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAGAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* * * * *
43480877 GGGTAAAACAGTAATTCTATAAATTGAAGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*
43480931 GGGTAAAAC-GATAATTTTG-AAATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* * * *
43480984 GGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAAT-TA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* * * *
43481037 AGGTAAAACGGTAATTCTATAAATCGAGG
1 GGGTAAAACAGTAATTTTGTAAATCGAGG
43481066 TTACTTTGGT
Statistics
Matches: 298, Mismatches: 46, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
53 120 0.40
54 178 0.60
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
Found at i:43481081 original size:80 final size:78
Alignment explanation
Indices: 43480662--43481065 Score: 364
Period size: 80 Copynumber: 5.0 Consensus size: 78
43480652 AATACCCTAG
* * * * * * *
43480662 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTTAATCTGTAAATCGAGGGTAGAACAG
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAA-CG-TAAT-TTTAAATCGAGGGTAAAACAG
* * * *
43480727 TAATTTTGTAAGTTGA
63 TAATTCTATAAATCGA
* ** * * * *
43480743 GGGTAAAAT-GATAATTCTATAAATTGA-GGAAAAATAGTAATTTTGTAACTCGAGGGTAAAACG
1 GGGTAAAATAG-TAATTCTGTAAATCAAGGGTAAAA-CGTAA-TTT-TAAATCGAGGGTAAAACA
* *
43480806 GTAATTTTGTAAATCGA
62 GTAATTCTATAAATCGA
*
43480823 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAGAACGGTAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC-GTAA-TTT-TAAATCGAGGGTAAAACAG
*
43480888 TAATTCTATAAATTGA
63 TAATTCTATAAATCGA
* * * *
43480904 AGGTAAAATAATAATTCTATAAATCGAGGGTAAAACGATAATTTTGAAATCGAGGGTAAAACAGT
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACG-TAATTTT-AAATCGAGGGTAAAACAGT
43480969 AATTCTATAAATCGA
64 AATTCTATAAATCGA
** * * * *
43480984 GGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAAT-TAAGGTAAAACGG
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC-GTAATT-T-TAAATCGAGGGTAAAACAG
43481048 TAATTCTATAAATCGA
63 TAATTCTATAAATCGA
43481064 GG
1 GG
43481066 TTACTTTGGT
Statistics
Matches: 276, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.02
80 162 0.59
81 108 0.39
82 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (78 bp):
GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGTAATTTTAAATCGAGGGTAAAACAGTAA
TTCTATAAATCGA
Found at i:43481090 original size:27 final size:27
Alignment explanation
Indices: 43481045--43481214 Score: 103
Period size: 27 Copynumber: 6.3 Consensus size: 27
43481035 TAAGGTAAAA
* * * *
43481045 CGGTAATTCTATAAATCGAGGTTACTTT
1 CGGTAATTTTACAAGTCGAGGGTA-TTT
43481073 -GGTAATTTTACAAGTCGAGGGTATTT
1 CGGTAATTTTACAAGTCGAGGGTATTT
* * * *
43481099 CAGTAAATTTACAGGTCGAGGGAATTT
1 CGGTAATTTTACAAGTCGAGGGTATTT
* * * * *
43481126 CAGTAATTTCAAAAAT-TAGAGGTATTT
1 CGGTAATTTTACAAGTCGAG-GGTATTT
* * *
43481153 TGGTAATTTTACAA-ACTAGGGGTATTT
1 CGGTAATTTTACAAGTCGA-GGGTATTT
* ** *
43481180 TGGTAATTTTACAAACCAAGGGTATTT
1 CGGTAATTTTACAAGTCGAGGGTATTT
*
43481207 TGGTAATT
1 CGGTAATT
43481215 CTACCCTACA
Statistics
Matches: 115, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.04
27 107 0.93
28 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CGGTAATTTTACAAGTCGAGGGTATTT
Found at i:43481095 original size:134 final size:134
Alignment explanation
Indices: 43480662--43481065 Score: 571
Period size: 134 Copynumber: 3.0 Consensus size: 134
43480652 AATACCCTAG
* *
43480662 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATAGTTAA-TCTGTAAATCGAGGGTAGAACA
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAGAACG
* * * * * * *
43480726 GTAATTTTGTAAGTTGAGGGTAAAA-TGATAATTCTATAAATTGAGGAAAAATAGTAATTTTGTA
65 GTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTATAAATTAAGGTAAAATAGTAATTCTATA
*
43480790 ACTCGA
129 AATCGA
* *
43480796 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAGAACGG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAGAACGG
*
43480861 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAAGGTAAAATAATAATTCTATAA
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATT-AAGGTAAAATAGTAATTCTATAA
43480926 ATCGA
130 ATCGA
* * * * *
43480931 GGGTAAAACGATAATTTT-GAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGG
1 GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAGAACGG
* **
43480995 TAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATTAAGGTAAAACGGTAATTCTATAAA
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTAAGGTAAAATAGTAATTCTATAAA
43481060 TCGA
131 TCGA
43481064 GG
1 GG
43481066 TTACTTTGGT
Statistics
Matches: 244, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
133 30 0.12
134 174 0.71
135 40 0.16
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (134 bp):
GGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAGAACGG
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTAAGGTAAAATAGTAATTCTATAAA
TCGA
Found at i:43481267 original size:27 final size:27
Alignment explanation
Indices: 43481196--43481278 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
43481186 TTTTACAAAC
**
43481196 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
43481223 CAGGGGCATTTCTGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
43481250 CAAGGGTATTTCAATAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
43481277 CA
1 CA
43481279 GATATGAGAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:43491067 original size:64 final size:64
Alignment explanation
Indices: 43490987--43491170 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
43490977 AGACATTATG
* * *
43490987 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
43491051 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
43491116 AA
63 AA
* *
43491118 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGCT-CACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTG-TACACCATGTAG-ACAAGAGAGC
43491171 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43491302 original size:23 final size:23
Alignment explanation
Indices: 43491272--43491320 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
43491262 TTTGTGAGTT
43491272 TTGTGATGAATAAGTGCATGAAC
1 TTGTGATGAATAAGTGCATGAAC
43491295 TTGTGATGAATAAGTGCATGAAC
1 TTGTGATGAATAAGTGCATGAAC
43491318 TTG
1 TTG
43491321 GTTATGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
TTGTGATGAATAAGTGCATGAAC
Found at i:43497781 original size:129 final size:127
Alignment explanation
Indices: 43497573--43498084 Score: 613
Period size: 129 Copynumber: 4.0 Consensus size: 127
43497563 TGTGTTCTCA
* * *
43497573 TGTAAGACCACGTCAAGGAC-GTTGGCAT-GATATGTGATTACATGTAAGACCATGTCTGCG-AC
1 TGTAAGACC-CGTCTAGGACAG-TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGCA-
* * *
43497635 GTCGGCTTCGATATGTGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGATAAGTGATTAC
63 GT-GGCATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGCATCGATATGTGATTAC
43497700 G
127 G
* * * * *
43497701 TATAAGACCCTGTCTTGGACAGTGGCATCGATATGTGATTACGTGTAAGACCCTATCTGGAGCAA
1 TGTAAGACCC-GTCTAGGACAGTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGG-GCAG
* *
43497766 TGGCATCGATATGTGATTACGTGTAACACCACGTTTGGGACGTTGGCATC-ATTATGTGATTACG
64 TGGCATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGCATCGA-TATGTGATTACG
* * * * *
43497830 TGTAAGACGACGTCTGGGACATTGGCATTGATATGTGATTACGTGTAAGACCTTGTCTGGGACAG
1 TGTAAGAC-CCGTCTAGGACAGTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGG-CAG
* * *
43497895 TGGCATCGATATGTGATTACGTGTAATACCACGTTTGGGACGCTGGCATCGATATGTGATTACG
64 TGGCATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGCATCGATATGTGATTACG
* * *
43497959 TGTAAGACCCAATCTACGACAGTGGCATCGATATGTG-TTCTCGTGTAAGACCATGTCTGGG-AT
1 TGTAAGACCC-GTCTAGGACAGTGGCATCGATATGTGATT-ACGTGTAAGACCATGTCTGGGCA-
* * * *
43498022 GTTGGCATCGATATGTGATTAAGTGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATT
63 G-TGGCATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGCATCGATATGTGATT
43498085 CCGATATATG
Statistics
Matches: 333, Mismatches: 38, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
127 2 0.01
128 27 0.08
129 299 0.90
130 4 0.01
131 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (127 bp):
TGTAAGACCCGTCTAGGACAGTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGCAGTG
GCATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGCATCGATATGTGATTACG
Found at i:43498069 original size:43 final size:43
Alignment explanation
Indices: 43497573--43498084 Score: 549
Period size: 43 Copynumber: 11.9 Consensus size: 43
43497563 TGTGTTCTCA
** *
43497573 TGTAAGACCACGTCAAGGACGTTGGCAT-GATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
43497615 TGTAAGACCATGTCTGCGACGTCGGCTTCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
43497658 TGTAAGACCACGTCTGAGACGTTGGCATCGATAAGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
43497701 TATAAGACC-CTGTCTTGGACAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACG
* **
43497744 TGTAAGACC-CTATCT-GGAGCAATGGCATCGATATGTGATTACG
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTACG
* *
43497787 TGTAACACCACGTTTGGGACGTTGGCATC-ATTATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTACG
* * *
43497830 TGTAAGACGACGTCTGGGACATTGGCATTGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
**
43497873 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTACG
* * *
43497916 TGTAATACCACGTTTGGGACGCTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* ** *
43497959 TGTAAGACC-CAATCTACGACAG-TGGCATCGATATGTG-TTCTCG
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT-ACG
* * *
43498002 TGTAAGACCATGTCTGGGATGTTGGCATCGATATGTGATTAAG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *** *
43498045 TGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT
43498085 CCGATATATG
Statistics
Matches: 395, Mismatches: 58, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.08
43 354 0.90
44 9 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:43501904 original size:27 final size:27
Alignment explanation
Indices: 43501885--43501976 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
43501875 ATTACTAAAG
*
43501885 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
43501912 TACCCTCGATCTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
43501939 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
43501966 TACCCTCGATT
1 TACCCTCGATT
43501977 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:43501919 original size:54 final size:52
Alignment explanation
Indices: 43501860--43502069 Score: 161
Period size: 54 Copynumber: 3.9 Consensus size: 52
43501850 TATTGAAATG
* *
43501860 CCCTCGACTTGTAAAATTACTAAAGTACCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGA-TTGTAAAATTACTAAA-TACCCTCGATTTACAAAATTACCATTTTA
* * * **
43501914 CCCTCGATCTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGAT-TGTAAAATTACTA-AATACCCTCGATTTACAAAATTACCATTTTA
* * * ***
43501968 CCCTCGATTGTGAAATTACTGAAATACCC-CTAGTTTGCAAAATTACCAAAATA
1 CCCTCGATTGTAAAATTACT-AAATACCCTCGA-TTTACAAAATTACCATTTTA
* * * * * **
43502021 CCACTGGTTTGTGAAATTACAGAAATACCCTCAATTTGTAAAATTACCA
1 CC-CTCGATTGTAAAATTAC-TAAATACCCTCGATTTACAAAATTACCA
43502070 AAATACCCCT
Statistics
Matches: 126, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 32 0.25
54 90 0.71
55 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (52 bp):
CCCTCGATTGTAAAATTACTAAATACCCTCGATTTACAAAATTACCATTTTA
Found at i:43502009 original size:53 final size:54
Alignment explanation
Indices: 43501939--43502105 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 54
43501929 ATTACCATTT
* * *** *
43501939 TACCCTCGATTTACAAAATTACCATTTTACC-CTCGATTGTGAAATTACTGAAA
1 TACCCTCAATTTGCAAAATTACCAAAATACCACTCGATTGTGAAATTACAGAAA
* * *
43501992 TACCC-CTAGTTTGCAAAATTACCAAAATACCACTGGTTTGTGAAATTACAGAAA
1 TACCCTC-AATTTGCAAAATTACCAAAATACCACTCGATTGTGAAATTACAGAAA
* * *
43502046 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAATTACAGAAA
1 TACCCTCAATTTGCAAAATTACCAAAATACCACTCGATTGT--GAAATTACAGAAA
43502100 TACCCT
1 TACCCT
43502106 TGACTTTCTA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 26 0.27
54 66 0.69
55 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGCAAAATTACCAAAATACCACTCGATTGTGAAATTACAGAAA
Found at i:43502070 original size:54 final size:55
Alignment explanation
Indices: 43501975--43502105 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 55
43501965 TTACCCTCGA
* * *
43501975 TTGTGAAATTACTGAAATACCC-CTAGTTTGCAAAATTACCAAAATACCACTGGT
1 TTGTGAAATTACAGAAATACCCTCTAATTTGCAAAATTACCAAAATACCACTGAT
* *
43502029 TTGTGAAATTACAGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGAT
1 TTGTGAAATTACAGAAATACCCTCTAATTTGCAAAATTACCAAAATACCACTGAT
***
43502083 TTACAAAATTACAGAAATACCCT
1 TTGTGAAATTACAGAAATACCCT
43502106 TGACTTTCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (55 bp):
TTGTGAAATTACAGAAATACCCTCTAATTTGCAAAATTACCAAAATACCACTGAT
Found at i:43502142 original size:56 final size:55
Alignment explanation
Indices: 43501980--43502163 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 55
43501970 CTCGATTGTG
* * * * * ***
43501980 AAATTACTGAAATACCCCT-AGTTTGC-AAAATTACCAAAATACCACTGGTTTGTG
1 AAATTACAGAAATACCCTTGAATTT-CTAAAATTACCAAAATACCCCTGATTTACA
* *
43502034 AAATTACAGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACAGAAATACCCTTGAATTTCTAAAATTACCAAAATACCCCTGATTTACA
* * ** *
43502088 AAATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCTTTGGTTTACA
1 AAATTACAGAAATACCCTTGAATTTCT-AAAATTACCA-AAATACCCCTGATTTACA
*
43502144 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
43502164 GTTTGTAGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.55
55 7 0.06
56 41 0.38
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (55 bp):
AAATTACAGAAATACCCTTGAATTTCTAAAATTACCAAAATACCCCTGATTTACA
Found at i:43502155 original size:27 final size:27
Alignment explanation
Indices: 43501980--43502167 Score: 121
Period size: 27 Copynumber: 6.9 Consensus size: 27
43501970 CTCGATTGTG
* * *
43501980 AAATTACTGAAATACCCCTAGTTTGCA
1 AAATTACTGAAATACCCTTGGTTTACA
** ***
43502007 AAATTACCAAAATACCAC-TGGTTTGTG
1 AAATTACTGAAATACC-CTTGGTTTACA
* *** **
43502034 AAATTACAGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGGTTTACA
** * *
43502061 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACTGAAATACCCTTGGTTTACA
* *
43502088 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACTGAAATACCCTTG-GTTTAC--A
*
43502117 AAATTA-TAGAAATACCTTTGGTTTACA
1 AAATTACT-GAAATACCCTTGGTTTACA
43502144 AAATTACTGAAATACCCTTGGTTT
1 AAATTACTGAAATACCCTTGGTTT
43502168 GTAGATTTAC
Statistics
Matches: 127, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
26 1 0.01
27 99 0.78
28 8 0.06
29 19 0.15
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGGTTTACA
Found at i:43503140 original size:24 final size:25
Alignment explanation
Indices: 43503069--43503151 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
43503059 AAGAAGTGCT
* * *
43503069 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
43503094 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
43503119 AAAAGGGCTTTACCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
43503143 AAAAAGGCT
1 AAAAGGGCT
43503152 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:43505505 original size:49 final size:49
Alignment explanation
Indices: 43505429--43505673 Score: 294
Period size: 49 Copynumber: 4.9 Consensus size: 49
43505419 TAGCCGAAGC
* *
43505429 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
43505478 TATCTGGTACACATAGTAGCCTACACTTAGAACTACCCACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * ** * *
43505528 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* *
43505579 TAT-TAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
43505628 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
43505674 TCACAATAGC
Statistics
Matches: 163, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 81 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:43508393 original size:15 final size:15
Alignment explanation
Indices: 43508364--43508402 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
43508354 AACAGAGAAG
43508364 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
43508380 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
43508395 CCATGATA
1 CCAAGATA
43508403 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:43513183 original size:48 final size:48
Alignment explanation
Indices: 43513121--43513217 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
43513111 TATATATGTG
*
43513121 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
43513169 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
43513217 T
1 T
43513218 ATTGTGGCCG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:43515181 original size:43 final size:43
Alignment explanation
Indices: 43515115--43515333 Score: 366
Period size: 43 Copynumber: 5.1 Consensus size: 43
43515105 TGAAACTCGT
*
43515115 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
43515158 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* *
43515201 TGATATGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCTGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
43515244 TGATATGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* * **
43515287 TGATATGTGTTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
43515330 TGAT
1 TGAT
43515334 TCGAGCAAGG
Statistics
Matches: 165, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 165 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
Found at i:43515586 original size:28 final size:28
Alignment explanation
Indices: 43515512--43515594 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
43515502 CAAATTTTGT
43515512 TAACCGAGCACTATGTGTGCGAGATCAG
1 TAACCGAGCACTATGTGTGCGAGATCAG
** * * *
43515540 TAATTGAGGCACTGTGTGTGCGAGTTC-T
1 TAACCGA-GCACTATGTGTGCGAGATCAG
*
43515568 TCAACCGAGCACTATGTGTGCAAGATC
1 T-AACCGAGCACTATGTGTGCGAGATC
43515595 GGTCAGTGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (28 bp):
TAACCGAGCACTATGTGTGCGAGATCAG
Found at i:43519058 original size:48 final size:50
Alignment explanation
Indices: 43518982--43519089 Score: 157
Period size: 48 Copynumber: 2.2 Consensus size: 50
43518972 TACAAGATAA
* * *
43518982 ATATATATATGTGTGATAAATCCGAATGGATAGTGTGAAATATGTATGAG
1 ATATGTATATGTGTGATAAAGCCGAATGGATAATGTGAAATATGTATGAG
*
43519032 ATATGTATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGTGATAAAGCCGAATGGATAATGTGAAATATGTATGAG
*
43519080 ATGTGTATAT
1 ATATGTATAT
43519090 ATTGTGGCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
48 40 0.75
49 1 0.02
50 12 0.23
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (50 bp):
ATATGTATATGTGTGATAAAGCCGAATGGATAATGTGAAATATGTATGAG
Found at i:43520670 original size:49 final size:48
Alignment explanation
Indices: 43520591--43520829 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 48
43520581 AAGCTATCTG
* *
43520591 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CA
** * ** *
43520640 GTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCA
** * *
43520689 GATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCA
1 G-TACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCA
* * *
43520740 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTG
1 -GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC-A
*
43520790 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
43520830 TCACAATAGC
Statistics
Matches: 162, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 79 0.49
50 46 0.28
51 36 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCA
Found at i:43528123 original size:22 final size:22
Alignment explanation
Indices: 43528081--43528124 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43528071 AATTATTTAC
* *
43528081 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
43528103 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
43528125 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:43528436 original size:40 final size:40
Alignment explanation
Indices: 43528351--43528572 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
43528341 AACCCAAGTA
* * *
43528351 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
* *
43528390 CCTTCGGGTCTTAGCCCGGGA-ATAGTCAATAGCATAAAAG
1 CCTTCGGGACTTAGCCC-GGATATAGTCAATAGCACAAAAG
* *
43528430 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* * *
43528470 CCTTTGGGACTTAGCCCGGATATATTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
43528510 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
43528550 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43528573 CATTCGAATA
Statistics
Matches: 163, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 15 0.09
40 142 0.87
41 6 0.04
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:43535655 original size:22 final size:22
Alignment explanation
Indices: 43535613--43535656 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43535603 AATTATTTAC
* *
43535613 GACTAAAGTATAGCATTCATAT
1 GACTAAAGAATAGCATGCATAT
43535635 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCATGCATAT
43535657 ATGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCATGCATAT
Found at i:43535958 original size:40 final size:40
Alignment explanation
Indices: 43535883--43536104 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
43535873 AACCCAAGTA
* *
43535883 CCTTCCGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
* *
43535922 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43535962 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43536002 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43536042 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAC-AAATG
*
43536082 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43536105 CATTCGAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 12 0.07
40 148 0.89
41 7 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:43538062 original size:261 final size:261
Alignment explanation
Indices: 43537598--43538121 Score: 949
Period size: 261 Copynumber: 2.0 Consensus size: 261
43537588 ATAAGCTAGC
**
43537598 ATGATGGGACTTTAATAAGTTAAATTTGATTGAATTAGCTCAAGGGCATAGAGAACCAAGGTTGG
1 ATGATGGGACTTTAATAAGTTAAATTTGATTGAATTAGCTCAAAAGCATAGAGAACCAAGGTTGG
* *
43537663 ATAGGGGAAAAGTGAAAGTAGTTGAATAGCCGATCCGAGACTGCTCGAAAATATTCGAGGTAAGT
66 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGCTCGAAAATATTCGAGGTAAGT
43537728 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACAGATTATGAGAAATAAGTATTAC
131 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACAGATTATGAGAAATAAGTATTAC
*
43537793 TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAACATGTGATATGCTTTTAT
196 TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
43537858 G
261 G
* *
43537859 ATGATGGGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAAAGCATAGAGAACCAATGTTGG
1 ATGATGGGACTTTAATAAGTTAAATTTGATTGAATTAGCTCAAAAGCATAGAGAACCAAGGTTGG
*
43537924 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGTTCGAAAATATTCGAGGTAAGT
66 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGCTCGAAAATATTCGAGGTAAGT
* * *
43537989 TTTAAATAGTTAAACATAAATAATATTCGATAATGACATGACATATTATGAGAATTAAGTATTAC
131 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACAGATTATGAGAAATAAGTATTAC
43538054 TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
196 TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
43538119 G
261 G
43538120 AT
1 AT
43538122 CAAATGATAA
Statistics
Matches: 252, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
261 252 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (261 bp):
ATGATGGGACTTTAATAAGTTAAATTTGATTGAATTAGCTCAAAAGCATAGAGAACCAAGGTTGG
ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGCTCGAAAATATTCGAGGTAAGT
TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACAGATTATGAGAAATAAGTATTAC
TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
G
Found at i:43538367 original size:45 final size:45
Alignment explanation
Indices: 43538301--43538432 Score: 196
Period size: 45 Copynumber: 3.0 Consensus size: 45
43538291 TATTGTACAG
* * *
43538301 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTAGGTCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
43538346 TACTATTCGGTCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTAGGTCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
43538391 TACTATTTAGGT--TTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTA-TTAGGTCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
43538433 AATGATATCA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
44 29 0.36
45 46 0.57
46 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TACTATTAGGTCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:43541028 original size:27 final size:27
Alignment explanation
Indices: 43540998--43541198 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
43540988 TGAGTCCGCT
* * * *
43540998 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
43541025 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43541052 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
43541080 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
43541107 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
43541134 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43541161 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43541188 CACTTAGTGCT
1 CACTTAGTGCT
43541199 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:43545177 original size:27 final size:27
Alignment explanation
Indices: 43545147--43545347 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
43545137 TGAGTCCGCT
* * * *
43545147 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
43545174 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43545201 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
43545229 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
43545256 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
43545283 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43545310 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
43545337 CACTTAGTGCT
1 CACTTAGTGCT
43545348 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:43549846 original size:19 final size:19
Alignment explanation
Indices: 43549839--43549888 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
43549829 GTGACAGAAT
*
43549839 CAGAATCAGAATTAGGTGA
1 CAGAATTAGAATTAGGTGA
*
43549858 CAGAATTATAATTAGGTGA
1 CAGAATTAGAATTAGGTGA
43549877 CAGAATTAGAAT
1 CAGAATTAGAAT
43549889 CAGAATCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (19 bp):
CAGAATTAGAATTAGGTGA
Found at i:43549846 original size:25 final size:25
Alignment explanation
Indices: 43549808--43549863 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
43549798 AAATGAGAAT
* *
43549808 CAGAATCAGGATCAGGATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
*
43549833 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
43549858 CAGAAT
1 CAGAAT
43549864 TATAATTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:43549912 original size:25 final size:25
Alignment explanation
Indices: 43549808--43549922 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
43549798 AAATGAGAAT
* * *
43549808 CAGAATCAGGATCAGGATCAGGTGA
1 CAGAATCAGAATCAGTATCAGGTAA
* * *
43549833 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGTATCAGGTAA
* * *
43549858 CAGAATTATAATTAGGTGA-CA-G-AA
1 CAGAATCAGAATCA-GT-ATCAGGTAA
*
43549882 TTAGAATCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGTATCAGGTAA
*
43549908 CAGAATCAAAATCAG
1 CAGAATCAGAATCAG
43549923 AATGTGAATG
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 58 0.84
26 4 0.06
27 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATCAGGTAA
Found at i:43550564 original size:81 final size:81
Alignment explanation
Indices: 43550428--43550859 Score: 496
Period size: 81 Copynumber: 5.4 Consensus size: 81
43550418 AACACCCTAG
* * * *
43550428 GGGTAAAATGGTAATTTTATAAATC----GTAAAATAATAATTCTCTAAATCGATGGTAAAACAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
* *
43550489 TAATTTTTTAAATCGA
66 TAATTCTGTAAATCGA
* *
43550505 GGGTAAAATGGTAATTCTATAAATCGAGGATAAAATAATAATTTTATAAATCGAGGGTAAAACAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
43550570 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
** * ** *
43550586 GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGT-AAACAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
*
43550650 TAATTCTGTAAATTGA
66 TAATTCTGTAAATCGA
* * * * * *
43550666 AGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTTTGTAAATCTAGGGTAAAATAG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
43550731 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * * * * * **
43550747 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATGG
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
43550812 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
*** * * *
43550828 GGGTACTTTGGTAATTTTACAAGTCAAGGGTA
1 GGGTAAAATGGTAATTCTATAAATCAAGGGTA
43550860 TTTCAGTAAT
Statistics
Matches: 306, Mismatches: 44, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
77 24 0.08
80 74 0.24
81 208 0.68
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:43550843 original size:27 final size:27
Alignment explanation
Indices: 43550453--43550832 Score: 458
Period size: 27 Copynumber: 14.1 Consensus size: 27
43550443 TTTATAAATC
* * *
43550453 GTAAAATAATAATTCTCTAAATCGATG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* * *
43550480 GTAAAACAGTAATTTTTTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* *
43550507 GTAAAATGGTAATTCTATAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* * * *
43550534 ATAAAATAATAATTTTATAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
*
43550561 GTAAAACAGTAATTCTGTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* *
43550588 GTAAAACAGTAATTCTGTAAATCAAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* *
43550615 GTAAAATGGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* * *
43550642 GT-AAACAGTAATTCTGTAAATTGAAG
1 GTAAAATAGTAATTCTGTAAATCGAGG
** * *
43550668 GTAAAACGGTAATTCTATAAATCAAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* *
43550695 GTAAAAT-GATAATTTTGTAAATCTAGG
1 GTAAAATAG-TAATTCTGTAAATCGAGG
43550722 GTAAAATAGTAATTCTGTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
*
43550749 GTAAAATAGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
* * *
43550776 GTAAAACAGTAATTCTATAAATCAAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
*
43550803 GTAAAATGGTAATTCTGTAAATCGAGG
1 GTAAAATAGTAATTCTGTAAATCGAGG
43550830 GTA
1 GTA
43550833 CTTTGGTAAT
Statistics
Matches: 302, Mismatches: 48, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.07
27 279 0.92
28 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (27 bp):
GTAAAATAGTAATTCTGTAAATCGAGG
Found at i:43550857 original size:27 final size:27
Alignment explanation
Indices: 43550784--43551005 Score: 169
Period size: 27 Copynumber: 8.2 Consensus size: 27
43550774 GGGTAAAACA
* * ***
43550784 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTTTACAAATCAAGGGTATTTTG
* ** * *
43550811 GTAATTCTGTAAATCGAGGGTACTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* **
43550838 GTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTG
** * **
43550865 GTAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTG
* *
43550892 GCAATTTCACAAATCATA-GGTATTTTG
1 GTAATTTTACAAATCA-AGGGTATTTTG
*
43550919 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AAGGGTATTTTG
* *
43550946 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTG
* * * *
43550973 GTAATTTTATAAACCAATGGTATTTCG
1 GTAATTTTACAAATCAAGGGTATTTTG
43551000 GTAATT
1 GTAATT
43551006 CTACCCTACA
Statistics
Matches: 162, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 159 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTTG
Found at i:43551024 original size:27 final size:27
Alignment explanation
Indices: 43550994--43551070 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
43550984 AACCAATGGT
*
43550994 ATTTCGGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
43551021 ATTTCAGTAATTCTACCCTACAAGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
43551048 ATTTCAGTAATGCTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
43551071 ATATGAGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:43553469 original size:46 final size:46
Alignment explanation
Indices: 43553419--43553591 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
43553409 TGGTTGAGCA
*
43553419 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43553465 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
43553512 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43553558 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43553592 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43553575 original size:93 final size:93
Alignment explanation
Indices: 43553416--43553586 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
43553406 GGATGGTTGA
* *
43553416 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
43553481 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
43553509 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
43553574 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43553587 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43561047 original size:46 final size:46
Alignment explanation
Indices: 43560997--43561169 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
43560987 TGGTTGAGCA
*
43560997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43561043 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
43561090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43561136 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43561170 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43561153 original size:93 final size:93
Alignment explanation
Indices: 43560994--43561164 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
43560984 GGATGGTTGA
* *
43560994 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
43561059 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
43561087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
43561152 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43561165 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43561431 original size:19 final size:20
Alignment explanation
Indices: 43561394--43561431 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43561384 ATAAGGTGGT
43561394 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
43561414 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
43561432 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:43570280 original size:40 final size:40
Alignment explanation
Indices: 43570236--43570382 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
43570226 CCAACCCAAT
* *
43570236 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
43570276 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
43570316 TGCCTTCGGGACTTAACCCGGATCTAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
43570356 TGCCTTCAGGACTTAACCTGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
43570383 TCCTCAATTG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:43578166 original size:40 final size:40
Alignment explanation
Indices: 43577946--43578168 Score: 383
Period size: 40 Copynumber: 5.6 Consensus size: 40
43577936 CCAACCCAAT
* * *
43577946 TGCCTTCGGGATTTAGCCCGAATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
43577986 TGCCTTCGGGACTTAACCCAGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
43578026 TGCCTTCGGGACTTAACCCGAATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
43578066 TGCCTTCGGGACTTAACCAGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
43578106 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
43578146 TGCCTTCGGGACTTAACCCGGAT
1 TGCCTTCGGGACTTAACCCGGAT
43578169 TTAATCCTCA
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:43581900 original size:53 final size:54
Alignment explanation
Indices: 43581838--43581970 Score: 162
Period size: 53 Copynumber: 2.5 Consensus size: 54
43581828 AGACATTATG
* * * * *
43581838 ATGTAGCTAGGTCGCATGGGTGATACTATGTG-TACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGGTGAGACAAGAGAGCTACGAGATAA
* * *
43581891 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAGACAAGAGAGCTACGAGATAA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGGTGAGACAAGAGAGCTACGAGATAA
* *
43581945 AT-TGGCTAGGTCACATGGGTGGTACT
1 ATGTAGCTAGGTCGCATGGGTGGTACT
43581971 GAGTGTTCGC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
53 46 0.70
54 20 0.30
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (54 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGGTGAGACAAGAGAGCTACGAGATAA
Found at i:43584060 original size:18 final size:18
Alignment explanation
Indices: 43584037--43584072 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43584027 TTAGGTACTC
*
43584037 AAAGAAATCGGTTTTGGG
1 AAAGAAATCGGCTTTGGG
*
43584055 AAAGAATTCGGCTTTGGG
1 AAAGAAATCGGCTTTGGG
43584073 TGAGTTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.28
Consensus pattern (18 bp):
AAAGAAATCGGCTTTGGG
Found at i:43588442 original size:43 final size:43
Alignment explanation
Indices: 43588395--43588906 Score: 520
Period size: 43 Copynumber: 11.9 Consensus size: 43
43588385 TATGTTCTCA
** *
43588395 TGTAAGACCACGTCAAGGACGTTGGCATCGACATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
43588438 TGTAAGACCATGTCTGCGACGTCGGCTTCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
43588481 TGTAAGACCACGTCTGAGACGTTGGCATCGATAAGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
43588524 TATAAGACC-CTGTCTTGGACAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACG
* * ** * *
43588567 TGTAAGACC-CTATCTGGAACAATAGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATATGTGATTACG
* * *
43588610 TGTAACACCACATTTGGGACGTTGGCATC-ATTATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTACG
* * *
43588653 TGTAAGACGACGTCTGGGACGTTGGCATTGATATGTAATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
**
43588696 TGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTACG
* * * *
43588739 TGTAATACCACGTTTGGGACGTTGGCATCGACATG-AATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
43588781 TGTAAGACC-CAATCTAGGACAG-TGGCATCAATATGTG-TTCTCG
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT-ACG
* * *
43588824 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTAATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * ***
43588867 TGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT
43588907 CGGATATGTG
Statistics
Matches: 385, Mismatches: 69, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.00
42 36 0.09
43 341 0.89
44 7 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:43592700 original size:27 final size:27
Alignment explanation
Indices: 43592670--43592758 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
43592660 ACTAAAGTAA
43592670 CCTCGATTTACAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTATCGTTTTAC
* * *
43592697 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTATCGTTTTAC
*
43592724 CCTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTACAGAATTATCGTTTTAC
43592751 CCTCGATT
1 CCTCGATT
43592759 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTATCGTTTTAC
Found at i:43592700 original size:54 final size:53
Alignment explanation
Indices: 43592642--43592772 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 53
43592632 TATTGAAATG
*
43592642 CCCTCGACTTGTAAAATTACTAAAGTAACCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGA-TTGTAAAATTACTAAAGTAACCTCGATTTACAAAATTATCGTTTTA
* *** *
43592696 CCCTCGATT-TATAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTGTA-A-AATTACTAAAGTAACCTCGATTTACAAAATTATCGTTTTA
*
43592750 CCCTCGATTGTGAAATTACTAAA
1 CCCTCGATTGTAAAATTACTAAA
43592773 ATACCCCCTG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.03
53 10 0.16
54 51 0.80
55 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (53 bp):
CCCTCGATTGTAAAATTACTAAAGTAACCTCGATTTACAAAATTATCGTTTTA
Found at i:43592826 original size:27 final size:27
Alignment explanation
Indices: 43592791--43593026 Score: 192
Period size: 27 Copynumber: 8.7 Consensus size: 27
43592781 TGTAGGATAG
43592791 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
43592818 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
43592845 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* * *
43592872 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
43592899 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* *
43592926 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
* * * **
43592955 AATTA-TAGAAATACCTTTGGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** * *
43592982 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
43593009 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
43593027 GTAGGATGAA
Statistics
Matches: 168, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 139 0.83
28 8 0.05
29 18 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:43592829 original size:55 final size:55
Alignment explanation
Indices: 43592757--43592913 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 55
43592747 TTACCCTCGA
* *
43592757 TTGTGAAATTACTAAAATACCCCCT-GTAGGATAGAATTACCAAAATACC-CTTAGT
1 TTGTGAAATTACCAAAATACCCCCTAGTAGG-TAAAATTACCAAAATACCAC-TAGT
* ** *
43592812 TTGTAAAATTACCAAAATA-CCCCTAGTTTGTAAAATTACCAAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * * **
43592866 TTGTGAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCCTAGTAGGTAAAATTACCAAAATACC
43592914 CCTGATTTAC
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
54 65 0.73
55 24 0.27
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (55 bp):
TTGTGAAATTACCAAAATACCCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:43592833 original size:81 final size:80
Alignment explanation
Indices: 43592748--43592914 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 80
43592738 ATTATCGTTT
* * * * * *
43592748 TACCCTCGATTGTGAAATTACTAAAATACCCCCT-GTAGGAT-AGAATTACCAAAATACCCTTAG
1 TACCCTAGATTGTAAAATTACCAAAATA-CCACTGGTAGG-TGA-AATTACCAAAATACCCTCAA
43592811 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* ** *
43592829 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATT
1 TA-CCCTAGATTGTAAAATTACCAAAATACCACTGGTAGGTGAAATTACCAAAATACCCTCAATT
43592894 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
43592910 TACCC
1 TACCC
43592915 CTGATTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.04
81 44 0.60
82 26 0.36
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (80 bp):
TACCCTAGATTGTAAAATTACCAAAATACCACTGGTAGGTGAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:43592928 original size:81 final size:81
Alignment explanation
Indices: 43592791--43592940 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
43592781 TGTAGGATAG
* * **
43592791 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAGAA
43592855 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
43592872 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAGAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGAA
43592936 ATACC
65 ATACC
43592941 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 3 0.05
81 59 0.95
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:43596035 original size:37 final size:37
Alignment explanation
Indices: 43595985--43596063 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43595975 TTATTACGAA
* *
43595985 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43596022 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43596059 GTCTT
1 GTCTT
43596064 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43596295 original size:47 final size:47
Alignment explanation
Indices: 43596182--43596893 Score: 1232
Period size: 47 Copynumber: 15.1 Consensus size: 47
43596172 CCCTTCGGGA
* * * * * * *
43596182 CTTATCACATTTATGCACTTTCACATCCATCACGT-TGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
43596228 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596275 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596322 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596369 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596463 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596510 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596557 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596603 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596652 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596699 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43596792 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43596839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
43596887 CTTATCA
1 CTTATCA
43596894 TCATTTCATA
Statistics
Matches: 635, Mismatches: 25, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
46 86 0.14
47 490 0.77
48 46 0.07
49 13 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43600166 original size:40 final size:39
Alignment explanation
Indices: 43600122--43600302 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 39
43600112 CCAGCATGAT
* *
43600122 TGCTCTTCGGGACCTAGCCCGGATATAACATCATTA-C-GAA
1 TGCTCTTCGGGACTTAGCCCGG--AT-ACATCACTAGCAGAA
*
43600162 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-GAA
*
43600202 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-GAA
*
43600242 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-GAA
43600282 TGCTCTTCGGGACTTAGCCCG
1 TGCTCTTCGGGACTTAGCCCG
43600303 TATTTAGTAA
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
37 8 0.06
38 3 0.02
40 121 0.92
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAGAA
Found at i:43600330 original size:40 final size:40
Alignment explanation
Indices: 43600126--43600384 Score: 142
Period size: 40 Copynumber: 6.5 Consensus size: 40
43600116 CATGATTGCT
* ** * *
43600126 CTTCGGGACCTAGCCCGGATATAACATCATTA-C-GAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAAC-TTAGCACAATGC
* * * *
43600165 TCTTCGGAACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * *
43600205 TCTTCGGGACTTAGTCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * *
43600245 TCTTCGGGACTTAGTCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * *
43600285 TCTTCGGGACTTAGCCCGTATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * *
43600326 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAATGC
43600366 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
43600385 CATCATTCGA
Statistics
Matches: 188, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 4 0.02
40 162 0.86
41 19 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAATGC
Found at i:43600330 original size:80 final size:79
Alignment explanation
Indices: 43600109--43600384 Score: 283
Period size: 80 Copynumber: 3.5 Consensus size: 79
43600099 CGAATACACG
* * * ** *
43600109 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGA-TATAACATCATTACGAATGCTCTTCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTATAAC-TC-GCACGAATGCTCTTCGGG
*
43600173 ACTTAGCCCGGATACA
64 ACTTAGTCCGGATACA
* * * * *
43600189 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-TATAACTCGCACGAATGCTCTTCGGGA
43600254 CTTAGTCCGGATACA
65 CTTAGTCCGGATACA
* *
43600269 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGTATTTAGTAACTCGCACCAATGC-CTTC-GG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA-TTA-TAACTCGCACGAATGCTCTTCGGG
**
43600332 ATCTTAGTCCGGATATGG
64 A-CTTAGTCCGGATA-CA
* *
43600350 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
43600385 CATCATTCGA
Statistics
Matches: 165, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.02
80 131 0.79
81 22 0.13
82 9 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTATAACTCGCACGAATGCTCTTCGGGAC
TTAGTCCGGATACA
Found at i:43600370 original size:120 final size:120
Alignment explanation
Indices: 43600123--43600384 Score: 277
Period size: 120 Copynumber: 2.2 Consensus size: 120
43600113 CAGCATGATT
* *
43600123 GCTCTTCGGGACCTAGCCCGGATATAACATCATTA-C--GAATGCTCTTCGGAACTTAGCCCGGA
1 GCTCTTCGGGACTTAGCCCGG--AT-ACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGA
* ** * *
43600185 TACATCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAAT
63 TACATAACTAGCACCAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATCAAA
* * * **
43600243 GCTCTTCGGGACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGTATTT
1 GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATAC
* **
43600308 AGTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAA
66 A-TAACTAGCACCAATGCTCTTCGGGA-CTTAGTCCGGATA-CATCAC-TAGCATCAAA
43600364 GC-CTTCGGGACTTAGCCCGGA
1 GCTCTTCGGGACTTAGCCCGGA
43600385 CATCATTCGA
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
117 8 0.07
118 3 0.03
119 3 0.03
120 80 0.67
121 20 0.17
122 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
GCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATAC
ATAACTAGCACCAATGCTCTTCGGGACTTAGTCCGGATACATCACTAGCATCAAA
Found at i:43600734 original size:29 final size:29
Alignment explanation
Indices: 43600700--43600770 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
43600690 TCAACCACGT
* *
43600700 ACACTTAGTGCCATGTACTTT-AAACTCGC
1 ACACTTAGTGCCATGCA-TTTCAAACCCGC
*
43600729 ACACTTAGTGCCATGCATTTCAAGCCCGC
1 ACACTTAGTGCCATGCATTTCAAACCCGC
43600758 ACACTTAGTGCCA
1 ACACTTAGTGCCA
43600771 ATCTTACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
ACACTTAGTGCCATGCATTTCAAACCCGC
Found at i:43600813 original size:43 final size:43
Alignment explanation
Indices: 43600752--43600897 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
43600742 TGCATTTCAA
*
43600752 GCCCGCACACTTAGTGCCAATCTTACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43600795 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43600838 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
43600881 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
43600898 TGAAAACCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:43602795 original size:36 final size:36
Alignment explanation
Indices: 43602748--43602824 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
43602738 TTATTACGAA
* *
43602748 GTCTTACCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCGGACAAAATTC-CCACACGAAGTCATCGG
*
43602784 GTCTTACCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCGGACAAAATTCCCACACGAAGTCATCGG
43602820 GTCTT
1 GTCTT
43602825 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (36 bp):
GTCTTACCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43603091 original size:47 final size:47
Alignment explanation
Indices: 43602942--43603745 Score: 1416
Period size: 47 Copynumber: 17.1 Consensus size: 47
43602932 CCCTTCGGGA
* * * * * * *
43602942 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
43602989 C-CGTCACATATATACACTTTCACATTCATCACA-CGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603034 CGTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603081 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603128 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603175 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603222 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603269 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603316 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603363 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603410 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603457 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603504 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603551 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603598 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603645 CTTATCAC-TCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603692 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603739 CTTATCA
1 CTTATCA
43603746 TCATTTCATA
Statistics
Matches: 725, Mismatches: 28, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
45 10 0.01
46 57 0.08
47 657 0.91
48 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43607801 original size:49 final size:49
Alignment explanation
Indices: 43607724--43607968 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 49
43607714 TAGCCGAAGC
* * * *
43607724 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
43607773 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
43607823 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* ** * * * *
43607874 TATCAGGTATGCATAGTAGACTGCACTTAGTACTACACATGCGTCCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
43607923 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
43607969 TCACAATAGC
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 78 0.49
50 47 0.30
51 34 0.21
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:43610746 original size:15 final size:15
Alignment explanation
Indices: 43610717--43610755 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
43610707 AACAGAGAAG
43610717 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
43610733 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
43610748 CCATGATA
1 CCAAGATA
43610756 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:43613534 original size:49 final size:49
Alignment explanation
Indices: 43613462--43613706 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
43613452 TAGCCGAAGC
* * *
43613462 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
43613511 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
43613561 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
43613612 TATCAGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
43613661 TATCTGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
43613707 TCGCAATAGC
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:43613646 original size:101 final size:98
Alignment explanation
Indices: 43613475--43613706 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 98
43613465 CTGGTACGCA
* * * * *
43613475 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACCTA
* *
43613540 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* *
43613574 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACC
* ** *
43613639 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
*
43613674 TAATAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
43613707 TCGCAATAGC
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.39
101 41 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACCTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:43614388 original size:30 final size:30
Alignment explanation
Indices: 43614354--43614413 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43614344 CTTTAATATG
43614354 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
43614384 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
43614414 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:43616971 original size:20 final size:20
Alignment explanation
Indices: 43616946--43616991 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
43616936 GGGTAAGATG
43616946 TTTCAGTCAGCATTGAAGAA
1 TTTCAGTCAGCATTGAAGAA
43616966 TTTCAGTCAGCATTGAAGAA
1 TTTCAGTCAGCATTGAAGAA
*
43616986 ATTCAG
1 TTTCAG
43616992 GGATGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
TTTCAGTCAGCATTGAAGAA
Found at i:43620520 original size:261 final size:261
Alignment explanation
Indices: 43620056--43620579 Score: 1003
Period size: 261 Copynumber: 2.0 Consensus size: 261
43620046 ATAAGCTAGC
*
43620056 ATGATGGGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAGAGCATAGAGAACCAAGGTTGG
1 ATGATGGGACTTTAATAAATTAAATTTGTTTGAATTAGCTCAAGAGCATAGAGAACCAAGGTTGG
*
43620121 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCTGAGACTGTTCGAAAATATTCGAGGTAAGT
66 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGTTCGAAAATATTCGAGGTAAGT
*
43620186 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACATATTATTAGAATTAAGTATTAC
131 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACATATTATGAGAATTAAGTATTAC
*
43620251 TTGTAATGTATGTATATGGCCGAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
196 TTGTAATGTATGTATATGGCCAAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
43620316 G
261 G
43620317 ATGATGGGACTTTAATAAATTAAATTTGTTTGAATTAGCTCAAGAGCATAGAGAACCAAGGTTGG
1 ATGATGGGACTTTAATAAATTAAATTTGTTTGAATTAGCTCAAGAGCATAGAGAACCAAGGTTGG
43620382 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGTTCGAAAATATTCGAGGTAAGT
66 ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGTTCGAAAATATTCGAGGTAAGT
*
43620447 TTTAAATAGTTAAACATAAATAATATTCGATAATGACATGACATATTATGAGAATTAAGTATTAC
131 TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACATATTATGAGAATTAAGTATTAC
43620512 TTGTAATGTATGTATATGGCCAAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
196 TTGTAATGTATGTATATGGCCAAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
43620577 G
261 G
43620578 AT
1 AT
43620580 CAAATGATAA
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 258 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (261 bp):
ATGATGGGACTTTAATAAATTAAATTTGTTTGAATTAGCTCAAGAGCATAGAGAACCAAGGTTGG
ACAGGGGAAAAGAGAAAGTAGTTGAATAGCCGATCCGAGACTGTTCGAAAATATTCGAGGTAAGT
TTTAAATAGTTAAACATAAATAATATTCAATAATGACATGACATATTATGAGAATTAAGTATTAC
TTGTAATGTATGTATATGGCCAAATGGAAAATATAATATGGAAGTAAAATGTGATATGCTTTTAT
G
Found at i:43620826 original size:45 final size:45
Alignment explanation
Indices: 43620760--43620892 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 45
43620750 TATTGTATAG
*
43620760 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
43620805 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
43620850 TACTATTCGGGCTTTTGAGCCTAGAAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
43620893 AATGATATCG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:43626960 original size:47 final size:47
Alignment explanation
Indices: 43626906--43627378 Score: 716
Period size: 47 Copynumber: 10.1 Consensus size: 47
43626896 TTAGGATTTT
** * * *
43626906 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43626953 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43627000 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43627047 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43627094 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
43627141 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43627188 ATGTGAAGAATGTGAACATGCGA-ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGC-ATATATGTGATAAGGCCGAATGGCCA
*
43627235 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
43627282 ATGTAATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
43627329 ATGTGATAAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
43627376 ATG
1 ATG
43627379 CGAAATGTGT
Statistics
Matches: 396, Mismatches: 27, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 391 0.99
48 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43627410 original size:46 final size:46
Alignment explanation
Indices: 43627352--43627488 Score: 177
Period size: 46 Copynumber: 3.0 Consensus size: 46
43627342 GGAAGTGTAT
*
43627352 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
43627398 A-ACTGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATA-TGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *** * * *
43627444 ATATGGGGTAAAGAAAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
43627489 TGTATATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 77 0.97
47 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:43630003 original size:25 final size:29
Alignment explanation
Indices: 43629974--43630040 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
43629964 GATTTTGAAT
43629974 AATTA-GGACT-AAAT-TGAAAAAAAT-A
1 AATTAGGGACTAAAATGTGAAAAAAATGA
*
43629999 AATTAAGGGACTAAAATGTGAAATAAATGA
1 AATT-AGGGACTAAAATGTGAAAAAAATGA
*
43630029 AATGTATGGACT
1 AAT-TAGGGACT
43630041 TGTATGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 5 0.15
28 4 0.12
29 9 0.26
30 10 0.29
31 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.18, T:0.25
Consensus pattern (29 bp):
AATTAGGGACTAAAATGTGAAAAAAATGA
Found at i:43630592 original size:43 final size:43
Alignment explanation
Indices: 43630543--43630699 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
43630533 TATGCGTTCT
43630543 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * * *
43630586 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATATTTGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
43630627 CGTGTAAGGCC-CTGTCTAGGACAG-TGGCATTGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTA
* *
43630670 TGTGTAAGACCACGTCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
43630700 TGTACTATAT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 23 0.25
42 19 0.20
43 50 0.54
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:43634043 original size:25 final size:29
Alignment explanation
Indices: 43634014--43634080 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
43634004 GATTTTGAAT
43634014 AATTA-GGACT-AAAT-TGAAAAAAAT-A
1 AATTAGGGACTAAAATGTGAAAAAAATGA
*
43634039 AATTAAGGGACTAAAATGTGAAATAAATGA
1 AATT-AGGGACTAAAATGTGAAAAAAATGA
*
43634069 AATGTATGGACT
1 AAT-TAGGGACT
43634081 TGTATGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 5 0.15
28 4 0.12
29 9 0.26
30 10 0.29
31 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.18, T:0.25
Consensus pattern (29 bp):
AATTAGGGACTAAAATGTGAAAAAAATGA
Found at i:43634266 original size:25 final size:25
Alignment explanation
Indices: 43634237--43634295 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
43634227 ATGGAGTGAA
43634237 AATATGTTTGAATGAGTTTAATTTG
1 AATATGTTTGAATGAGTTTAATTTG
43634262 AATATGTTTGAATGAGTTTAATTTG
1 AATATGTTTGAATGAGTTTAATTTG
43634287 AATATGTTT
1 AATATGTTT
43634296 AGATCAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (25 bp):
AATATGTTTGAATGAGTTTAATTTG
Found at i:43634296 original size:15 final size:15
Alignment explanation
Indices: 43634243--43634289 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
43634233 TGAAAATATG
43634243 TTTGAATGAGTTTAA
1 TTTGAATGAGTTTAA
*
43634258 TTTGAAT-A---T-G
1 TTTGAATGAGTTTAA
43634268 TTTGAATGAGTTTAA
1 TTTGAATGAGTTTAA
43634283 TTTGAAT
1 TTTGAAT
43634290 ATGTTTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
14 2 0.08
15 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (15 bp):
TTTGAATGAGTTTAA
Found at i:43634657 original size:43 final size:43
Alignment explanation
Indices: 43634596--43634764 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
43634586 TAGGATTTTT
*
43634596 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTAT-GTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
43634639 GATATGTGATTATGTGTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
43634682 -ATATTTGATT-CGTGTAAGACC-CTGTCTAGGACAG-TGGCATT
1 GATATGTGATTATGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
*
43634723 GATATGTGATTATGTGTAAGACCACGTCTGAGACGTTGGCAT
1 GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAT
43634765 TGTACTATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 23 0.22
42 19 0.18
43 58 0.56
44 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:43636495 original size:46 final size:46
Alignment explanation
Indices: 43636443--43636666 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
43636433 GATATTTGGG
*
43636443 CATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
43636489 CATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * ** * * * * *
43636535 CGTCCGAACTCGTTGAGTTGAGTCTGAGTT-TGTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
* * * *
43636582 CATCCGAACTCGTTAAGTTAAGTTCGAGTTCACTTATGGATGAGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
43636628 CACCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43636667 GCGGGTTACA
Statistics
Matches: 139, Mismatches: 34, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
45 1 0.01
46 107 0.77
47 30 0.22
48 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:43636616 original size:93 final size:93
Alignment explanation
Indices: 43636489--43636657 Score: 257
Period size: 93 Copynumber: 1.8 Consensus size: 93
43636479 TGGATGCGAA
* * * ** *
43636489 CATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
1 CATCCGAACTCATTAAGTTAAGTTCGAGTTCACTTATGGATGAGAACACCCGAACTCATTGAGTT
*
43636554 GAGTCTGAGTTTGTGAAATGTAACTAGG
66 GAGTCCGAGTTTGTGAAATGTAACTAGG
* *
43636582 CATCCGAACTCGTTAAGTTAAGTTCGAGTTCACTTATGGATGAGAACACCCGAGCTCATTGAGTT
1 CATCCGAACTCATTAAGTTAAGTTCGAGTTCACTTATGGATGAGAACACCCGAACTCATTGAGTT
43636647 GAGTCCGAGTT
66 GAGTCCGAGTT
43636658 CGCTTATGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCATTAAGTTAAGTTCGAGTTCACTTATGGATGAGAACACCCGAACTCATTGAGTT
GAGTCCGAGTTTGTGAAATGTAACTAGG
Found at i:43638152 original size:81 final size:82
Alignment explanation
Indices: 43637976--43638390 Score: 509
Period size: 81 Copynumber: 5.1 Consensus size: 82
43637966 TGTTACAGTG
* *
43637976 GCGTTTTTGGCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACTA
1 GCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTA
*
43638041 AAAACTGATCAATAGAA
66 AAAACTGATCAATAGCA
*
43638058 GCGTTTTTAGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG-CCAAACGCCACTA
1 GCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTA
* *
43638122 AAAACTAATCAATAGAA
66 AAAACTGATCAATAGCA
* * * *
43638139 GCGTTTTTGGCCCAAGCGCCACTAAAAACTTATGAATAGCGGCGTTTTTGG-CCAAACACCACTA
1 GCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTA
*
43638203 AAAACCTGATCAATAGCG
66 AAAA-CTGATCAATAGCA
* * * * * *
43638221 GCATTTTTGGCCCAAACGCCATTAAAAACTGAGCAATAGCAGCATTTTTGGTCCAAACGCCA-TT
1 GCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTA
* *
43638285 AAAACTTATCAATAGCG
66 AAAACTGATCAATAGCA
* ** * * * * *
43638302 GCGTTTTT-ACTTAAAACACCACTAAAAATTGAGCAACTA-TGGCGTTTTTGGTCTAAACGCCAC
1 GCGTTTTTGGC-CCAAACGCCACTAAAAACTGATCAA-TAGCGGCGTTTTTGGTCCAAACGCCAC
*
43638365 T-AAAACTGATCAATAGCC
64 TAAAAACTGATCAATAGCA
43638383 GCGTTTTT
1 GCGTTTTT
43638391 TGTCTAAACG
Statistics
Matches: 293, Mismatches: 35, Indels: 11
0.86 0.10 0.03
Matches are distributed among these distances:
80 1 0.00
81 173 0.59
82 110 0.38
83 9 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (82 bp):
GCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTA
AAAACTGATCAATAGCA
Found at i:43638212 original size:122 final size:122
Alignment explanation
Indices: 43637975--43638390 Score: 527
Period size: 122 Copynumber: 3.4 Consensus size: 122
43637965 GTGTTACAGT
* *
43637975 GGCGTTTTTGGCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCCAAACGCCACT
* ** * *
43638040 AAAAACTGATCAATAGAAGCGTTTTTAGCCCAAACGCCACTAAAAACTGATCAATAGC
66 AAAAACTTATCAATAGCGGCGTTTTT-GACCAAACACCACTAAAAACTGATCAATAGC
* * *
43638098 GGCGTTTTTGG-CCAAACGCCACTAAAAACTAATCAATAGAAGCGTTTTTGGCCCAAGCGCCACT
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCCAAACGCCACT
* *
43638162 AAAAACTTATGAATAGCGGCGTTTTTGGCCAAACACCACTAAAAACCTGATCAATAGC
66 AAAAACTTATCAATAGCGGCGTTTTTGACCAAACACCACTAAAAA-CTGATCAATAGC
* * * * *
43638220 GGCATTTTTGGCCCAAACGCCATTAAAAACTGAGCAATAGCAGCATTTTTGGTCCAAACGCCA-T
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCCAAACGCCACT
* * * * *
43638284 TAAAACTTATCAATAGCGGCGTTTTT-ACTTAAAACACCACTAAAAATTGAGCAACTA-T
66 AAAAACTTATCAATAGCGGCGTTTTTGAC--CAAACACCACTAAAAACTGATCAA-TAGC
* * *
43638342 GGCGTTTTTGGTCTAAACGCCACT-AAAACTGATCAATAGCCGCGTTTTT
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTT
43638391 TGTCTAAACG
Statistics
Matches: 255, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
121 40 0.16
122 143 0.56
123 72 0.28
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (122 bp):
GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGCAGCGTTTTTGGCCCAAACGCCACT
AAAAACTTATCAATAGCGGCGTTTTTGACCAAACACCACTAAAAACTGATCAATAGC
Found at i:43638392 original size:41 final size:41
Alignment explanation
Indices: 43637975--43638390 Score: 502
Period size: 41 Copynumber: 10.2 Consensus size: 41
43637965 GTGTTACAGT
*
43637975 GGCGTTTTTGGCCAAAACGCCACTAAAAACTGATCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
*
43638016 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGA
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
* *
43638057 AGCGTTTTTAGCCCAAACGCCACTAAAAACTGATCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
* *
43638098 GGCGTTTTTGG-CCAAACGCCACTAAAAACTAATCAATAGA
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
* * * *
43638138 AGCGTTTTTGGCCCAAGCGCCACTAAAAACTTATGAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
*
43638179 GGCGTTTTTGG-CCAAACACCACTAAAAACCTGATCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAA-CTGATCAATAGC
* * *
43638220 GGCATTTTTGGCCCAAACGCCATTAAAAACTGAGCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
* * * * *
43638261 AGCATTTTTGGTCCAAACGCCA-TTAAAACTTATCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
* ** * * * *
43638301 GGCGTTTTT-ACTTAAAACACCACTAAAAATTGAGCAACTA-T
1 GGCGTTTTTGGC-CCAAACGCCACTAAAAACTGATCAA-TAGC
* *
43638342 GGCGTTTTTGGTCTAAACGCCACT-AAAACTGATCAATAGC
1 GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
*
43638382 CGCGTTTTT
1 GGCGTTTTT
43638391 TGTCTAAACG
Statistics
Matches: 318, Mismatches: 49, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.01
40 99 0.31
41 200 0.63
42 17 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
GGCGTTTTTGGCCCAAACGCCACTAAAAACTGATCAATAGC
Found at i:43640109 original size:36 final size:40
Alignment explanation
Indices: 43640067--43640146 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 40
43640057 GGTTTTGATA
*
43640067 TTTTC-TTTTCT-TCCATTCT-CTTTC-CTTCTTC-TTTTC
1 TTTTCTTTTTCTCTCCA-TCTACTTTCTCCTCTTCTTTTTC
43640103 TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTTTC
1 TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTTTC
43640143 TTTT
1 TTTT
43640147 TTCCTCTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
36 5 0.13
37 9 0.24
38 9 0.24
39 6 0.16
40 9 0.24
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (40 bp):
TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTTTC
Found at i:43640940 original size:8 final size:8
Alignment explanation
Indices: 43640927--43640956 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
43640917 CTAGATCGGC
43640927 AAAAGCCG
1 AAAAGCCG
*
43640935 AAAAGCGG
1 AAAAGCCG
43640943 AAAAGCCG
1 AAAAGCCG
43640951 AAAAGC
1 AAAAGC
43640957 TGGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.27, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:43642652 original size:21 final size:21
Alignment explanation
Indices: 43642628--43642667 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43642618 ACCTTAAATT
43642628 CTAAAACATAAACTATAAACA
1 CTAAAACATAAACTATAAACA
** *
43642649 CTAATCCATAAACTCTAAA
1 CTAAAACATAAACTATAAA
43642668 AACCTAAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAAACATAAACTATAAACA
Found at i:43642879 original size:38 final size:39
Alignment explanation
Indices: 43642825--43642901 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
43642815 TAAGGCCTAT
* *
43642825 GGTTTAGGGTTCAATGG-TAGAATATATTTTAAGTTTAC
1 GGTTTAAGGTTCAATGGATAGAATATATGTTAAGTTTAC
* *
43642863 GGTTTAAGGTTGAATGGTATAGTATATATGTTAAGTTTA
1 GGTTTAAGGTTCAATGG-ATAGAATATATGTTAAGTTTA
43642902 TGGTATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 15 0.45
40 18 0.55
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.43
Consensus pattern (39 bp):
GGTTTAAGGTTCAATGGATAGAATATATGTTAAGTTTAC
Found at i:43644047 original size:40 final size:40
Alignment explanation
Indices: 43643985--43644062 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
43643975 CAGAGGCAAC
* *
43643985 GCCGCTAAAGATAGAGAATTAGCGGCGCTTTTGTAAAAAT
1 GCCGCAAAAGATAGAGAATTAGCGACGCTTTTGTAAAAAT
* * *
43644025 GCCGCAAAAGATTGAGATTTAGCGATGCTTTTGTAAAA
1 GCCGCAAAAGATAGAGAATTAGCGACGCTTTTGTAAAA
43644063 CGCCACTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCGCAAAAGATAGAGAATTAGCGACGCTTTTGTAAAAAT
Found at i:43647517 original size:47 final size:47
Alignment explanation
Indices: 43647463--43647794 Score: 522
Period size: 47 Copynumber: 7.1 Consensus size: 47
43647453 GATTTTATGA
** * *
43647463 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGTCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
**
43647510 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * * * *
43647557 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
43647604 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
43647651 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
43647698 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** *
43647745 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
43647792 GAT
1 GAT
43647795 AAACGTGGAA
Statistics
Matches: 262, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
46 3 0.01
47 256 0.98
48 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:43647559 original size:22 final size:22
Alignment explanation
Indices: 43647532--43647606 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
43647522 CATGCATATG
43647532 TGTGATAAGGTAGAATGGCCAA
1 TGTGATAAGGTAGAATGGCCAA
* * ***
43647554 TGTGATAAACGTGGAAGTGTATATA
1 TGTGAT-AAGGTAGAA-TGGCCA-A
**
43647579 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTAGAATGGCCAA
43647601 TGTGAT
1 TGTGAT
43647607 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
22 13 0.33
23 10 0.26
24 9 0.23
25 7 0.18
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGTAGAATGGCCAA
Found at i:43647827 original size:94 final size:94
Alignment explanation
Indices: 43647463--43647840 Score: 411
Period size: 94 Copynumber: 4.0 Consensus size: 94
43647453 GATTTTATGA
** * * * * *
43647463 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * **
43647528 TATGTGTGATAAGGTAGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * * * * * *
43647557 GATAAACGTGGAA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAATGT-GAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGC
* *
43647621 ATATGTGTGATAAGGCCGAATGGCCAATGT
65 ATATATGTGAGAAGGCCGAATGGCCAATGT
* * *
43647651 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* *
43647716 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * *
43647745 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
* * *
43647809 ATATATGTGGCGAA-GCCGAATGACTAATGT
65 ATATATGT-GAGAAGGCCGAATGGCCAATGT
43647839 GA
1 GA
43647841 GATATGTATG
Statistics
Matches: 257, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
93 3 0.01
94 245 0.95
95 9 0.04
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:43647827 original size:141 final size:141
Alignment explanation
Indices: 43647463--43647840 Score: 456
Period size: 141 Copynumber: 2.7 Consensus size: 141
43647453 GATTTTATGA
** * * * * *
43647463 GATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * ** * *
43647528 TATGTGTGATAAGGTAGAATGGCCAATGTGATAAACGTGGAAGTGTATATATGTGATAAGGCCGA
66 TATATGTGAGAAGGCCGAATGGCCAATGTGATAAACGTGGAAATGCATATATGTGATAAGGCCGA
43647593 ATGGCCAATGT
131 ATGGCCAATGT
* * *
43647604 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
* * * * *
43647669 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATGTGTGATAAGGCCG
66 TATATGTGAGAAGGCCGAATGGCCAATGTGATAAACGTGGAA-ATGCATATATGTGATAAGGCCG
43647733 AATGGCCAATGT
130 AATGGCCAATGT
* * * *
43647745 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGC
* * *
43647809 ATATATGTGGCGAA-GCCGAATGACTAATGTGA
65 ATATATGT-GAGAAGGCCGAATGGCCAATGTGA
43647841 GATATGTATG
Statistics
Matches: 211, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
140 3 0.01
141 202 0.96
142 6 0.03
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGTGATAAACGTGGAAATGCATATATGTGATAAGGCCGA
ATGGCCAATGT
Found at i:43653513 original size:46 final size:46
Alignment explanation
Indices: 43653463--43653638 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43653453 TGGTTGAGCA
43653463 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43653509 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43653554 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43653602 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43653639 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43653624 original size:93 final size:93
Alignment explanation
Indices: 43653460--43653631 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43653450 GGATGGTTGA
* *
43653460 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43653525 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
43653553 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43653618 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43653632 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43660402 original size:40 final size:39
Alignment explanation
Indices: 43660347--43660425 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 39
43660337 CAAAATCTCA
43660347 AAGTAAATCTTGGATCTCTATCTGACACAATAGACAATGG
1 AAGTAAATCTTGGATCTCTATCTGACACAATA-ACAATGG
43660387 AAGTAAATCTTGGATCTCTATCTGACACAATAACAATGG
1 AAGTAAATCTTGGATCTCTATCTGACACAATAACAATGG
43660426 CACCCCGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 7 0.18
40 32 0.82
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (39 bp):
AAGTAAATCTTGGATCTCTATCTGACACAATAACAATGG
Found at i:43666283 original size:22 final size:22
Alignment explanation
Indices: 43666253--43666295 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43666243 AGACTTCAAA
* * *
43666253 TAAATTAAAGTAAAATCAAAGG
1 TAAAATAAAATAAAATAAAAGG
43666275 TAAAATAAAATAAAATAAAAG
1 TAAAATAAAATAAAATAAAAG
43666296 AGATAATCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (22 bp):
TAAAATAAAATAAAATAAAAGG
Found at i:43668581 original size:40 final size:40
Alignment explanation
Indices: 43668544--43668729 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
43668534 GCTACTCGTT
* *
43668544 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
43668584 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
43668624 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
43668664 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43668705 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43668730 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.86
41 15 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43793575 original size:13 final size:13
Alignment explanation
Indices: 43793557--43793582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43793547 GTTTGAAAGG
43793557 GACACGCCCGTGT
1 GACACGCCCGTGT
43793570 GACACGCCCGTGT
1 GACACGCCCGTGT
43793583 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:43800178 original size:47 final size:47
Alignment explanation
Indices: 43800094--43800831 Score: 1251
Period size: 47 Copynumber: 15.6 Consensus size: 47
43800084 TATTTGAATA
*
43800094 AATGTGAAAGTGTATATATATGTGATAAGGGCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
43800143 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800190 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43800239 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43800286 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800333 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43800380 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800427 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43800474 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800521 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
43800570 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800617 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800664 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43800711 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
43800758 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43800805 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43800832 TCCCGAAGGG
Statistics
Matches: 654, Mismatches: 31, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
47 552 0.84
49 102 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43800710 original size:331 final size:331
Alignment explanation
Indices: 43800094--43800831 Score: 1305
Period size: 331 Copynumber: 2.2 Consensus size: 331
43800084 TATTTGAATA
*
43800094 AATGTGAAAGTGTATATATATGTGATAAGGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
43800159 TATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATAGCCAATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTA
43800224 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
129 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
43800289 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
194 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
43800354 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
259 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
43800419 ATGTGATG
324 ATGTGATG
43800427 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
43800492 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATAGCCAATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
43800557 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
43800622 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
*
43800687 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
261 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
43800752 GTGATG
326 GTGATG
* * * * * * * * *
43800758 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43800823 TGTGATAAG
66 TGTGATAAG
43800832 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
331 376 0.97
333 12 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (331 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATAGCCAATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATG
Found at i:43801004 original size:37 final size:37
Alignment explanation
Indices: 43800954--43801050 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
43800944 GCTCTAAAGT
43800954 CCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGA
*
43800991 CCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGA
1 CCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGA
* * *
43801028 CCCGATAACTTCATGTGGAGATT
1 CCCGATGACTACGTGTGGAGATT
43801051 TCGTCTGAGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
CCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:43802117 original size:16 final size:16
Alignment explanation
Indices: 43802092--43802123 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43802082 ACTAAATCAT
43802092 GCTCTAATACCAACCA
1 GCTCTAATACCAACCA
*
43802108 GCTCTGATACCAACCA
1 GCTCTAATACCAACCA
43802124 AATGTAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.38, G:0.09, T:0.19
Consensus pattern (16 bp):
GCTCTAATACCAACCA
Found at i:43803751 original size:19 final size:20
Alignment explanation
Indices: 43803727--43803764 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43803717 GGTACCACCA
43803727 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43803746 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43803765 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43804060 original size:46 final size:46
Alignment explanation
Indices: 43803993--43804114 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
43803983 CGCCCCTAAG
* * * *
43803993 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
43804039 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
43804085 TGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
43804115 AGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:43806514 original size:42 final size:44
Alignment explanation
Indices: 43806415--43806514 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
43806405 CTAGACGTGA
*
43806415 TCTTACATGT-AATCAAATATCGATGCCACTATCCCAGACAGGG
1 TCTTACATGTAAATCAAATATCGATACCACTATCCCAGACAGGG
* *
43806458 TCTTACATG-AAATCAAATA-CGATACCGA-TGTCCCA-ACATGG
1 TCTTACATGTAAATCAAATATCGATACC-ACTATCCCAGACAGGG
43806499 TCTTACATGTAAATCA
1 TCTTACATGTAAATCA
43806515 TAAGTTGATG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 14 0.27
42 18 0.35
43 19 0.37
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (44 bp):
TCTTACATGTAAATCAAATATCGATACCACTATCCCAGACAGGG
Found at i:43808541 original size:14 final size:16
Alignment explanation
Indices: 43808522--43808560 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
43808512 AATAAACTGA
43808522 TGATATATGACA-A-G
1 TGATATATGACATATG
*
43808536 TGATATATGATATATG
1 TGATATATGACATATG
43808552 TGATATATG
1 TGATATATG
43808561 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (16 bp):
TGATATATGACATATG
Found at i:43808838 original size:45 final size:45
Alignment explanation
Indices: 43808774--43808864 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
43808764 CTTGGAATTA
* * *
43808774 AGAAATTTGAGCTTGTTGAGTTGGTCCGAGTTCGTGATATATGTG
1 AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCGTGATATATGTG
*
43808819 AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCGTGGTATATGTG
1 AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCGTGATATATGTG
43808864 A
1 A
43808865 AGCATCCGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.36
Consensus pattern (45 bp):
AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCGTGATATATGTG
Found at i:43808896 original size:45 final size:45
Alignment explanation
Indices: 43808782--43808896 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
43808772 TAAGAAATTT
*
43808782 GAGCTTGTTGAGTTGGTCCGAGTTCGTGATATATGTGAGAAATCT
1 GAGCTTGTTGAGTTGGTCCGAGTTCGTGATATATGTGAGAAATCC
* * * *
43808827 GAACTTGTTGAGTTGGTCCAAGTTCGTGGTATATGTGA-AGCATCC
1 GAGCTTGTTGAGTTGGTCCGAGTTCGTGATATATGTGAGA-AATCC
* * *
43808872 GAGCTCGTTGAGTCGGTTCGAGTTC
1 GAGCTTGTTGAGTTGGTCCGAGTTC
43808897 ATAATGGAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (45 bp):
GAGCTTGTTGAGTTGGTCCGAGTTCGTGATATATGTGAGAAATCC
Done.