Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 221 of 328
Found at i:66262976 original size:27 final size:26
Alignment explanation
Indices: 66262946--66263025 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
66262936 GCTCAGTTAT
* *
66262946 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
66262973 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
66262999 TAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
66263026 ATAGATAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:66263234 original size:22 final size:22
Alignment explanation
Indices: 66263206--66263270 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
66263196 GCAAATACGT
*
66263206 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
66263228 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
66263250 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
66263271 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:66263755 original size:27 final size:27
Alignment explanation
Indices: 66263697--66264161 Score: 517
Period size: 27 Copynumber: 17.3 Consensus size: 27
66263687 GGGGTAAAAT
* * * *
66263697 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66263723 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
66263750 AATAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66263777 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66263804 GGTAATTCTACCCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66263831 GGTAATTCTACCCTACAGGGGTA-TT-
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66263856 GGAATAATTCTACCCTACAGGGGTATTTT
1 GG--TAATTCTACCCTACAGGGGTATTTC
* *
66263885 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66263912 GGTAATTCTATCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66263939 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66263966 GGTAATTCTACCCTACAGAGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66263993 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66264020 GATAATTGTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
66264047 GGTAATTCTATGCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
66264074 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
66264101 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
66264128 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66264155 AGTAATT
1 GGTAATT
66264162 TCACAATCGA
Statistics
Matches: 381, Mismatches: 51, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
25 2 0.01
26 17 0.04
27 355 0.93
28 5 0.01
29 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66264212 original size:27 final size:27
Alignment explanation
Indices: 66264166--66264363 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
66264156 GTAATTTCAC
* * *
66264166 AATCGACGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
66264193 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* *
66264220 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
66264247 AATCGAGGATAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
66264274 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
66264301 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
66264328 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
66264355 AATCGAGGG
1 AATCGAGGG
66264364 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:66264282 original size:81 final size:81
Alignment explanation
Indices: 66264182--66264363 Score: 267
Period size: 81 Copynumber: 2.2 Consensus size: 81
66264172 CGGTAAAACA
* ** *
66264182 GTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTAT
1 GTAATTTTATAAATC-GAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTAT
66264246 AAATCGAGGATAAAATG
65 AAATCGAGGATAAAATG
* *
66264263 GTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTGAAACAGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
*
66264328 AATCGAGGGTAAAATG
66 AATCGAGGATAAAATG
* *
66264344 GTAATTCTACAAATCGAGGG
1 GTAATTTTATAAATCGAGGG
66264364 CATTTCAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 90 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCGAGGATAAAATG
Found at i:66264373 original size:81 final size:81
Alignment explanation
Indices: 66264209--66264392 Score: 251
Period size: 81 Copynumber: 2.3 Consensus size: 81
66264199 GGGTAAAATG
* * *
66264209 GTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGATAAAATGGTAATTTTATA
1 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
*
66264274 AATCGAGGGTAAAACA
66 AATCGAGGGCAAAACA
* * *
66264290 GTAATTTTGTAAATCGAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
***
66264355 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
* * *
66264371 GTAATTCTGTAAACCAATGGTA
1 GTAATTTTGTAAATCAAGGGTA
66264393 TTTCTATAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:66264457 original size:27 final size:27
Alignment explanation
Indices: 66264417--66264613 Score: 211
Period size: 27 Copynumber: 7.3 Consensus size: 27
66264407 AAAAAGTCAA
** *
66264417 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
66264444 GGGTATTTTGGTAATTTTAC-AATTTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
66264470 AGGGTATTTCGGTAATTTCACAACCT-G
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
66264497 TGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
66264524 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
66264551 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
66264578 GGGTATTTTAATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
66264605 GGGTATTTT
1 GGGTATTTT
66264614 AATAATTTGG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
26 26 0.18
27 116 0.81
28 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:66264526 original size:80 final size:81
Alignment explanation
Indices: 66264415--66264613 Score: 235
Period size: 80 Copynumber: 2.5 Consensus size: 81
66264405 TTAAAAAGTC
** * * *
66264415 AAGGGTATTTCTG-TAATTTTGTAAATTAGGGGTATTTTGGTAATTTTAC-AATTTGAGGGTATT
1 AAGGGTATTT-TGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATT
*
66264478 TCGGTAATTTCA-CAAC-
64 TCGGTAATTTCATAAACA
**
66264494 CTGTGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 AAG-GGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
* *
66264559 TGGTAATTTTATAAACA
65 CGGTAATTTCATAAACA
* *
66264576 AAGGGTATTTTAATAATTTTACAAACCAGGGGTATTTT
1 AAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
66264614 AATAATTTGG
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.03
80 57 0.56
81 40 0.40
82 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
AAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTC
GGTAATTTCATAAACA
Found at i:66264628 original size:54 final size:55
Alignment explanation
Indices: 66264498--66264633 Score: 159
Period size: 54 Copynumber: 2.5 Consensus size: 55
66264488 CACAACCTGT
* * * * ** *
66264498 GGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTAATAATTTGATAAACTAAAGGGTATTTTAATAATTTTACAAACCAGG
** *
66264552 GGTATTTTGGTAATTTTATAAAC-AAAGGGTATTTTAATAATTTTACAAACCAGG
1 GGTATTTTAATAATTTGATAAACTAAAGGGTATTTTAATAATTTTACAAACCAGG
*
66264606 GGTATTTTAATAATTTGGTAAACTAAAG
1 GGTATTTTAATAATTTGATAAACTAAAG
66264634 TATTCTAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
54 66 0.94
55 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (55 bp):
GGTATTTTAATAATTTGATAAACTAAAGGGTATTTTAATAATTTTACAAACCAGG
Found at i:66265829 original size:27 final size:27
Alignment explanation
Indices: 66265799--66266195 Score: 469
Period size: 27 Copynumber: 14.6 Consensus size: 27
66265789 CGATTTACAA
66265799 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
66265826 AATTACTAATTACTGAAATA-CCCTGTAGGGTAG
1 -------AATTACTGAAATACCCCTGTAGGGTAG
**
66265859 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
66265886 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* ***
66265913 AA-TACCGAAATACATTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
66265939 AAATACAGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
66265966 AATTACAGAAATTCCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
66265993 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
66266020 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
66266047 AATTACTG-AATACCCCTGTAAGTTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
66266073 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
66266100 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
66266127 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
66266154 AAATA-TCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
66266181 AATTACTGAGATACC
1 AATTACTGAAATACC
66266196 TCGTGGGGTA
Statistics
Matches: 320, Mismatches: 38, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
26 55 0.17
27 238 0.74
28 1 0.00
33 13 0.04
34 13 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:66265855 original size:33 final size:34
Alignment explanation
Indices: 66265799--66265864 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
66265789 CGATTTACAA
66265799 AATTACTGAAATACCCCTGTAGGGTAGAATTACT
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACT
66265833 AATTACTGAAATA-CCCTGTAGGGTAGAATTAC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTAC
66265865 CAAAATACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (34 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACT
Found at i:66265993 original size:54 final size:54
Alignment explanation
Indices: 66265833--66266195 Score: 518
Period size: 54 Copynumber: 6.8 Consensus size: 54
66265823 TAGAATTACT
* *
66265833 AATTACTGAAATA-CCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * **
66265886 AATTATTGAAATACCCTTGTAGGGTAGAA-TACCGAAATACATTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * *
66265939 AAATACAGAAATACCCCTGTAAGGTAGAATTACAGAAATTCCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *
66265993 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *
66266047 AATTACTG-AATACCCCTGTAAGTTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
66266100 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
66266154 AAATA-TCGAAATACCCCTATAGGGTAGAATTACTGAGATACC
1 AATTACT-GAAATACCCCTGTAGGGTAGAATTACCGAAATACC
66266196 TCGTGGGGTA
Statistics
Matches: 275, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
53 106 0.39
54 169 0.61
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:66266184 original size:134 final size:134
Alignment explanation
Indices: 66265833--66266195 Score: 498
Period size: 134 Copynumber: 2.7 Consensus size: 134
66265823 TAGAATTACT
* * *
66265833 AATTACTGAAATA-CCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATTGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAA
* *** *
66265897 TACCCTTGTAGGGTAGAA-TACCGAAATACATTTGTAGGGTAGAAATACAGAAATACCCCTGTAA
66 TACCCTTGTAGGGTAGAATTACTG-AATACCCCTGTAAGGTAGAAATACAGAAATACCCCTGTAA
66265961 GGTAG
130 GGTAG
* * * *
66265966 AATTACAGAAATTCCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTA-CTGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATC-GAA
* * * * *
66266030 ATACCCTTGTAGGGTAGAATTACTGAATACCCCTGTAAGTTAGAATTACCGAAATACCCTTGTAG
65 ATACCCTTGTAGGGTAGAATTACTGAATACCCCTGTAAGGTAGAAATACAGAAATACCCCTGTAA
66266095 GGTAG
130 GGTAG
*
66266100 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAA
* *
66266165 TACCCCTATAGGGTAGAATTACTGAGATACC
66 TACCCTTGTAGGGTAGAATTACTGA-ATACC
66266196 TCGTGGGGTA
Statistics
Matches: 201, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
133 11 0.05
134 180 0.90
135 10 0.05
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (134 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAA
TACCCTTGTAGGGTAGAATTACTGAATACCCCTGTAAGGTAGAAATACAGAAATACCCCTGTAAG
GTAG
Found at i:66266205 original size:107 final size:107
Alignment explanation
Indices: 66265836--66266211 Score: 499
Period size: 107 Copynumber: 3.5 Consensus size: 107
66265826 AATTACTAAT
* * * *
66265836 TACTGAAATA-CCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATTGAAATAC
1 TACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCTC-GTAGGGTAGAATTACTGAAATAC
**
66265900 CCTTGTAGGGTAGAA-TACCGAAATACATTTGTAGGGTAGAAA
65 CCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* * * *
66265942 TACAGAAATACCCCTGTAAGGTAGAATTACAGAAATTCCCTTGTAGGGTAGAATTACTGAAATAC
1 TACTGAAATACCCCTGTAAGGTAGAATTACCGAAA-TACCTCGTAGGGTAGAATTACTGAAATAC
* *
66266007 CCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAT
65 CCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* *
66266050 TACTG-AATACCCCTGTAAGTTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAC
1 TACTGAAATACCCCTGTAAGGTAGAATTACCGAAATA-CCTCGTAGGGTAGAATTACTGAAATAC
*
66266114 CCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
65 CCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* * * * * *
66266157 TA-TCGAAATACCCCTATAGGGTAGAATTACTGAGATACCTCGTGGGGTAAAATTA
1 TACT-GAAATACCCCTGTAAGGTAGAATTACCGAAATACCTCGTAGGGTAGAATTA
66266212 TCATTTTGCC
Statistics
Matches: 237, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
106 11 0.05
107 170 0.72
108 56 0.24
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (107 bp):
TACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCTCGTAGGGTAGAATTACTGAAATACC
CTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
Found at i:66266576 original size:22 final size:22
Alignment explanation
Indices: 66266548--66266599 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
66266538 TCGATAGCTC
66266548 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGGCTT
* * * *
66266570 TGTGCCATCTTGATTATGGCTT
1 TGTGCCAACCTAAATATGGCTT
*
66266592 CGTGCCAA
1 TGTGCCAA
66266600 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGGCTT
Found at i:66269381 original size:48 final size:47
Alignment explanation
Indices: 66269302--66269507 Score: 225
Period size: 47 Copynumber: 4.6 Consensus size: 47
66269292 GGAATGAAAA
* *
66269302 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATACAT-T
* *
66269350 AACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATACATT
* **
66269397 AATGTGGTGCTAAGTGGATATA-C-C-A-TGGA-A-A---A-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATACAT-T
* * * *
66269435 AATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATACATT
66269482 AACGTGGTGCTAAGTGGATATACCAC
1 AACGTGGTGCTAAGTGGATATACCAC
66269508 AGTTAAACAT
Statistics
Matches: 131, Mismatches: 16, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
37 3 0.02
38 23 0.18
39 1 0.01
40 1 0.01
41 1 0.01
42 3 0.02
43 3 0.02
44 2 0.02
45 1 0.01
46 1 0.01
47 47 0.36
48 45 0.34
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATACATT
Found at i:66269447 original size:38 final size:38
Alignment explanation
Indices: 66269400--66269547 Score: 136
Period size: 38 Copynumber: 3.7 Consensus size: 38
66269390 ATTCATTAAT
* *
66269400 GTGGTGCTAAGTGGATATACCATGGAAAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGAAAAACATGTAAC
*
66269438 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAAC
1 GTGGTGCTAAGTGGATATACCACGG--A-A-A-A---A--CATGTAAC
* **
66269485 GTGGTGCTAAGTGGATATACCACAGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGAAAAACATGTAAC
*
66269523 GTGGTGCTAAGTGGATATGCCACGG
1 GTGGTGCTAAGTGGATATACCACGG
66269548 TTATACATGT
Statistics
Matches: 90, Mismatches: 9, Indels: 22
0.74 0.07 0.18
Matches are distributed among these distances:
37 3 0.03
38 50 0.56
39 1 0.01
40 1 0.01
41 1 0.01
42 2 0.02
43 2 0.02
46 1 0.01
47 26 0.29
48 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGAAAAACATGTAAC
Found at i:66269489 original size:85 final size:85
Alignment explanation
Indices: 66269344--66269550 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
66269334 ACATATTGAT
* *
66269344 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
**
66269409 AGTGGATATACCATGGAAAA
66 AGTGGATATACCACAGAAAA
*
66269429 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
**
66269494 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGAAAA
66269514 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
66269551 TACATGTTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGAAAA
Found at i:66269556 original size:38 final size:38
Alignment explanation
Indices: 66269481--66269557 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
66269471 ATTGATTCAT
66269481 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
* * *
66269519 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
66269557 T
1 T
66269558 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
Found at i:66273981 original size:25 final size:25
Alignment explanation
Indices: 66273952--66273999 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66273942 TTATAATATG
** *
66273952 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
66273977 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
66274000 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:66274201 original size:25 final size:24
Alignment explanation
Indices: 66274130--66274206 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
66274120 GAGGAAGTGC
* * * *
66274130 AAAAGGGCTATGCCCCAATTACCG
1 AAAAGGGCTTTGCCCCAGTTATCA
*
66274154 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
* *
66274179 AAAAGGGTTTTTGCCCCAGTTATTA
1 AAAAGGG-CTTTGCCCCAGTTATCA
66274204 AAA
1 AAA
66274207 GAGGCTAGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
24 15 0.35
25 19 0.44
26 9 0.21
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:66274457 original size:31 final size:31
Alignment explanation
Indices: 66274419--66274502 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
66274409 TCGTTACAGT
66274419 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* *
66274450 AAAGGCTTTGGCCCAGTGACATGAATAATGT
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* *
66274481 GAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
66274503 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGA
Found at i:66278667 original size:109 final size:109
Alignment explanation
Indices: 66278476--66278701 Score: 452
Period size: 109 Copynumber: 2.1 Consensus size: 109
66278466 ACATTCCACC
66278476 ATAACTGAAAAATAGCTATAACCACAATATCAAAAACTTACCACCACGTAGAACTAAGAATGGTT
1 ATAACTGAAAAATAGCTATAACCACAATATCAAAAACTTACCACCACGTAGAACTAAGAATGGTT
66278541 GAGAAGAGTAATCACCCTACTCACACAAGAGCCGAATACACAGA
66 GAGAAGAGTAATCACCCTACTCACACAAGAGCCGAATACACAGA
66278585 ATAACTGAAAAATAGCTATAACCACAATATCAAAAACTTACCACCACGTAGAACTAAGAATGGTT
1 ATAACTGAAAAATAGCTATAACCACAATATCAAAAACTTACCACCACGTAGAACTAAGAATGGTT
66278650 GAGAAGAGTAATCACCCTACTCACACAAGAGCCGAATACACAGA
66 GAGAAGAGTAATCACCCTACTCACACAAGAGCCGAATACACAGA
66278694 ATAACTGA
1 ATAACTGA
66278702 GGCAAAATAG
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 117 1.00
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.18
Consensus pattern (109 bp):
ATAACTGAAAAATAGCTATAACCACAATATCAAAAACTTACCACCACGTAGAACTAAGAATGGTT
GAGAAGAGTAATCACCCTACTCACACAAGAGCCGAATACACAGA
Found at i:66278899 original size:43 final size:43
Alignment explanation
Indices: 66278837--66278932 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
66278827 TCAGGACCAC
*
66278837 CAAAAG-AGAAGAAGAAGAAGTATCCAGCTTAGCCACTTGATA
1 CAAAAGAAGAAGAAGAAGAAGTATCCAGCTTAGCCACTAGATA
* * *
66278879 CAAAAGAAGAAGAAGAAGAAGTATTCGGCTTAGTCACTAGATA
1 CAAAAGAAGAAGAAGAAGAAGTATCCAGCTTAGCCACTAGATA
*
66278922 TAAAAGAAGAA
1 CAAAAGAAGAA
66278933 AAAGTCGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 6 0.12
43 42 0.88
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (43 bp):
CAAAAGAAGAAGAAGAAGAAGTATCCAGCTTAGCCACTAGATA
Found at i:66284171 original size:24 final size:24
Alignment explanation
Indices: 66284144--66284306 Score: 272
Period size: 24 Copynumber: 6.8 Consensus size: 24
66284134 GCTGGAAATA
*
66284144 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66284168 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTCAC
*
66284192 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66284216 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66284240 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
*
66284264 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
66284288 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
66284307 ACATAATAAG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:66284320 original size:48 final size:48
Alignment explanation
Indices: 66284144--66284328 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 48
66284134 GCTGGAAATA
* * *
66284144 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
* * *
66284192 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
** *
66284240 TATGGCACTATGTGTGCGA-TTCGCTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGACTT-AATATGGCACTATGTGTGCGATTCAC
* *
66284288 TATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 TATGGCACTATGTGTGCG-ACTTAATATGGCACTATGTGTGC
66284329 CACATTCGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
47 2 0.02
48 119 0.95
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
Found at i:66291977 original size:24 final size:24
Alignment explanation
Indices: 66291950--66292112 Score: 272
Period size: 24 Copynumber: 6.8 Consensus size: 24
66291940 GCTGGAAATA
*
66291950 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66291974 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTCAC
*
66291998 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66292022 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
66292046 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
*
66292070 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
66292094 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
66292113 ACATAATAAG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:66292126 original size:48 final size:48
Alignment explanation
Indices: 66291950--66292134 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 48
66291940 GCTGGAAATA
* * *
66291950 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
* * *
66291998 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
** *
66292046 TATGGCACTATGTGTGCGA-TTCGCTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGACTT-AATATGGCACTATGTGTGCGATTCAC
* *
66292094 TATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 TATGGCACTATGTGTGCG-ACTTAATATGGCACTATGTGTGC
66292135 CACATTCGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
47 2 0.02
48 119 0.95
49 3 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
Found at i:66297553 original size:3 final size:3
Alignment explanation
Indices: 66297545--66297574 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
66297535 CTAGATACAA
66297545 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
66297575 TATTCAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:66297574 original size:55 final size:55
Alignment explanation
Indices: 66297501--66297617 Score: 207
Period size: 55 Copynumber: 2.1 Consensus size: 55
66297491 CAGAACCAAT
*
66297501 AAAGAAGAAGAAGAAGAAGTATTCGGCTTACCCACTAGATACAAAAGAAGAAGAA
1 AAAGAAGAAGAAGAAGAAGTATTCAGCTTACCCACTAGATACAAAAGAAGAAGAA
* *
66297556 GAAGAAGAAGAAGAAGAAGTATTCAGCTTAGCCACTAGATACAAAAGAAGAAGAA
1 AAAGAAGAAGAAGAAGAAGTATTCAGCTTACCCACTAGATACAAAAGAAGAAGAA
66297611 AAAGAAG
1 AAAGAAG
66297618 TCGTGAGGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.54, C:0.11, G:0.23, T:0.12
Consensus pattern (55 bp):
AAAGAAGAAGAAGAAGAAGTATTCAGCTTACCCACTAGATACAAAAGAAGAAGAA
Found at i:66299633 original size:80 final size:80
Alignment explanation
Indices: 66299520--66299712 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
66299510 GGATATAGCG
* * * * * * *
66299520 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
66299585 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
66299600 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
66299665 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * * *
66299680 ACTTAGCACAAAAGCCTTCGAGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
66299713 ACACCATTCG
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
80 67 0.72
81 26 0.28
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:66299712 original size:41 final size:40
Alignment explanation
Indices: 66299534--66299713 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
66299524 GCTCGATTGT
* * * *
66299534 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* * *
66299574 CTTCGGGAATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
66299614 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
66299654 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
66299695 CTTCGAGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
66299714 CACCATTCGA
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
40 86 0.75
41 27 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:66300427 original size:2 final size:2
Alignment explanation
Indices: 66300420--66300449 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
66300410 ATGTGCAAAC
66300420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66300450 GCTAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66305742 original size:27 final size:26
Alignment explanation
Indices: 66305712--66305765 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
66305702 CTGCTCTTAT
* *
66305712 TAAAAATTAGAAAAATTTTATAAAAAA
1 TAAAAAATA-AAAAATTTTAGAAAAAA
*
66305739 TAAAAAATAATAAATTTTAGAAAAAA
1 TAAAAAATAAAAAATTTTAGAAAAAA
66305765 T
1 T
66305766 TATTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAAAAATAAAAAATTTTAGAAAAAA
Found at i:66305783 original size:20 final size:20
Alignment explanation
Indices: 66305737--66305786 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
66305727 TTTTATAAAA
*
66305737 AATAAAAAATAATAAATTTT
1 AATAAAAATTAATAAATTTT
*
66305757 AGA-AAAAATTATTAAATTTT
1 A-ATAAAAATTAATAAATTTT
66305777 AATAAAAATT
1 AATAAAAATT
66305787 TAAGAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAAAAATTAATAAATTTT
Found at i:66306086 original size:16 final size:15
Alignment explanation
Indices: 66306050--66306088 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
66306040 AATTTTATAA
*
66306050 TTTTTTATATTTTTT
1 TTTTTTATATTTTTC
66306065 TATTTTTATATTTCTTC
1 T-TTTTTATATTT-TTC
66306082 TTTTTTA
1 TTTTTTA
66306089 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATATTTTTC
Found at i:66306111 original size:25 final size:25
Alignment explanation
Indices: 66306083--66306130 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
66306073 TATTTCTTCT
*
66306083 TTTTTAATAAATTT-TTAATATTTTA
1 TTTTTAA-AAATTTAATAATATTTTA
*
66306108 TTTTTTAAAATTTAATAATATTT
1 TTTTTAAAAATTTAATAATATTT
66306131 ATAGCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTAAAAATTTAATAATATTTTA
Found at i:66312432 original size:28 final size:28
Alignment explanation
Indices: 66312400--66312469 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
66312390 ATAGTAAGTC
66312400 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
66312428 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
66312456 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66312470 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:66312929 original size:2 final size:2
Alignment explanation
Indices: 66312924--66312949 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66312914 TCACACATGC
66312924 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
66312950 GGCCGAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66314891 original size:28 final size:28
Alignment explanation
Indices: 66314859--66314938 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
66314849 CATACATGCT
*
66314859 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
* *
66314887 TATGGCCCATTAGGCCTAAATCACATCTA
1 TATGGCCCACTAGGCC-CAATCACATCTA
66314916 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
66314939 TTTTACACTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 21 0.47
29 23 0.51
30 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:66314919 original size:29 final size:28
Alignment explanation
Indices: 66314859--66314938 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
66314849 CATACATGCT
* *
66314859 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCAAATCACATTCA
*
66314887 TATGGCCCATTAGGCCTAAATCACA-TCTA
1 TATGGCCCACTAGGCC-AAATCACATTC-A
*
66314916 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCAAATCAC
66314939 TTTTACACTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCAAATCACATTCA
Found at i:66320998 original size:22 final size:21
Alignment explanation
Indices: 66320950--66320995 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
66320940 ATTCTATGCT
66320950 AATTGATAAAGATTAATATATA
1 AATT-ATAAAGATTAATATATA
66320972 AATTATAATAGATATAATAATATA
1 AATTATAA-AGAT-TAAT-ATATA
66320996 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
AATTATAAAGATTAATATATA
Found at i:66335661 original size:12 final size:12
Alignment explanation
Indices: 66335646--66335676 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
66335636 TATCAGAACT
*
66335646 AGAATCAAAATG
1 AGAATCAAAATC
66335658 AGAATCAAAATC
1 AGAATCAAAATC
66335670 AGAATCA
1 AGAATCA
66335677 GGTGACAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (12 bp):
AGAATCAAAATC
Found at i:66335865 original size:27 final size:27
Alignment explanation
Indices: 66335824--66335930 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
66335814 CTGCCAAAAT
* * *
66335824 AGAT-TTTGTGACAGAGTCACCAGATAA
1 AGATATTTGTGGCAGAGCCACCAGA-AC
*
66335851 AGATA-TTGTGGCAGAGCCACTAGAAC
1 AGATATTTGTGGCAGAGCCACCAGAAC
* *
66335877 AGATATTTATGGCGGAGCCACCAGAAC
1 AGATATTTGTGGCAGAGCCACCAGAAC
*
66335904 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATATTTGTGGCAGAGCCACCAGAAC
66335931 GCTTCCTCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 62 0.91
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
AGATATTTGTGGCAGAGCCACCAGAAC
Found at i:66336162 original size:27 final size:27
Alignment explanation
Indices: 66336132--66336489 Score: 448
Period size: 27 Copynumber: 13.3 Consensus size: 27
66336122 GGGGCAAAAT
* * *
66336132 GGTAATTTTATCCC-ACAAGGGTATCTC
1 GGTAATTCTA-CCCTACAGGGGTATTTC
*
66336159 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
66336186 GGTATTTCTACTCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66336213 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66336240 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
66336267 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
66336294 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66336321 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66336348 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66336375 AGTAATTCTACCCTACACGGCTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
66336402 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66336429 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
66336456 AGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
66336483 AGTAATT
1 GGTAATT
66336490 TTGTAAACTA
Statistics
Matches: 288, Mismatches: 42, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 285 0.99
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:66338506 original size:42 final size:43
Alignment explanation
Indices: 66338441--66338521 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
66338431 AGGAATTTTT
*
66338441 TGATCTAAACTCATTGAGTTGTGGTCTGAGTTTATGATTTATG
1 TGATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATTTATG
* *
66338484 TGATTTAAACTCA-TGAGTTGTGGTTTGAGTTCATGATT
1 TGATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATT
66338522 ATGAGACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 23 0.66
43 12 0.34
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44
Consensus pattern (43 bp):
TGATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATTTATG
Found at i:66340464 original size:47 final size:47
Alignment explanation
Indices: 66340405--66340551 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
66340395 TAAGTTGAAT
66340405 TTAAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAA-CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
*
66340453 TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAATTTACTTAG
1 TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
* * *
66340500 TTAAGCTTATTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAG
1 TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
66340547 TTAAA
1 TTAAA
66340552 GGAAATTTTA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 88 0.95
48 5 0.05
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (47 bp):
TTAAACTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAG
Found at i:66340829 original size:2 final size:2
Alignment explanation
Indices: 66340822--66340853 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66340812 TATGGTAAAG
66340822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66340854 GAAAATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66342539 original size:40 final size:40
Alignment explanation
Indices: 66342480--66342687 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
66342470 TGGAATACAA
* * *
66342480 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
66342520 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
66342560 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
66342600 CCGTATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66342640 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
66342680 CCGGATAT
1 CCGGATAT
66342688 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:66344695 original size:45 final size:45
Alignment explanation
Indices: 66344631--66344791 Score: 188
Period size: 45 Copynumber: 3.6 Consensus size: 45
66344621 TATCGTACAG
*
66344631 TACTATTCGGGCCTTTGAGCCTAATAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGA
*
66344676 TACTATTCAGGCCTTTGAGCC-AAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAA-CAGGCTATAATGCCGGTGAGA
** * * *
66344721 TACTATTCGGGCCTTCAAGCCTAGCA-GCTATAATGTCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGA
* *
66344765 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAACAGGC
66344792 GAAATTTCGG
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
42 13 0.13
43 7 0.07
44 21 0.20
45 61 0.59
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAACAGGCTATAATGCCGGTGAGA
Found at i:66345364 original size:16 final size:18
Alignment explanation
Indices: 66345333--66345365 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
66345323 AACTCGTCAC
66345333 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
66345351 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
66345366 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:66352976 original size:14 final size:16
Alignment explanation
Indices: 66352943--66352979 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
66352933 TTTTAATTAG
*
66352943 TATTATGAGATAAAAT
1 TATTATTAGATAAAAT
66352959 TATTATTAGA-AAAA-
1 TATTATTAGATAAAAT
66352973 TATTATT
1 TATTATT
66352980 GTATGTGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
TATTATTAGATAAAAT
Found at i:66353008 original size:12 final size:12
Alignment explanation
Indices: 66352991--66353015 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66352981 TATGTGCGTT
66352991 TGAAAATTTTTA
1 TGAAAATTTTTA
66353003 TGAAAATTTTTA
1 TGAAAATTTTTA
66353015 T
1 T
66353016 TATTATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:66355168 original size:25 final size:25
Alignment explanation
Indices: 66355140--66355234 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
66355130 GAGGAAGTGC
* *
66355140 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
66355165 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
66355190 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
66355215 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
66355235 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:66355247 original size:24 final size:24
Alignment explanation
Indices: 66355139--66355261 Score: 92
Period size: 25 Copynumber: 5.0 Consensus size: 24
66355129 GGAGGAAGTG
* *
66355139 CAAAAG-GGCTATGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
* *
66355163 CGAAAAG-GGCTTTGCCCTAGTTTAC
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
66355188 CAAAA-AGGGCTTTGCCCCAGTTTAT
1 CAAAAGA-GGCTTTGCCCCAG-TTAT
66355213 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
66355237 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
66355262 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
24 20 0.23
25 67 0.77
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:66355258 original size:50 final size:50
Alignment explanation
Indices: 66355139--66355259 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
66355129 GGAGGAAGTG
* *
66355139 CAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* * *
66355188 CAAAA-AGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
* *
66355237 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGAGGCTATGCC-CCAGTT
66355260 ATATGATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
49 19 0.32
50 41 0.68
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (50 bp):
CAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:66363547 original size:17 final size:19
Alignment explanation
Indices: 66363512--66363556 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
66363502 TTTGGGCCAC
66363512 ATTGGG-CCTAGATGGGCT
1 ATTGGGCCCTAGATGGGCT
66363530 ATTGGGCCCTA-A-GGGCT
1 ATTGGGCCCTAGATGGGCT
*
66363547 AGTGGGCCCT
1 ATTGGGCCCT
66363557 GTACAGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 14 0.56
18 7 0.28
19 4 0.16
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.24
Consensus pattern (19 bp):
ATTGGGCCCTAGATGGGCT
Found at i:66366613 original size:40 final size:40
Alignment explanation
Indices: 66366539--66366719 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
66366529 AACCCAAGTA
* *
66366539 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
66366578 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
66366618 CCTTTGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66366658 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66366698 CCTT-GGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
66366720 CATTCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 30 0.23
40 97 0.75
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:66370982 original size:40 final size:40
Alignment explanation
Indices: 66370810--66370975 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
66370800 AACCCAAGTA
* * ** *
66370810 CCTTCAGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
66370849 CCTTCGGGACTTAGCCCGAATATAGTAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
66370889 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
66370929 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
66370969 CCTTCGG
1 CCTTCGG
66370976 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 12 0.11
40 102 0.89
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:66378919 original size:40 final size:40
Alignment explanation
Indices: 66378747--66378912 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
66378737 AACCCAAGTA
* **
66378747 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66378786 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66378826 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
66378866 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66378906 CCTTCGG
1 CCTTCGG
66378913 ATCTTAGTCG
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.11
40 108 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66384974 original size:40 final size:40
Alignment explanation
Indices: 66384929--66385096 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
66384919 CGGAATATAA
66384929 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66384969 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTAAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
66385009 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
66385049 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66385089 CCGGATAT
1 CCGGATAT
66385097 TATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66399026 original size:39 final size:40
Alignment explanation
Indices: 66398941--66399098 Score: 237
Period size: 40 Copynumber: 4.0 Consensus size: 40
66398931 AGCTCAGTTA
* * * *
66398941 TAGTAATTCGCGCAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATT
* *
66398981 TGGTAACTCGCACAATTGCCTTCGGGAATTAA-CCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATT
*
66399020 TAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATT
*
66399060 TAGTAACTCGTACAAATGCCTTCGGGAATTAACCCGGAT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGAT
66399099 ATCATTCGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.34
40 70 0.66
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATT
Found at i:66399039 original size:79 final size:80
Alignment explanation
Indices: 66398941--66399098 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 80
66398931 AGCTCAGTTA
* * * * *
66398941 TAGTAATTCGCGCAAATGCCTTTGGGACTTAACCCGGATTTGGTAACTCGCACAATTGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
66399006 GAATTAA-CCGGATT
66 GAATTAACCCGGATT
* *
66399020 TAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
66399085 GAATTAACCCGGAT
66 GAATTAACCCGGAT
66399099 ATCATTCGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 65 0.92
80 6 0.08
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
GAATTAACCCGGATT
Found at i:66406707 original size:40 final size:40
Alignment explanation
Indices: 66406663--66406842 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
66406653 GCTTGATTGT
* * *
66406663 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCGCAAATGC
1 CTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGC
* * *
66406703 CTTCGGGACTTAACCCGGATTTGGTAACTCGCACAATTGC
1 CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
66406743 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCCGGATTTAGTAACTCGCACAAATGC
** *
66406783 CTTCGGGATTTAACCCGGATTTAGTAACTCGCAGAAATGC
1 CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
*
66406823 CTTC-GGAAATTAACCCGGAT
1 CTTCGGGACA-TAACCCGGAT
66406843 ATCATTCGAA
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 118 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:66406747 original size:80 final size:80
Alignment explanation
Indices: 66406658--66406842 Score: 257
Period size: 80 Copynumber: 2.3 Consensus size: 80
66406648 TACTCGCTTG
* * * *
66406658 ATTGTCTTCGGGACA-TAGCCCGG-TTATAGTAATTCGCGCAAATGCCTTCGGGACTTAACCCGG
1 ATTGCCTTCGGGA-ATTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
66406721 ATTTGGTAACTCGCACA
64 ATTTAGTAACTCGCACA
*
66406738 ATTGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGATTTAACCCGGAT
1 ATTGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
66406803 TTAGTAACTCGCAGA
66 TTAGTAACTCGCACA
* *
66406818 AATGCCTTCGGAAATTAACCCGGAT
1 ATTGCCTTCGGGAATTAACCCGGAT
66406843 ATCATTCGAA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 91 0.97
81 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (80 bp):
ATTGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCACA
Found at i:66411971 original size:40 final size:38
Alignment explanation
Indices: 66411864--66412031 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 38
66411854 CGGGATTTAA
* * *
66411864 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTA-CACAA-TGCCTTCGGGTCTTAGC
* *** *
66411904 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TACACAA-TGCCTTCGGGTCTTAGC
*
66411944 CCGGATATAACAACTCACACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACAACT-ACAC-AATGCCTTCGGGTCTTAGC
* * *
66411984 CCAGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTA-CA-CAATGCCTTCGGGTCTTAGC
66412024 CCGGATAT
1 CCGGATAT
66412032 CATTCAAATG
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
CCGGATATAACAACTACACAATGCCTTCGGGTCTTAGC
Found at i:66414127 original size:19 final size:19
Alignment explanation
Indices: 66414103--66414142 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
66414093 TATGATCTTT
*
66414103 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
66414122 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
66414141 AA
1 AA
66414143 AGGAGGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:66418977 original size:9 final size:9
Alignment explanation
Indices: 66418959--66419006 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
66418949 TAAGTAAACC
66418959 AATAATACA
1 AATAATACA
*
66418968 AATGATACA
1 AATAATACA
*
66418977 ATTAATACA
1 AATAATACA
*
66418986 AATATTACA
1 AATAATACA
*
66418995 AATAATATA
1 AATAATACA
66419004 AAT
1 AAT
66419007 GATATGATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (9 bp):
AATAATACA
Found at i:66418984 original size:18 final size:18
Alignment explanation
Indices: 66418959--66419010 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
66418949 TAAGTAAACC
66418959 AATAATACAAATGATACA
1 AATAATACAAATGATACA
*
66418977 ATTAATACAAAT-ATTACA
1 AATAATACAAATGA-TACA
*
66418995 AATAATATAAATGATA
1 AATAATACAAATGATA
66419011 TGATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATACAAATGATACA
Found at i:66421747 original size:100 final size:100
Alignment explanation
Indices: 66421574--66421786 Score: 365
Period size: 100 Copynumber: 2.1 Consensus size: 100
66421564 ACACGGCCAA
* *
66421574 GCACACGCCCGTGTCCCTCACACTGCCTAGACACACTCGTGTCCTCGCCTATGTCTAAAAACCTA
1 GCACACGCCCGTGTCCCTCACACTGCCTAGACACACCCGTGTCATCGCCTATGTCTAAAAACCTA
*
66421639 GACATTCTATTTATGACATCATCATTCGTTTAAGG
66 GACATTCTATTTATGACATCATCATTCATTTAAGG
66421674 GCACACGCCCGTGTCCCTCACACTGCCTAGACACACCCGTGTCATCG-CTCATGTCTAAAAACCT
1 GCACACGCCCGTGTCCCTCACACTGCCTAGACACACCCGTGTCATCGCCT-ATGTCTAAAAACCT
*
66421738 AGACATTCTATTTATGACATCATCATTCATTTAGGG
65 AGACATTCTATTTATGACATCATCATTCATTTAAGG
*
66421774 GCACACACCCGTG
1 GCACACGCCCGTG
66421787 CGCTAGGTTG
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
99 2 0.02
100 105 0.98
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (100 bp):
GCACACGCCCGTGTCCCTCACACTGCCTAGACACACCCGTGTCATCGCCTATGTCTAAAAACCTA
GACATTCTATTTATGACATCATCATTCATTTAAGG
Found at i:66440130 original size:40 final size:39
Alignment explanation
Indices: 66440019--66440170 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
66440009 TATAACATGT
* ** *
66440019 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
66440059 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
66440099 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
66440139 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
66440171 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:66440153 original size:80 final size:80
Alignment explanation
Indices: 66440019--66440170 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
66440009 TATAACATGT
* *
66440019 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
66440084 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
66440099 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
66440162 CCCGGATAT
64 CCCGGATAT
66440171 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:66449173 original size:16 final size:16
Alignment explanation
Indices: 66449152--66449183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
66449142 TGTGTAATGC
*
66449152 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
66449168 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
66449184 TCCTAAACTT
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:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:66450573 original size:29 final size:29
Alignment explanation
Indices: 66450531--66450632 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
66450521 TGAATGTTAC
* *
66450531 TGGGCTTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
66450560 TGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
66450589 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
66450617 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
66450633 GATACAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:66450604 original size:58 final size:56
Alignment explanation
Indices: 66450531--66450645 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 56
66450521 TGAATGTTAC
* * * *
66450531 TGGGCTTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGT-ATT
* * *
66450589 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGTATT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTATT
66450645 T
1 T
66450646 TGTAAGGGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 4 0.08
57 23 0.46
58 23 0.46
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (56 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTATT
Found at i:66452254 original size:34 final size:34
Alignment explanation
Indices: 66452185--66452271 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
66452175 TTGAATATTG
*
66452185 TACTGAAAAGGGCTAAGGCCCAGACTGTCACTGT
1 TACTGAAAAGGGCTAAGGCCCAGACTGTCAATGT
* * * *
66452219 TATTGAAATGGGCTAAGGTCCAGTCTG-CTAATGT
1 TACTGAAAAGGGCTAAGGCCCAGACTGTC-AATGT
66452253 TACTGAAAAAGGGGCTAAG
1 TACTG-AAAA-GGGCTAAG
66452272 ACTCCTAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.02
34 31 0.72
35 3 0.07
36 8 0.19
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (34 bp):
TACTGAAAAGGGCTAAGGCCCAGACTGTCAATGT
Found at i:66454211 original size:49 final size:50
Alignment explanation
Indices: 66454142--66454387 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
66454132 ATCTATTGTG
* * *
66454142 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
66454192 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
66454242 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * **
66454292 AGGTCTCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
66454342 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
66454388 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 81 0.50
50 44 0.27
51 38 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:66457438 original size:10 final size:9
Alignment explanation
Indices: 66457415--66457440 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
66457405 TTTGATGTTA
66457415 GTTTTTGAT
1 GTTTTTGAT
66457424 GTTTTTGAT
1 GTTTTTGAT
66457433 GTTTTTGA
1 GTTTTTGA
66457441 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:66459603 original size:18 final size:18
Alignment explanation
Indices: 66459580--66459615 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66459570 TGGTACATGC
66459580 TGCATTATTTGCAAATGA
1 TGCATTATTTGCAAATGA
66459598 TGCATTATTTGCAAATGA
1 TGCATTATTTGCAAATGA
66459616 ACTTACATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
TGCATTATTTGCAAATGA
Found at i:66474445 original size:43 final size:43
Alignment explanation
Indices: 66474383--66474559 Score: 232
Period size: 43 Copynumber: 4.1 Consensus size: 43
66474373 GATGTATATG
*
66474383 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGAATGT
1 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGGATGT
* * *
66474426 TGGCATCGGTATGTGATTACGTGTAAGACCACGTC-GGGATGT
1 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGGATGT
* *
66474468 TGGCATC-ATTATGTAATTATGTGTATGACCACGTCTAGGATGT
1 TGGCATCGA-TATGTAATTACGTGTAAGACCACGTCTAGGATGT
* * * * *
66474511 TGGCATTGATATGTGATTACATGTAAGATCACGTCTGGGATGT
1 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGGATGT
66474554 TGGCAT
1 TGGCAT
66474560 TGTACAATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 35 0.30
43 79 0.69
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGGATGT
Found at i:66474526 original size:85 final size:86
Alignment explanation
Indices: 66474383--66474559 Score: 268
Period size: 85 Copynumber: 2.1 Consensus size: 86
66474373 GATGTATATG
* *
66474383 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGAATGTTGGCATCGGTATGTGATTACGT
1 TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGAATGTTGGCATCGATATGTGATTACAT
66474448 GTAAGACCACGTC-GGGATGT
66 GTAAGACCACGTCTGGGATGT
* * * *
66474468 TGGCATC-ATTATGTAATTATGTGTATGACCACGTCTAGGATGTTGGCATTGATATGTGATTACA
1 TGGCATCGA-TATGTAATTACGTGTAAGACCACGTCTAGAATGTTGGCATCGATATGTGATTACA
*
66474532 TGTAAGATCACGTCTGGGATGT
65 TGTAAGACCACGTCTGGGATGT
66474554 TGGCAT
1 TGGCAT
66474560 TGTACAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
84 1 0.01
85 69 0.83
86 13 0.16
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (86 bp):
TGGCATCGATATGTAATTACGTGTAAGACCACGTCTAGAATGTTGGCATCGATATGTGATTACAT
GTAAGACCACGTCTGGGATGT
Found at i:66478437 original size:29 final size:29
Alignment explanation
Indices: 66478380--66478511 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
66478370 AATTTAAGCC
* **
66478380 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACATAGTGCCATATTTTTCC-AGCT
** *
66478409 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* *
66478438 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
66478468 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
66478496 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
66478512 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 80 0.94
30 5 0.06
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:66480587 original size:28 final size:28
Alignment explanation
Indices: 66480547--66480644 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
66480537 AATAATTTTG
*
66480547 CACACACACAGTGCCTTACACCCGATCT
1 CACACACATAGTGCCTTACACCCGATCT
** *
66480575 CACACACATAGTGCTCGGTTA-A--TAATTT
1 CACACACATAGTGC-C--TTACACCCGATCT
* *
66480603 CGCACACATAGTACCTTACACCCGATCT
1 CACACACATAGTGCCTTACACCCGATCT
*
66480631 CGCACACATAGTGC
1 CACACACATAGTGC
66480645 TCGGTTACTA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 44 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (28 bp):
CACACACATAGTGCCTTACACCCGATCT
Found at i:66480625 original size:56 final size:56
Alignment explanation
Indices: 66480549--66480670 Score: 199
Period size: 56 Copynumber: 2.2 Consensus size: 56
66480539 TAATTTTGCA
* * *
66480549 CACACACAGTGCCTTACACCCGATCTCACACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTACCTTACACCCGATCTCACACACATAGTGCTCGGTTAATAATCTCG
* *
66480605 CACACATAGTACCTTACACCCGATCTCGCACACATAGTGCTCGGTTACTAATCTCG
1 CACACATAGTACCTTACACCCGATCTCACACACATAGTGCTCGGTTAATAATCTCG
66480661 CACACATAGT
1 CACACATAGT
66480671 GCATATATTC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.25
Consensus pattern (56 bp):
CACACATAGTACCTTACACCCGATCTCACACACATAGTGCTCGGTTAATAATCTCG
Found at i:66480658 original size:28 final size:28
Alignment explanation
Indices: 66480571--66480672 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 28
66480561 CTTACACCCG
* *
66480571 ATCTCACACACATAGTGCTCGGTTAATA
1 ATCTCGCACACATAGTGCTCGGTTACTA
* *
66480599 ATTTCGCACACATAGTAC-C--TTAC-A
1 ATCTCGCACACATAGTGCTCGGTTACTA
66480623 CCCGATCTCGCACACATAGTGCTCGGTTACTA
1 ----ATCTCGCACACATAGTGCTCGGTTACTA
66480655 ATCTCGCACACATAGTGC
1 ATCTCGCACACATAGTGC
66480673 ATATATTCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
24 1 0.02
25 3 0.05
27 1 0.02
28 49 0.82
29 1 0.02
31 4 0.07
32 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (28 bp):
ATCTCGCACACATAGTGCTCGGTTACTA
Found at i:66484125 original size:30 final size:30
Alignment explanation
Indices: 66484070--66484229 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
66484060 ATAGTGAATC
66484070 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66484099 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66484129 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
66484158 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
66484186 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66484216 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66484230 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:66484162 original size:59 final size:57
Alignment explanation
Indices: 66484070--66484229 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
66484060 ATAGTGAATC
*
66484070 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
66484129 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
66484186 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
66484230 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:66492166 original size:30 final size:30
Alignment explanation
Indices: 66492111--66492270 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
66492101 ATAGTGAATC
66492111 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66492140 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66492170 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
66492199 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
66492227 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
66492257 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66492271 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:66492203 original size:59 final size:57
Alignment explanation
Indices: 66492111--66492270 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
66492101 ATAGTGAATC
*
66492111 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
66492170 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
66492227 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
66492271 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:66499625 original size:28 final size:28
Alignment explanation
Indices: 66499587--66499688 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 28
66499577 CTTACACCCG
*
66499587 ATCTCGTACACATAGTGCTCGGTTAATA
1 ATCTCGCACACATAGTGCTCGGTTAATA
* * **
66499615 ATTTCGCACACATAGTAC-C--TTACACCCG
1 ATCTCGCACACATAGTGCTCGGTTA-A--TA
*
66499643 ATCTCGCACACATAGTGCTCGGTTACTA
1 ATCTCGCACACATAGTGCTCGGTTAATA
66499671 ATCTCGCACACATAGTGC
1 ATCTCGCACACATAGTGC
66499689 ATATATTCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 1 0.02
28 49 0.84
29 1 0.02
31 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
ATCTCGCACACATAGTGCTCGGTTAATA
Found at i:66499641 original size:56 final size:56
Alignment explanation
Indices: 66499565--66499686 Score: 199
Period size: 56 Copynumber: 2.2 Consensus size: 56
66499555 TAATTTTGCA
* * * *
66499565 CACACACAGTGCCTTACACCCGATCTCGTACACATAGTGCTCGGTTAATAATTTCG
1 CACACATAGTACCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATCTCG
*
66499621 CACACATAGTACCTTACACCCGATCTCGCACACATAGTGCTCGGTTACTAATCTCG
1 CACACATAGTACCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATCTCG
66499677 CACACATAGT
1 CACACATAGT
66499687 GCATATATTC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (56 bp):
CACACATAGTACCTTACACCCGATCTCGCACACATAGTGCTCGGTTAATAATCTCG
Found at i:66506597 original size:15 final size:15
Alignment explanation
Indices: 66506577--66506610 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66506567 TGTATCGGCA
*
66506577 AAAGCCAAAATGTCG
1 AAAGCCAAAATGCCG
*
66506592 AAAGCCGAAATGCCG
1 AAAGCCAAAATGCCG
66506607 AAAG
1 AAAG
66506611 TTTGGCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.21, G:0.24, T:0.09
Consensus pattern (15 bp):
AAAGCCAAAATGCCG
Found at i:66506898 original size:28 final size:28
Alignment explanation
Indices: 66506819--66506904 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
66506809 GTGAGCATGA
* ** *
66506819 ATATGAATGTGACTGGGCTTAACAGGCG
1 ATATGAATGTGATTGGGCTTAATGGGCC
* *
66506847 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCTTAATGGGCC
*
66506876 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCTTAATGGGCC
66506904 A
1 A
66506905 GATACAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 27 0.56
29 21 0.44
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCTTAATGGGCC
Found at i:66511877 original size:40 final size:40
Alignment explanation
Indices: 66511815--66512032 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
66511805 AAGCCAAGTA
* * * *
66511815 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* **
66511854 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66511894 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66511934 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
66511974 CCTTCGGGACTTAGCCTGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
66512014 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66512033 TTATCATCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66514391 original size:37 final size:37
Alignment explanation
Indices: 66514332--66514440 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
66514322 AGCTCAGACG
* *
66514332 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
66514369 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
66514406 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
66514441 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:66514704 original size:100 final size:96
Alignment explanation
Indices: 66514586--66514771 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
66514576 GCACATCGCC
*
66514586 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
66514651 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
66514686 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
66514751 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
66514772 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
96 36 0.43
97 1 0.01
100 46 0.55
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:66514712 original size:48 final size:48
Alignment explanation
Indices: 66514586--66514772 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
66514576 GCACATCGCC
*
66514586 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
66514638 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
66514686 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66514734 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
66514773 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
48 84 0.66
49 1 0.01
51 1 0.01
52 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:66514878 original size:47 final size:47
Alignment explanation
Indices: 66514742--66514888 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
66514732 CATACATATT
* * * *
66514742 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
66514789 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
66514836 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
66514883 TCACAT
1 TCACAT
66514889 AAAATCCTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:66516439 original size:2 final size:2
Alignment explanation
Indices: 66516432--66516459 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
66516422 TCATGCGCAA
66516432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66516460 GTGCAAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66517788 original size:217 final size:217
Alignment explanation
Indices: 66517407--66517841 Score: 658
Period size: 217 Copynumber: 2.0 Consensus size: 217
66517397 TACATGCTTT
* *
66517407 AATAGGTCCTTATAAATTAACCTATCACATTTCAAAAGTGTCACACATACGTCCTATTAACTAAG
1 AATAGATCCTTATAAATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCTATTAACTAAG
* *
66517472 TTCACATGCAATCGACTAAATCGAGGCTTAAAACTTTCACACATTCATACTCACATATTCTAGAC
66 TTAACATGCAATCGACTAAATCAAGGCTTAAAACTTTCACACATTCATACTCACATATTCTAGAC
* * *
66517537 AATAATTATCACATTCAAATACTTCGGTGACTCGGCTTAGCGGTCCCGAGACCACTTCCCGACTA
131 AATAAATATCACATTCAAATAATTCGGTGACTCGGCTTAGCGGTCCCGAAACCACTTCCCGACTA
66517602 AGGTCAATTTAGGGCTGTCACA
196 AGGTCAATTTAGGGCTGTCACA
* *
66517624 AATAGATCCTTATAGATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCTATTAGCTTAA
1 AATAGATCCTTATAAATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCTATTAAC-TAA
* * *
66517689 -TTAACATGCAATCGACTAAATCAAAGG-TTAAAACTTTCACATATTCATATTCACATATTTTAG
65 GTTAACATGCAATCGACTAAATC-AAGGCTTAAAACTTTCACACATTCATACTCACATATTCTAG
* * * * * *
66517752 ACAATAAATATCATATTCAAATAATTTGGTGACTCGGTTTAGTGGTCCCGAAACCGCTTTCCGAC
129 ACAATAAATATCACATTCAAATAATTCGGTGACTCGGCTTAGCGGTCCCGAAACCACTTCCCGAC
* *
66517817 TAGGGTCACTTTAGGGCTGTCACA
194 TAAGGTCAATTTAGGGCTGTCACA
66517841 A
1 A
66517842 CTCACCCCAC
Statistics
Matches: 196, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
217 190 0.97
218 6 0.03
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (217 bp):
AATAGATCCTTATAAATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCTATTAACTAAG
TTAACATGCAATCGACTAAATCAAGGCTTAAAACTTTCACACATTCATACTCACATATTCTAGAC
AATAAATATCACATTCAAATAATTCGGTGACTCGGCTTAGCGGTCCCGAAACCACTTCCCGACTA
AGGTCAATTTAGGGCTGTCACA
Found at i:66522350 original size:40 final size:41
Alignment explanation
Indices: 66522256--66522476 Score: 221
Period size: 40 Copynumber: 5.6 Consensus size: 41
66522246 TATTCGAATG
* *
66522256 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * * *
66522297 ATAACCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
66522337 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
66522377 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
66522417 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
66522456 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
66522477 ATTACTTGAG
Statistics
Matches: 151, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 91 0.60
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:66530470 original size:40 final size:41
Alignment explanation
Indices: 66530376--66530596 Score: 203
Period size: 40 Copynumber: 5.6 Consensus size: 41
66530366 TATTCGAATG
* * *
66530376 ATATCCAGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * *
66530417 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
66530457 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
* *
66530497 ATGTCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * * *
66530537 ATATCCGGGCTAAGA-CCTGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
66530576 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
66530597 ATTACTTAAG
Statistics
Matches: 148, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 89 0.60
41 29 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:66530543 original size:80 final size:81
Alignment explanation
Indices: 66530376--66530560 Score: 225
Period size: 80 Copynumber: 2.3 Consensus size: 81
66530366 TATTCGAATG
* * * *
66530376 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
66530441 ATTCGTGCGAGTTGCT
66 ATTCGTGCGAGTTGCC
** *
66530457 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATGTCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
66530520 CA-TCTGTGCTAG-TGACC
65 CATTC-GTGCGAGTTG-CC
*
66530537 ATATCCGGGCTAAGACCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
66530561 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
79 5 0.05
80 55 0.60
81 31 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCC
Found at i:66532538 original size:40 final size:40
Alignment explanation
Indices: 66532493--66532659 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
66532483 CGGAATATAA
66532493 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
66532533 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
66532573 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
66532613 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
66532652 CCGGATAT
1 CCGGATAT
66532660 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:66532643 original size:80 final size:79
Alignment explanation
Indices: 66532493--66532659 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
66532483 CGGAATATAA
* *
66532493 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
66532558 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
66532573 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
66532635 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
66532652 CCGGATAT
1 CCGGATAT
66532660 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:66533507 original size:17 final size:19
Alignment explanation
Indices: 66533484--66533529 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
66533474 AAGAAGCATG
66533484 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
66533502 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
66533520 AATCATGCTC
1 AATCATGCTC
66533530 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:66538698 original size:40 final size:40
Alignment explanation
Indices: 66538654--66538857 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
66538644 CTGGATTTAA
* * *
66538654 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
66538694 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
66538734 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
66538774 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * **
66538814 CC-GAAACTAGTCACTAGTGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
66538854 CCGG
1 CCGG
66538858 TTATCATCCA
Statistics
Matches: 152, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.03
40 147 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66538913 original size:18 final size:19
Alignment explanation
Indices: 66538870--66538913 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
66538860 ATCATCCAAA
66538870 AATTCATGCACATATCAAT
1 AATTCATGCACATATCAAT
* *
66538889 AAATCATG-ACATATCTAT
1 AATTCATGCACATATCAAT
*
66538907 ATTTCAT
1 AATTCAT
66538914 TTTCATAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (19 bp):
AATTCATGCACATATCAAT
Found at i:66540646 original size:51 final size:50
Alignment explanation
Indices: 66540587--66540722 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 50
66540577 ATTGGTCGTA
* *
66540587 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-ACTTAGATCACG
* * * ** * *
66540638 TGTGTAGTACTAAGTGCAGGCTATTA-GTGTATCAGATGGTTAGGTCTCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACG
*
66540687 TGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG
66540723 GTAGCTTTGG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 32 0.45
50 14 0.20
51 25 0.35
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACG
Found at i:66543747 original size:10 final size:9
Alignment explanation
Indices: 66543724--66543749 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
66543714 TTTGATGTTA
66543724 GTTTTTGAT
1 GTTTTTGAT
66543733 GTTTTTGAT
1 GTTTTTGAT
66543742 GTTTTTGA
1 GTTTTTGA
66543750 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:66544086 original size:31 final size:31
Alignment explanation
Indices: 66544045--66544113 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
66544035 TTTGGAAAGT
* * *
66544045 CACACACCCGTGTGGGTAGGCCGTGTTGTCA
1 CACACGCCCGTGTGGGTAGGCCGTATGGTCA
*
66544076 CACACGCCCGTGTGGGTAGGTCGTATGGTCA
1 CACACGCCCGTGTGGGTAGGCCGTATGGTCA
66544107 CACACGC
1 CACACGC
66544114 TAGTGTGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.20
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAGGCCGTATGGTCA
Found at i:66544120 original size:31 final size:31
Alignment explanation
Indices: 66544043--66544121 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
66544033 GTTTTGGAAA
* *
66544043 GTCACACAC-CC-GTGTGGGTAGGCCGTGTT
1 GTCACACACGCCAGTGTGGGTAGGCCGTATG
* *
66544072 GTCACACACGCCCGTGTGGGTAGGTCGTATG
1 GTCACACACGCCAGTGTGGGTAGGCCGTATG
*
66544103 GTCACACACGCTAGTGTGG
1 GTCACACACGCCAGTGTGG
66544122 CTTGGGACAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 9 0.21
30 2 0.05
31 32 0.74
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (31 bp):
GTCACACACGCCAGTGTGGGTAGGCCGTATG
Found at i:66544453 original size:29 final size:30
Alignment explanation
Indices: 66544421--66544487 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
66544411 TGGGGCAGAC
66544421 CGTGTGTCACACAC-GCCAAGACACATGGT
1 CGTGTGTCACACACGGCCAAGACACATGGT
*
66544450 CGTGTGTCACACACGGCCAATACACATGGT
1 CGTGTGTCACACACGGCCAAGACACATGGT
66544480 CGTGTGTC
1 CGTGTGTC
66544488 TAACCGTGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (30 bp):
CGTGTGTCACACACGGCCAAGACACATGGT
Found at i:66549924 original size:49 final size:49
Alignment explanation
Indices: 66549850--66549982 Score: 212
Period size: 49 Copynumber: 2.7 Consensus size: 49
66549840 ATGTATGATA
*
66549850 TACATATATGTGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TACATATA--TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
66549901 TACATATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TACATATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
** *
66549950 TATGTATATGTGATGAGGCCTAATGGCCAATGT
1 TACATATATGTGATGAGGCCTAATGGCCGATGT
66549983 AAAATATATG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
49 70 0.90
51 8 0.10
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.30
Consensus pattern (49 bp):
TACATATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
Found at i:66550128 original size:37 final size:37
Alignment explanation
Indices: 66550085--66550162 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
66550075 GTTCCGGGCG
66550085 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
66550122 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
66550159 AGAC
1 AGAC
66550163 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:66554028 original size:36 final size:37
Alignment explanation
Indices: 66553948--66554075 Score: 204
Period size: 36 Copynumber: 3.4 Consensus size: 37
66553938 TTATTACGAA
*
66553948 GTCTTACCCGAACATAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAT-AATCTCCACACGTAGTCATCGG
66553986 GTCTTACCCGGACATAATCTCCACACGTAGT-ATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
66554022 GTCTTACCCAGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
66554059 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
66554076 TTTCCAAGTT
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
36 35 0.42
37 30 0.36
38 19 0.23
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:66554171 original size:48 final size:48
Alignment explanation
Indices: 66554114--66554216 Score: 197
Period size: 48 Copynumber: 2.1 Consensus size: 48
66554104 TGTTACAACA
66554114 TCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATT
*
66554162 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATT
66554210 TCACATT
1 TCACATT
66554217 CATCACATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATATT
Found at i:66554265 original size:49 final size:49
Alignment explanation
Indices: 66554208--66554482 Score: 459
Period size: 49 Copynumber: 5.7 Consensus size: 49
66554198 CACACATATA
*
66554208 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
66554257 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
66554304 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
66554353 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
66554400 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
66554449 TTTAACATTCATCACATTGGCCATTAGGCCTTAT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTAT
66554483 TGTAACACCC
Statistics
Matches: 212, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
47 89 0.42
49 123 0.58
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:66554310 original size:96 final size:96
Alignment explanation
Indices: 66554208--66554482 Score: 505
Period size: 96 Copynumber: 2.9 Consensus size: 96
66554198 CACACATATA
* *
66554208 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
66554273 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
*
66554304 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66554369 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
*
66554400 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTAACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66554465 TTGGCCATTAGGCCTTAT
66 TTGGCCATTAGGCCTTAT
66554483 TGTAACACCC
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 173 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACTC
Found at i:66555977 original size:40 final size:40
Alignment explanation
Indices: 66555849--66555999 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
66555839 ATAACCATGT
* * *
66555849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
66555889 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
66555929 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
66555969 GCATAATTGTCTTCGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
66556000 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Done.