Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 152 of 425
Found at i:46198641 original size:14 final size:14
Alignment explanation
Indices: 46198622--46198650 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46198612 AGCATTTGTA
46198622 TGTCATCATACATG
1 TGTCATCATACATG
46198636 TGTCATCATACATG
1 TGTCATCATACATG
46198650 T
1 T
46198651 ATACTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TGTCATCATACATG
Found at i:46200916 original size:30 final size:30
Alignment explanation
Indices: 46200882--46200942 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46200872 TCCTTAACTC
46200882 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46200912 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46200942 A
1 A
46200943 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46206572 original size:49 final size:49
Alignment explanation
Indices: 46206484--46206850 Score: 572
Period size: 47 Copynumber: 7.7 Consensus size: 49
46206474 GATTTTACAC
* *
46206484 GATGAATGTGAATGTGTATA-ATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
46206532 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
46206581 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
46206628 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
46206677 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
46206726 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
46206773 GATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
46206820 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
46206851 TCCCGATGGG
Statistics
Matches: 302, Mismatches: 10, Indels: 15
0.92 0.03 0.05
Matches are distributed among these distances:
47 140 0.46
48 26 0.09
49 136 0.45
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:46206626 original size:96 final size:96
Alignment explanation
Indices: 46206484--46206850 Score: 580
Period size: 96 Copynumber: 3.8 Consensus size: 96
46206474 GATTTTACAC
* *
46206484 GATGAATGTGAATGTGTATAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
46206549 ATATATATGTGATAAGGCCTAATGGCCGATGT
65 ATATATATGTGATAAGGCCTAATGGCCGATGT
46206581 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
46206646 TATATATGTGATAAGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
46206677 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
46206740 TGTATATATGTGATAAGGCCGAATGGCCAATGT
64 TATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
46206773 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
46206838 TA-A-ATGTGATAAG
66 TATATATGTGATAAG
46206851 TCCCGATGGG
Statistics
Matches: 254, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
94 45 0.18
95 4 0.02
96 143 0.56
97 21 0.08
98 41 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:46209038 original size:40 final size:40
Alignment explanation
Indices: 46208993--46209275 Score: 486
Period size: 40 Copynumber: 7.2 Consensus size: 40
46208983 GCTAAATCCT
*
46208993 GAAGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
46209033 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAG-TCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
46209072 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAG---C
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
46209109 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
*
46209149 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
46209189 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAG-TCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
* * *
46209228 GAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCC
1 GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
46209268 GAAGAGCA
1 GAAGAGCA
46209276 ATCATGCTGG
Statistics
Matches: 233, Mismatches: 6, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
37 37 0.16
39 75 0.32
40 121 0.52
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCC
Found at i:46209083 original size:79 final size:79
Alignment explanation
Indices: 46208971--46209275 Score: 503
Period size: 79 Copynumber: 3.9 Consensus size: 79
46208961 GAGAATTGAG
* * * *
46208971 AGTGATATATCC-G-CTAAATCCTGAAGAGCATTCGTGCTAGTGATGTATCAGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTCC-GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
46209034 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
46209049 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAG---CGA
1 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGA
46209111 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
46209125 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATGTATCCGGACTAAG-TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
46209190 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
* *
46209205 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAGGTCCCGA
1 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGA
46209270 AGAGCA
66 AGAGCA
46209276 ATCATGCTGG
Statistics
Matches: 216, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
76 37 0.17
77 39 0.18
78 11 0.05
79 85 0.39
80 44 0.20
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGA
AGAGCATTCGTGCT
Found at i:46212968 original size:47 final size:47
Alignment explanation
Indices: 46212914--46213306 Score: 440
Period size: 47 Copynumber: 8.7 Consensus size: 47
46212904 GATTTTACGC
* *
46212914 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGA-T
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCGAGT
46212961 GATGAATGTGAAAGTG--TAA-ATGTGAT---G---AATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGA-GT
46213000 GATGAA--T---AGTG--T-ATA--TGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGA-GT
46213038 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGA-GT
46213087 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGA-GT
46213136 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGA-GT
* *
46213183 GATGAATGTG-AAGTGTAT-ATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGA-GT
* * * *
46213229 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGA-GT
*
46213276 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
46213307 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 9, Indels: 44
0.86 0.02 0.12
Matches are distributed among these distances:
32 4 0.01
33 1 0.00
34 6 0.02
35 1 0.00
37 10 0.03
38 18 0.06
39 7 0.02
40 2 0.01
43 10 0.03
44 2 0.01
45 2 0.01
46 44 0.14
47 116 0.37
48 1 0.00
49 91 0.29
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGAGT
Found at i:46213075 original size:49 final size:47
Alignment explanation
Indices: 46213015--46213306 Score: 460
Period size: 47 Copynumber: 6.1 Consensus size: 47
46213005 ATAGTGTATA
46213015 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
46213064 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
46213113 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
46213160 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* *
46213206 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * * *
46213253 TGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
46213300 TGATAAG
1 TGATAAG
46213307 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
46 44 0.19
47 102 0.44
49 88 0.38
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:46213245 original size:93 final size:94
Alignment explanation
Indices: 46213015--46213306 Score: 460
Period size: 93 Copynumber: 3.1 Consensus size: 94
46213005 ATAGTGTATA
46213015 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
46213080 CCGATGTGATGAATGTGAAAGTGTATATATATG
64 CCGATGTGATGAATGTGAAAGTG--TATATATG
46213113 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
46213178 GATGTGATGAATGTG-AAGTGTATATATG
66 GATGTGATGAATGTGAAAGTGTATATATG
* * * * *
46213206 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
46213271 AACGTGATGGATGTGAAAGTGTATAAATG
66 GATGTGATGAATGTGAAAGTGTATATATG
46213300 TGATAAG
1 TGATAAG
46213307 TCCCGAAGGG
Statistics
Matches: 184, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
93 80 0.43
94 19 0.10
95 5 0.03
96 41 0.22
98 39 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATG
Found at i:46216689 original size:39 final size:39
Alignment explanation
Indices: 46216634--46216847 Score: 335
Period size: 39 Copynumber: 5.6 Consensus size: 39
46216624 ATCATAATTG
46216634 TATGTGCT-GAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46216672 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
46216711 TATGTGCTCGAATTATATCCGGACTTTAGGTCCACA-GC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
46216749 TATGTGCTGGAATT-TTTTCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46216787 TATGTGCTGGAATTTTATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46216826 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
46216848 GCTTAAATTC
Statistics
Matches: 161, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
37 17 0.11
38 39 0.24
39 105 0.65
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:46216791 original size:76 final size:77
Alignment explanation
Indices: 46216634--46216847 Score: 333
Period size: 76 Copynumber: 2.8 Consensus size: 77
46216624 ATCATAATTG
46216634 TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
1 TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
46216699 AGGTCCACAGGC
66 AGGTCCACAGGC
* * * *
46216711 TATGTGCTCGAATTATATCCGGACTTTAGGTCCACA-GCTATGTGCTGGAATT-TTTTCGGACTT
1 TATGTGCT-GAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
*
46216774 CAGGTCCGCAGGC
65 CAGGTCCACAGGC
* *
46216787 TATGTGCTGGAATTTTATCCGGACTTCAGGTCCGCAGGCTATGAGCTGGAATTATATCCGG
1 TATGTGCT-GAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
46216848 GCTTAAATTC
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
76 53 0.43
77 39 0.32
78 30 0.25
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (77 bp):
TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
AGGTCCACAGGC
Found at i:46216839 original size:115 final size:115
Alignment explanation
Indices: 46216634--46216847 Score: 358
Period size: 115 Copynumber: 1.9 Consensus size: 115
46216624 ATCATAATTG
46216634 TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
1 TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
*
46216699 AGGTCCACAGGCTATGTGCTCGAATTATATCCGGACTTTAGGTCCACAGC
66 AGGTCCACAGGCTATGAGCTCGAATTATATCCGGACTTTAGGTCCACAGC
* * *
46216749 TATGTGCTGGAATT-TTTTCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTTTATCCGGACTT
1 TATGTGCT-GAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTT
* *
46216813 CAGGTCCGCAGGCTATGAGCTGGAATTATATCCGG
65 CAGGTCCACAGGCTATGAGCTCGAATTATATCCGG
46216848 GCTTAAATTC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 87 0.95
116 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (115 bp):
TATGTGCTGAATTATATCCGGACTTCAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTC
AGGTCCACAGGCTATGAGCTCGAATTATATCCGGACTTTAGGTCCACAGC
Found at i:46224490 original size:39 final size:39
Alignment explanation
Indices: 46224429--46224528 Score: 155
Period size: 39 Copynumber: 2.6 Consensus size: 39
46224419 ATCATAATTG
*
46224429 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATACCCGGACTTCAGGTCCGCAGGC
* *
46224468 TATGTGCTAGAATTTTACCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATACCCGGACTTCAGGTCCGCAGGC
* *
46224507 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATACCCGG
46224529 GCTTAAATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (39 bp):
TATGTGCTGGAATTATACCCGGACTTCAGGTCCGCAGGC
Found at i:46224912 original size:2 final size:2
Alignment explanation
Indices: 46224905--46224934 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46224895 TGTGTTTGGC
46224905 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
46224935 GTATTTTCGG
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:46236176 original size:20 final size:20
Alignment explanation
Indices: 46236166--46236206 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46236156 AAAATAAGTA
46236166 ATATAATAAGAATATATAAT
1 ATATAATAAGAATATATAAT
*
46236186 ATATAATAA-AATTTAT-AT
1 ATATAATAAGAATATATAAT
46236204 ATA
1 ATA
46236207 ATGTTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATATAATAAGAATATATAAT
Found at i:46240877 original size:131 final size:130
Alignment explanation
Indices: 46240666--46241041 Score: 364
Period size: 131 Copynumber: 2.9 Consensus size: 130
46240656 AGGGATCTTT
* * * * * *
46240666 GATTGTTTTGAACAAATGAA-AAAGCGCCACCCAGCACAATAGGGCACGATTCTCAAATCGCCAA
1 GATTGTTTTGAACAAAT-AAGAAATCACAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAA
* * ** *
46240730 ACATCGAACCTTGCCTTCGTTTTGAAAGGTTTTTA-ATAAACATGAGTGAAAACCTAAAGGAATA
65 ACATCGAACATAGCCTTCGTTTT-AAAGGTTTTTAGA-AAACATGAACGAAAACCAAAAGGAATA
46240794 TTC
128 TTC
* * *
46240797 GATTGTTTTGAACAAATAAGAAATCACAACCTAGCACGGTAGGACACGATTCTCGAATTGCCAAA
1 GATTGTTTTGAACAAATAAGAAATCACAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAA
* ** * *
46240862 CATCGAACATAGCCTTCGCTTTAAAGAGTTTTTAGAAAACATGAACGAAATTCAAAAGGGATGTT
66 CATCGAACATAGCCTTCGTTTTAAAG-GTTTTTAGAAAACATGAACGAAAACCAAAAGGAATATT
46240927 C
130 C
* ** ** * * *
46240928 GATT-ATTTGAGTAAACGAGAAATTACAACCCAGCACGTTAGGGCACGATTC-CATGAATTGTCA
1 GATTGTTTTGAACAAATAAGAAATCACAACCCAGCACGATAGGGCACGATTCTC--GAATTGCCA
* * * * * * *
46240991 AATATCGAACATCGTCTTTGTTTTAAAGGATTTTAGAAGACATGAATGAAA
64 AACATCGAACATAGCCTTCGTTTTAAAGGTTTTTAGAAAACATGAACGAAA
46241042 TTCTAAAGGG
Statistics
Matches: 203, Mismatches: 37, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
129 1 0.00
130 64 0.32
131 137 0.67
132 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (130 bp):
GATTGTTTTGAACAAATAAGAAATCACAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAA
CATCGAACATAGCCTTCGTTTTAAAGGTTTTTAGAAAACATGAACGAAAACCAAAAGGAATATTC
Found at i:46243836 original size:31 final size:31
Alignment explanation
Indices: 46243795--46243858 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46243785 CCTTTTCATA
*
46243795 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46243826 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46243857 TT
1 TT
46243859 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46244104 original size:24 final size:24
Alignment explanation
Indices: 46244071--46244241 Score: 256
Period size: 24 Copynumber: 7.2 Consensus size: 24
46244061 GGCCTACCCT
*
46244071 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46244095 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
46244119 C-TTTAATAACTGGGGCGTAAGGC
1 CTTTTAATAACTGGGGCATAAGCC
*
46244142 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46244166 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46244190 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46244214 C-TTTAATAATTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
46244237 CTTTT
1 CTTTT
46244242 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
23 41 0.30
24 94 0.70
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:46244128 original size:47 final size:47
Alignment explanation
Indices: 46244073--46244241 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
46244063 CCTACCCTCT
* *
46244073 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
46244120 TTTAATAACTGGGGCGTAAGGCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
46244167 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
46244215 TTTAATAATTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
46244242 TCACTTCCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 68 0.61
48 44 0.39
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:46244169 original size:71 final size:71
Alignment explanation
Indices: 46244071--46244242 Score: 265
Period size: 71 Copynumber: 2.4 Consensus size: 71
46244061 GGCCTACCCT
*
46244071 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGC
*
46244135 GTAAGGC
66 ATAA-GC
* * *
46244142 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGC
46244207 ATAAGC
66 ATAAGC
* *
46244213 CCTTTAATAATTGGGGCATAAGCCCTTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTTT
46244243 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 74 0.81
72 17 0.19
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (71 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGC
ATAAGC
Found at i:46244314 original size:9 final size:9
Alignment explanation
Indices: 46244300--46244376 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
46244290 ATCTCGTGTG
46244300 CATATCATA
1 CATATCATA
* *
46244309 CATATCGTGTG
1 CATATC--ATA
46244320 CATATCATA
1 CATATCATA
* *
46244329 CATGTCATGTG
1 CATATCA--TA
46244340 CATATCATA
1 CATATCATA
*
46244349 CATATCATGTG
1 CATATCA--TA
46244360 CATATCATA
1 CATATCATA
46244369 CATATCAT
1 CATATCAT
46244377 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:46244316 original size:20 final size:20
Alignment explanation
Indices: 46244296--46244378 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
46244286 GAACATCTCG
*
46244296 TGTGCATATCATACATATCG
1 TGTGCATATCATACATATCA
*
46244316 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
46244336 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46244356 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46244376 TGT
1 TGT
46244379 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:46244363 original size:11 final size:11
Alignment explanation
Indices: 46244296--46244367 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
46244286 GAACATCTCG
46244296 TGTGCATATCA
1 TGTGCATATCA
* *
46244307 --TACATATCG
1 TGTGCATATCA
46244316 TGTGCATATCA
1 TGTGCATATCA
* *
46244327 --TACATGTCA
1 TGTGCATATCA
46244336 TGTGCATATCA
1 TGTGCATATCA
*
46244347 --TACATATCA
1 TGTGCATATCA
46244356 TGTGCATATCA
1 TGTGCATATCA
46244367 T
1 T
46244368 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:46244461 original size:25 final size:25
Alignment explanation
Indices: 46244415--46244462 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
46244405 ATATATAAAG
* * * *
46244415 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46244440 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46244463 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46245724 original size:27 final size:27
Alignment explanation
Indices: 46245704--46246230 Score: 619
Period size: 27 Copynumber: 19.7 Consensus size: 27
46245694 AGGGTATTTT
*
46245704 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46245731 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46245758 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46245785 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46245812 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
46245839 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
46245866 GGTAATTATGTAAAT-TAGGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
46245893 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46245920 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
46245947 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
46245974 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46246001 GGTAATTCTATAAAT-GAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46246027 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46246054 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
46246081 GGTAATTCTGTAAATCGA-GGT-AAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46246106 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
46246133 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46246160 GGTAATT-T-TACAATCGAGGGTAAAAC
1 AGTAATTCTGTA-AATCGAGGGTAAAAC
*
46246186 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
46246213 -GTAATTCTATAAATCGAG
1 AGTAATTCTGTAAATCGAG
46246231 AGTACTTTGG
Statistics
Matches: 443, Mismatches: 39, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
24 1 0.00
25 20 0.05
26 71 0.16
27 344 0.78
28 7 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:46249097 original size:31 final size:31
Alignment explanation
Indices: 46249056--46249119 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46249046 CCTTTTCATA
*
46249056 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46249087 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46249118 TT
1 TT
46249120 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46249365 original size:24 final size:24
Alignment explanation
Indices: 46249313--46249502 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
46249303 GCTTTATCAT
*
46249313 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
46249338 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
46249362 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
46249385 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
46249409 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
46249433 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
46249457 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46249480 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46249503 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46249389 original size:47 final size:48
Alignment explanation
Indices: 46249312--46249503 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
46249302 TGCTTTATCA
* *
46249312 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
46249361 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
46249408 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
46249456 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
46249503 T
1 T
46249504 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:46249413 original size:71 final size:72
Alignment explanation
Indices: 46249313--46249503 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
46249303 GCTTTATCAT
* *
46249313 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
46249377 GCCC-TTTA
64 GCCCTTTTA
* * *
46249385 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
46249450 CCTTTTG
66 CCTTTTA
46249457 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
46249504 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:46249572 original size:9 final size:9
Alignment explanation
Indices: 46249558--46249634 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
46249548 ACATCTCGTG
46249558 CATATCATA
1 CATATCATA
* *
46249567 CATATCGTGTG
1 CATATC--ATA
46249578 CATATCATA
1 CATATCATA
* *
46249587 CATGTCATGTG
1 CATATCA--TA
46249598 CATATCATA
1 CATATCATA
*
46249607 CATATCATGTG
1 CATATCA--TA
46249618 CATATCATA
1 CATATCATA
46249627 CATATCAT
1 CATATCAT
46249635 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:46249580 original size:20 final size:20
Alignment explanation
Indices: 46249555--46249636 Score: 146
Period size: 20 Copynumber: 4.1 Consensus size: 20
46249545 TGAACATCTC
*
46249555 GTGCATATCATACATATCGT
1 GTGCATATCATACATATCAT
*
46249575 GTGCATATCATACATGTCAT
1 GTGCATATCATACATATCAT
46249595 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
46249615 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
46249635 GT
1 GT
46249637 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (20 bp):
GTGCATATCATACATATCAT
Found at i:46249621 original size:11 final size:11
Alignment explanation
Indices: 46249555--46249625 Score: 55
Period size: 11 Copynumber: 7.0 Consensus size: 11
46249545 TGAACATCTC
46249555 GTGCATATCA-
1 GTGCATATCAT
* *
46249565 -TACATATCGT
1 GTGCATATCAT
46249575 GTGCATATCA-
1 GTGCATATCAT
* *
46249585 -TACATGTCAT
1 GTGCATATCAT
46249595 GTGCATATCA-
1 GTGCATATCAT
*
46249605 -TACATATCAT
1 GTGCATATCAT
46249615 GTGCATATCAT
1 GTGCATATCAT
46249626 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (11 bp):
GTGCATATCAT
Found at i:46250978 original size:27 final size:27
Alignment explanation
Indices: 46250958--46251486 Score: 658
Period size: 27 Copynumber: 19.6 Consensus size: 27
46250948 AGGGTATTTT
*
46250958 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46250985 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46251012 AGTAATT-TATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46251038 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46251065 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
46251092 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
46251119 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
46251146 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46251173 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
46251200 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
46251227 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46251254 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46251281 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46251308 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
46251335 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46251362 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
46251389 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
46251416 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46251443 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
46251470 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
46251487 GGAGTACTTT
Statistics
Matches: 443, Mismatches: 46, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
26 27 0.06
27 410 0.93
28 6 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:46255665 original size:40 final size:39
Alignment explanation
Indices: 46255497--46255667 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
46255487 AGAAATTGAA
* *
46255497 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
46255537 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
46255577 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
46255617 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
46255657 TGATATCCGGG
1 TGATATCCGGG
46255668 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:46263693 original size:40 final size:39
Alignment explanation
Indices: 46263525--46263695 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
46263515 AGAAATTGAA
* *
46263525 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
46263565 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
46263605 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
46263645 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
46263685 TGATATCCGGG
1 TGATATCCGGG
46263696 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:46272878 original size:49 final size:50
Alignment explanation
Indices: 46272798--46273042 Score: 253
Period size: 49 Copynumber: 4.9 Consensus size: 50
46272788 AATGATTGTG
* * * *
46272798 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
46272848 -GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * ** * * * * **
46272898 CGATCATGTGTGTAGTACTAAGTGGAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
** * *
46272948 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
46272998 -GGTCGCATGTGTAGTACTAAGTCCA-GCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
46273043 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 18 0.11
49 62 0.39
50 46 0.29
51 35 0.22
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:46272988 original size:101 final size:100
Alignment explanation
Indices: 46272805--46273042 Score: 266
Period size: 101 Copynumber: 2.4 Consensus size: 100
46272795 GTGAGGTCAC
* * * * *
46272805 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTTCTAAGT
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
*
46272870 GCAGGCTACTATGCGTACCCGATAACTTCGATCAT
66 GCAGGCTACTACGCGTACCCGATAACTTCGATCAT
* ** **
46272905 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
* * **
46272970 TGCAGGCTACTACGCGTACCGGATAA-TT-GGTCGC
65 TGCAGGCTACTACGCGTACCCGATAACTTCGATCAT
* ** * *
46273004 ATGTGTAGTACTAAGTCCA-GCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCAGATA
46273043 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
98 16 0.14
99 19 0.17
100 39 0.34
101 41 0.36
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAACTTCGATCAT
Found at i:46276921 original size:13 final size:13
Alignment explanation
Indices: 46276903--46276929 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46276893 TTTATGGTCT
46276903 ATGATTTCATGAA
1 ATGATTTCATGAA
46276916 ATGATTTCATGAA
1 ATGATTTCATGAA
46276929 A
1 A
46276930 ATTTCGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGATTTCATGAA
Found at i:46277641 original size:49 final size:50
Alignment explanation
Indices: 46277561--46277800 Score: 288
Period size: 49 Copynumber: 4.8 Consensus size: 50
46277551 ATGTATAGTG
* *
46277561 AGGTCACGTGTGTAATACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
* * **
46277611 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAA-TT
* * * * * * **
46277661 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-GGATAATT
* *
46277711 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
*
46277761 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
46277801 CAAATAGCTT
Statistics
Matches: 161, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
49 78 0.48
50 46 0.29
51 37 0.23
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
Found at i:46283851 original size:47 final size:50
Alignment explanation
Indices: 46283777--46283909 Score: 177
Period size: 47 Copynumber: 2.7 Consensus size: 50
46283767 ATAAGGTGTA
* *
46283777 ATGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-C--AT-C
1 ATGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCTC-TCACATATAC
*
46283824 AAG-TCGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATAC
1 ATGCT-GATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATAC
*
46283874 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTA
1 ATGCTGATGCCATGTCCTAAACATGGTCTTACACTA
46283910 ACATATCTCG
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
46 3 0.04
47 36 0.48
49 2 0.03
50 33 0.44
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCACATATAC
Found at i:46285716 original size:46 final size:47
Alignment explanation
Indices: 46285646--46285908 Score: 163
Period size: 46 Copynumber: 5.6 Consensus size: 47
46285636 TTATTTGTGT
*
46285646 GCCAGTGTAAGA-CATGTCTAGGACATGCATTGACCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATTGACCTCGAGATGTAA
* * *
46285692 GCCAGTGTAAGA-CATGTCTTGGACATGCA-TCAGCTACGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATTGACCT-CGAGATGTAA
* * * * * * *
46285736 GTCAATCTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATTGACCTCGAGATGT-A-A
* * * *
46285786 GCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTC-A-ATTTCGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATTGACCTCGAGATGT--A-A
* * **
46285835 GTCAGTGTAAGACCATGTCTGGGATATGACATCAACCT-GATGGATG--A
1 GCCAGTGTAAGACCATGTCTGGGACATG-CATTGACCTCGA--GATGTAA
46285882 GCCAGTGTAA-ACCATG-CTTGGGACATG
1 GCCAGTGTAAGACCATGTC-TGGGACATG
46285909 GCATCGACTT
Statistics
Matches: 170, Mismatches: 32, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 9 0.05
45 18 0.11
46 59 0.35
47 12 0.07
48 4 0.02
49 34 0.20
50 32 0.19
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATTGACCTCGAGATGTAA
Found at i:46289349 original size:12 final size:12
Alignment explanation
Indices: 46289332--46289356 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46289322 AATATTCACA
46289332 AAAAAAAAAGAG
1 AAAAAAAAAGAG
46289344 AAAAAAAAAGAG
1 AAAAAAAAAGAG
46289356 A
1 A
46289357 GAGCATTTTG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:46293517 original size:41 final size:41
Alignment explanation
Indices: 46293456--46293538 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
46293446 TTCCAAATGA
46293456 AGGGACTATTACGTCAGGAAACCAAAACCATAACTTAGTTT
1 AGGGACTATTACGTCAGGAAACCAAAACCATAACTTAGTTT
** *
46293497 AGGGACTATTGGGTCGGGAAACCAAAACCATAACTTAGTTT
1 AGGGACTATTACGTCAGGAAACCAAAACCATAACTTAGTTT
46293538 A
1 A
46293539 CTGACCACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (41 bp):
AGGGACTATTACGTCAGGAAACCAAAACCATAACTTAGTTT
Found at i:46308938 original size:13 final size:13
Alignment explanation
Indices: 46308920--46308944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46308910 TAATTTATAT
46308920 GTGTGAAAATTTC
1 GTGTGAAAATTTC
46308933 GTGTGAAAATTT
1 GTGTGAAAATTT
46308945 TATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:46310130 original size:44 final size:43
Alignment explanation
Indices: 46310059--46310225 Score: 207
Period size: 43 Copynumber: 3.9 Consensus size: 43
46310049 TAGGATTCCA
* *
46310059 ATATATGATT-CGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCG
* *
46310101 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATGTGA-TTACGTGTAAGACCATGTCTGGGACGTTGGCATCG
* *
46310145 -TATATGAGTT-CGTGTAAGACCTTGTCTGGGACAG-TGGCATCG
1 ATATGTGA-TTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCG
* *
46310187 ATATGTGATTACATGTAAGACCATGTCTGGGACGCTGGC
1 ATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGC
46310226 GTTGTACGAG
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
42 38 0.36
43 39 0.36
44 30 0.28
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCG
Found at i:46310172 original size:42 final size:43
Alignment explanation
Indices: 46310060--46310219 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 43
46310050 AGGATTCCAA
* *
46310060 TATATGA-TT-CGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 TATATGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
* * *
46310101 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 -TATATGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
* *
46310145 TATATGAGTT-CGTGTAAGACCTTGTCTGGGACAGTGGCATCG
1 TATATGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
* *
46310187 -ATATGTGATTACATGTAAGACCATGTCTGGGAC
1 TATATGAG-TTACGTGTAAGACCATGTCTGGGAC
46310220 GCTGGCGTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 6 0.06
42 37 0.36
43 29 0.28
44 30 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TATATGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
Found at i:46310183 original size:86 final size:84
Alignment explanation
Indices: 46310060--46310219 Score: 250
Period size: 86 Copynumber: 1.9 Consensus size: 84
46310050 AGGATTCCAA
* *
46310060 TATATGATTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTTACGTGTAAGACCA
1 TATATGATTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGA-TTACATGTAAGACCA
46310125 TGTCTGGGACATTGGCATCG
65 TGTCTGGGACATTGGCATCG
**
46310145 TATATGAGTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACC
1 TATATGA-TTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTACATGTAAGACC
46310209 ATGTCTGGGAC
64 ATGTCTGGGAC
46310220 GCTGGCGTTG
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
85 31 0.45
86 37 0.54
87 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (84 bp):
TATATGATTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCAT
GTCTGGGACATTGGCATCG
Found at i:46312141 original size:20 final size:20
Alignment explanation
Indices: 46312116--46312160 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
46312106 GAAAGGCCGT
46312116 GTGTGACTAGACACACGCCC
1 GTGTGACTAGACACACGCCC
46312136 GTGTGACTAGACACACGCCC
1 GTGTGACTAGACACACGCCC
*
46312156 ATGTG
1 GTGTG
46312161 TCTACCTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (20 bp):
GTGTGACTAGACACACGCCC
Found at i:46318351 original size:15 final size:15
Alignment explanation
Indices: 46318331--46318383 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
46318321 CATATCTTGG
46318331 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
46318346 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
* *
46318361 TTTCTCTA-CCTTGGA
1 TTTCTTTATTC-TGGA
46318376 TTTCTTTA
1 TTTCTTTA
46318384 CTCGGTTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.15, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46327283 original size:17 final size:17
Alignment explanation
Indices: 46327245--46327281 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46327235 TTTTATTTTA
46327245 ATTTACATTATTAAGCC
1 ATTTACATTATTAAGCC
*
46327262 ATTTACATTTTTAA-CC
1 ATTTACATTATTAAGCC
46327278 ATTT
1 ATTT
46327282 TATTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTACATTATTAAGCC
Found at i:46332505 original size:19 final size:20
Alignment explanation
Indices: 46332481--46332520 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46332471 TGTTTTACAG
46332481 AGAAAAAA-AAACTTGCATA
1 AGAAAAAACAAACTTGCATA
46332500 AGAAAAAACAAACTTGCATA
1 AGAAAAAACAAACTTGCATA
46332520 A
1 A
46332521 TGTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (20 bp):
AGAAAAAACAAACTTGCATA
Found at i:46336483 original size:26 final size:26
Alignment explanation
Indices: 46336454--46336509 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
46336444 TGATAAGAAT
46336454 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46336480 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46336506 TGAT
1 TGAT
46336510 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46344782 original size:40 final size:39
Alignment explanation
Indices: 46344738--46344863 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
46344728 GGGACTCAAC
*
46344738 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
46344778 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
46344818 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
46344858 CCGGAT
1 CCGGAT
46344864 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:46344822 original size:80 final size:80
Alignment explanation
Indices: 46344677--46344863 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
46344667 GCTACACATT
* * *
46344677 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
46344741 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
46344757 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
46344820 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
46344838 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
46344864 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:46352840 original size:40 final size:39
Alignment explanation
Indices: 46352796--46352921 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
46352786 GGGACTCAAC
*
46352796 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
46352836 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
46352876 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
46352916 CCGGAT
1 CCGGAT
46352922 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:46352880 original size:80 final size:80
Alignment explanation
Indices: 46352735--46352921 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
46352725 GCTACACATT
* * *
46352735 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
46352799 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
46352815 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
46352878 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
46352896 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
46352922 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:46358602 original size:27 final size:27
Alignment explanation
Indices: 46358562--46358648 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
46358552 AGGAAGCGTC
*
46358562 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
46358589 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
46358616 CTGGTAGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
46358643 CTGGTG
1 CTGGTG
46358649 ACTTCGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
26 8 0.15
27 43 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:46358659 original size:27 final size:27
Alignment explanation
Indices: 46358562--46358666 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
46358552 AGGAAGCGTC
* *
46358562 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGACTCTGCCACAA-TATCTGTAT
*
46358589 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGACTCTGCCACA-ATATCTGTAT
46358616 CTGGT-AGCTCTGCCACAATATCTGTAT
1 CTGGTGA-CTCTGCCACAATATCTGTAT
*
46358643 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
46358667 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
26 9 0.13
27 58 0.84
28 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGACTCTGCCACAATATCTGTAT
Found at i:46359137 original size:93 final size:93
Alignment explanation
Indices: 46358978--46359168 Score: 364
Period size: 93 Copynumber: 2.1 Consensus size: 93
46358968 CCATAGTGGG
*
46358978 CTTGGAGTTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAAC
1 CTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAAC
46359043 TGGACATCCTTTCAATTACATTTGAGGT
66 TGGACATCCTTTCAATTACATTTGAGGT
46359071 CTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAAC
1 CTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAAC
46359136 TGGACATCCTTTCAATTACATTTGAGGT
66 TGGACATCCTTTCAATTACATTTGAGGT
*
46359164 TTTGG
1 CTTGG
46359169 GCTTTTAAAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (93 bp):
CTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGTGAAC
TGGACATCCTTTCAATTACATTTGAGGT
Found at i:46361216 original size:39 final size:39
Alignment explanation
Indices: 46361162--46361378 Score: 353
Period size: 39 Copynumber: 5.6 Consensus size: 39
46361152 ATCATAATTG
46361162 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46361201 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
* * * *
46361240 TATGTGCTCGAATTATATCCGGACTTTAGGTCCACAAGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
46361279 TATGTGCTGGAATTTTATTCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46361318 TATGTGCTGGAATTTTATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
46361357 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
46361379 GCTTAAATTC
Statistics
Matches: 165, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 165 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:46369031 original size:37 final size:38
Alignment explanation
Indices: 46368969--46369062 Score: 138
Period size: 38 Copynumber: 2.4 Consensus size: 38
46368959 ATCATAATTG
46368969 TATGTGCTGGAATTATATCCGGACTTCAGGT-CGCAGGC
1 TATGTGCTGGAATT-TATCCGGACTTCAGGTCCGCAGGC
46369007 TATGTGCTAGGAATTTA-CCGGACTTCAGGTCCGCAGGC
1 TATGTGCT-GGAATTTATCCGGACTTCAGGTCCGCAGGC
*
46369045 TATTGAGCTGGAATTTAT
1 TA-TGTGCTGGAATTTAT
46369063 ATCCGGGCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
37 13 0.25
38 27 0.53
39 11 0.22
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (38 bp):
TATGTGCTGGAATTTATCCGGACTTCAGGTCCGCAGGC
Found at i:46376694 original size:40 final size:41
Alignment explanation
Indices: 46376634--46376853 Score: 289
Period size: 40 Copynumber: 5.6 Consensus size: 41
46376624 TATTCGAATG
*
46376634 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
46376674 ATATCCGGACTAAGAT-CCGAAGGCATTTGT-CGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
46376713 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
46376753 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
46376793 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
46376833 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
46376854 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.01
39 47 0.29
40 109 0.68
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:46376766 original size:79 final size:80
Alignment explanation
Indices: 46376634--46376824 Score: 289
Period size: 79 Copynumber: 2.4 Consensus size: 80
46376624 TATTCGAATG
* * *
46376634 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
*
46376698 ATTTGT-CGAGTTG-CT
65 ATTTATGCGAG-TGACT
*
46376713 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
46376778 TTTATGCTAGTGACT
66 TTTATGCGAGTGACT
46376793 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
46376825 GAGTTGTTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 65 0.63
80 37 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACT
Found at i:46376851 original size:119 final size:119
Alignment explanation
Indices: 46376634--46376853 Score: 363
Period size: 119 Copynumber: 1.8 Consensus size: 119
46376624 TATTCGAATG
* * *
46376634 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
46376699 TTTGTCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
66 TTTGTCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
46376753 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
*
46376818 TTTGTGCGAGTTGTTATATCC-GGCTAA-ATCCCGAAG
66 TTTGT-CGAGTTGCTATATCCGGGCTAAGA-CCCGAAG
46376854 ATACTTGGGT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
118 1 0.01
119 79 0.84
120 14 0.15
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
TTTGTCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:46377121 original size:22 final size:22
Alignment explanation
Indices: 46377081--46377122 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46377071 GAATGTGCAT
*
46377081 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46377103 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46377123 TCGAAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46383011 original size:27 final size:27
Alignment explanation
Indices: 46382935--46382992 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
46382925 CTTTTAGCGG
*
46382935 CGCTTTCCCAAGCGCCGAAAAAAACGT
1 CGCTTTCCCAAGCGCCGCAAAAAACGT
46382962 CGCTTTCCCAAGCGCCGCAAAAAACGT
1 CGCTTTCCCAAGCGCCGCAAAAAACGT
46382989 CGCT
1 CGCT
46382993 ATATGCAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.16
Consensus pattern (27 bp):
CGCTTTCCCAAGCGCCGCAAAAAACGT
Found at i:46383087 original size:43 final size:43
Alignment explanation
Indices: 46383037--46383259 Score: 322
Period size: 43 Copynumber: 5.2 Consensus size: 43
46383027 CGAAAAAAAG
* *
46383037 GCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCGCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
* *
46383080 GCCGCTAAAGACCATGACCTTTAGCGGGGC-TTTTTCGCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
*
46383122 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCTCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
* *
46383165 GCCGCTAAAGACCATGACCTTTAGCGACGGTTTTTTCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
* * * * * *
46383208 GCTGCTAAAGATCATAACCTTTAGCGGCACTTTTCTCATAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
46383251 GCCGCTAAA
1 GCCGCTAAA
46383260 AATAATGATT
Statistics
Matches: 163, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 41 0.25
43 122 0.75
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
Found at i:46383180 original size:85 final size:86
Alignment explanation
Indices: 46383037--46383259 Score: 333
Period size: 85 Copynumber: 2.6 Consensus size: 86
46383027 CGAAAAAAAG
* *
46383037 GCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTTCGCAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCTCAAACGCCGCTAAAGACCATGACCTTT
* *
46383102 AGCG-GGGCTTTTTCGCAAAC
66 AGCGACGGCTTTTTCACAAAC
46383122 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCTCAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCTCAAACGCCGCTAAAGACCATGACCTTT
*
46383187 AGCGACGGTTTTTTCACAAAC
66 AGCGACGGCTTTTTCACAAAC
* * * * *
46383208 GCTGCTAAAGATCATAACCTTTAGCGGCACTTTTCTCAT-AAACGCCGCTAAA
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTC-TCAAACGCCGCTAAA
46383260 AATAATGATT
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 67 0.53
86 58 0.46
87 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (86 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCTCAAACGCCGCTAAAGACCATGACCTTT
AGCGACGGCTTTTTCACAAAC
Found at i:46388222 original size:23 final size:24
Alignment explanation
Indices: 46388190--46388237 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
46388180 CCAAAATAAC
46388190 AATT-ATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
46388213 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
46388237 A
1 A
46388238 TAAATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:46388240 original size:11 final size:12
Alignment explanation
Indices: 46388196--46388241 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
46388186 TAACAATTAT
46388196 TTTTATATAAAC
1 TTTTATATAAAC
* * *
46388208 TTTTAAATTAAT
1 TTTTATATAAAC
46388220 TTTTATATAAAC
1 TTTTATATAAAC
46388232 TTTTA-ATAAA
1 TTTTATATAAA
46388242 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:46388955 original size:40 final size:40
Alignment explanation
Indices: 46388853--46388989 Score: 193
Period size: 41 Copynumber: 3.4 Consensus size: 40
46388843 GTTACATGAC
46388853 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* * *
46388894 CTTTAGCGGTGTTTCACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * * *
46388934 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCAGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGT
46388975 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
46388990 TGTCAAAACG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 14 0.16
41 71 0.84
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:46389020 original size:41 final size:39
Alignment explanation
Indices: 46388853--46389009 Score: 170
Period size: 41 Copynumber: 3.9 Consensus size: 39
46388843 GTTACATGAC
* *
46388853 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAACAAAA-CGCCGCTATTGCTCT-GT
* * * * *
46388894 CTTTAGCGGTGTTTCACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTAACAAAA-CGCCGCTATTGCTCTGT
*
46388934 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCAGT
1 TTTTAGCGGCGTTTTAAC--AAAACGCCGCTATTGCTCTGT
**
46388975 TTTTAGCGGCGTTTTTGTCAAAACGCCGCTATTGC
1 TTTTAGCGGCG-TTTTAACAAAACGCCGCTATTGC
46389010 CTTGTGTTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
40 32 0.31
41 61 0.60
42 9 0.09
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTAACAAAACGCCGCTATTGCTCTGT
Found at i:46391159 original size:40 final size:40
Alignment explanation
Indices: 46391082--46391259 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
46391072 AAACCAAGTA
* * *
46391082 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
46391121 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46391161 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46391201 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46391241 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46391260 TTATCATCCG
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 114 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46395965 original size:24 final size:24
Alignment explanation
Indices: 46395933--46395981 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46395923 TTCACCAACA
46395933 AGATAGATGCATATATTCCTTTAT
1 AGATAGATGCATATATTCCTTTAT
46395957 AGATAGATGCATATATTCCTTTAT
1 AGATAGATGCATATATTCCTTTAT
46395981 A
1 A
46395982 CATAATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (24 bp):
AGATAGATGCATATATTCCTTTAT
Found at i:46409555 original size:31 final size:31
Alignment explanation
Indices: 46409517--46409580 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
46409507 CTTTTTCATA
46409517 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
46409548 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
46409579 TT
1 TT
46409581 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:46409851 original size:23 final size:23
Alignment explanation
Indices: 46409772--46409960 Score: 272
Period size: 24 Copynumber: 8.0 Consensus size: 23
46409762 GCTTTATCAA
*
46409772 ATAACTGGAGGCCT-AGCCTCTTTT
1 ATAACTGG-GGCATAAGCC-CTTTT
* *
46409796 AATAACTGGGGCAAAAGCCCTTTCA
1 -ATAACTGGGGCATAAGCCCTTT-T
46409821 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
*
46409844 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTT
46409867 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46409890 GATAACTGGGGCATAAGCCCTTTT
1 -ATAACTGGGGCATAAGCCCTTTT
*
46409914 GATAACTGGGGCATAAGCCCTTTA
1 -ATAACTGGGGCATAAGCCCTTTT
46409938 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46409961 GCACTTCCTC
Statistics
Matches: 152, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
23 66 0.43
24 74 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTT
Found at i:46409852 original size:47 final size:47
Alignment explanation
Indices: 46409771--46409959 Score: 285
Period size: 47 Copynumber: 4.0 Consensus size: 47
46409761 TGCTTTATCA
* *
46409771 AATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
1 AATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT
46409819 CAATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTT
1 -AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
*
46409866 AATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTT
*
46409914 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
46409960 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
46 27 0.20
47 62 0.47
48 31 0.23
49 13 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:46410032 original size:9 final size:9
Alignment explanation
Indices: 46410018--46410074 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
46410008 ATCTCATGTG
46410018 CATATCATA
1 CATATCATA
*
46410027 CATATCATGTG
1 CATATCA--TA
46410038 CATATCATA
1 CATATCATA
* *
46410047 CATGTCATGTG
1 CATATCA--TA
46410058 CATATCATA
1 CATATCATA
46410067 CATATCAT
1 CATATCAT
46410075 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:46410034 original size:20 final size:20
Alignment explanation
Indices: 46410006--46410076 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
46409996 GCATTTATGA
*
46410006 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
46410026 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
46410046 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
46410066 ACATATCATGT
1 ACATATCATGT
46410077 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:46410041 original size:11 final size:11
Alignment explanation
Indices: 46410011--46410065 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
46410001 TATGAACATC
46410011 TCATGTGCATA
1 TCATGTGCATA
*
46410022 TCA--TACATA
1 TCATGTGCATA
46410031 TCATGTGCATA
1 TCATGTGCATA
* *
46410042 TCA--TACATG
1 TCATGTGCATA
46410051 TCATGTGCATA
1 TCATGTGCATA
46410062 TCAT
1 TCAT
46410066 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:46410141 original size:25 final size:25
Alignment explanation
Indices: 46410113--46410160 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46410103 ATACATAAAC
* * *
46410113 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46410138 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46410161 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46411421 original size:27 final size:27
Alignment explanation
Indices: 46411401--46411693 Score: 351
Period size: 27 Copynumber: 10.9 Consensus size: 27
46411391 AGGGTATTTT
*
46411401 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46411428 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46411455 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46411482 GGTAATTCTGTAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46411509 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46411536 -GATAATTATGTAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
46411563 GGTAATTCTGTAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
46411590 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
46411617 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
46411644 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
46411671 -GATAATTCTATAAATCGAGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
46411694 CTTTGGTAAT
Statistics
Matches: 236, Mismatches: 23, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
26 3 0.01
27 230 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:46411720 original size:54 final size:54
Alignment explanation
Indices: 46411403--46411693 Score: 388
Period size: 54 Copynumber: 5.4 Consensus size: 54
46411393 GGTATTTTAG
* * * *
46411403 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA
* * * * *
46411456 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTGAAACGG
1 -TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA
* * *
46411511 TAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA
* *
46411565 TAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA
* * *
46411619 TAATTATGTAAATCGGGGGTAAAACGGTAATTATGTAAAT-TAGGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGA-GGGTAAAACGA
*
46411673 TAATTCTATAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
46411694 CTTTGGTAAT
Statistics
Matches: 208, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 207 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA
Found at i:46411720 original size:81 final size:81
Alignment explanation
Indices: 46411402--46411693 Score: 426
Period size: 81 Copynumber: 3.6 Consensus size: 81
46411392 GGGTATTTTA
* * * * * * *
46411402 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGT
46411466 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATG
46411483 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
46411548 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
46411564 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
* *
46411629 AATCGGGGGTAAAACG
66 AATCGAGGGTAAAATG
* * * * *
46411645 GTAATTATGTAAAT-TAGGGGTAAAACGATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGA-GGGTGAAACGGTAATTCTGTAAATCGAGGGTA
46411694 CTTTGGTAAT
Statistics
Matches: 195, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 193 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
AATCGAGGGTAAAATG
Found at i:46411730 original size:27 final size:27
Alignment explanation
Indices: 46411700--46411764 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
46411690 GGTACTTTGG
46411700 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
46411727 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
46411754 TAATTTCACAA
1 TAATTTTACAA
46411765 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:46411758 original size:81 final size:78
Alignment explanation
Indices: 46411673--46411884 Score: 201
Period size: 81 Copynumber: 2.6 Consensus size: 78
46411663 GGTAAAACGA
* *
46411673 TAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAG
1 TAATT-TATAAATCAAGGGTATTTTGGTAATTTTACAAG-C-AGGGTATTTCAATAATTTTACA-
**
46411738 GTCGA-GGGTATTTCAG
62 AACGAGGGGTATTTCAG
* * * * **
46411754 TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAA
1 TAATTT-ATAAATCAAGGGTATTTTGGTAATTTTACAAGC-A-GGGTATTTCAATAATTTTACAA
* **
46411819 ACTAGGGGTATTTTGG
63 ACGAGGGGTATTTCAG
* *
46411835 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGCAGGGTATTT
1 TAA-TTTATAAATCAAGGGTATTTTGGTAATTTTAC-AAGCAGGGTATTT
46411885 TGGTAATTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
80 13 0.12
81 87 0.82
82 6 0.06
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (78 bp):
TAATTTATAAATCAAGGGTATTTTGGTAATTTTACAAGCAGGGTATTTCAATAATTTTACAAACG
AGGGGTATTTCAG
Found at i:46411773 original size:27 final size:27
Alignment explanation
Indices: 46411743--46411894 Score: 184
Period size: 27 Copynumber: 5.7 Consensus size: 27
46411733 TACAGGTCGA
* * *
46411743 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
*
46411770 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAACTAG
46411797 GGGTATTTT-GATAATTTTACAAACTAG
1 GGGTATTTTAG-TAATTTTACAAACTAG
* * * *
46411824 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACTAG
46411851 GGGTATTTTAGTAATTTTACAAAGC-A-
1 GGGTATTTTAGTAATTTTACAAA-CTAG
*
46411877 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
46411895 GTAAACCAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 18 0.16
27 92 0.82
28 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTAG
Found at i:46411908 original size:26 final size:26
Alignment explanation
Indices: 46411771--46411911 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
46411761 ACAAATTAGG
* * *
46411771 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
46411798 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
46411825 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
46411851 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
46411878 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
46411904 AGTATTTT
1 GGTATTTT
46411912 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:46427111 original size:40 final size:40
Alignment explanation
Indices: 46427003--46427212 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
46426993 CGGGATTTAA
* * * * *
46427003 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
46427043 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46427083 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46427123 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46427163 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46427203 CCGGATATAT
1 CCGGATATAT
46427213 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46431589 original size:39 final size:39
Alignment explanation
Indices: 46431513--46431623 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
46431503 TAAACCCGGT
* * * * *
46431513 ATAATACCAGCTCGAAGCCTGCGGGA-CTTTAGCCCGGAC
1 ATAATTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGAC
*
46431552 AT-ATTCCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAT
1 ATAATT-CCAGCACGTAGCCTGCGGACCTTAAGTCCGGAC
* *
46431591 ATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 ATAATTCCAGCACGTAGCCTGCGGACCTTAAGT
46431624 ATTCCAGCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 5 0.08
39 53 0.87
40 3 0.05
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
ATAATTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGAC
Found at i:46431630 original size:30 final size:30
Alignment explanation
Indices: 46431594--46431653 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
46431584 TCCGGATATA
46431594 ATTCCAGCACATAGCCTGCGGACCCTAAGT
1 ATTCCAGCACATAGCCTGCGGACCCTAAGT
46431624 ATTCCAGCACATAGCCTGCGGACCCTAAGT
1 ATTCCAGCACATAGCCTGCGGACCCTAAGT
46431654 CAGGATACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (30 bp):
ATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:46435410 original size:4 final size:4
Alignment explanation
Indices: 46435401--46435425 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46435391 CATAGTTCCG
46435401 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
46435426 TTTTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:46438368 original size:39 final size:40
Alignment explanation
Indices: 46438273--46438420 Score: 110
Period size: 39 Copynumber: 3.8 Consensus size: 40
46438263 ACTTGAAACC
** ** *
46438273 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGTCCGGACAT
* * * *
46438312 AATACCAGCTCAAAGCCTGCGGGA-CTTTAG-CCTGGACAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGTCC-GGACAT
* * * *
46438351 ATTTCCAGCACGTAGCCTG-TGGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGACAT
*
46438390 AATTCCAGCACATAGCCTGC-GGACCCTAAGT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGT
46438421 ATTCCAGCAC
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
37 2 0.02
38 15 0.17
39 67 0.78
40 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGACAT
Found at i:46438427 original size:30 final size:30
Alignment explanation
Indices: 46438391--46438450 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
46438381 TCCGGATATA
46438391 ATTCCAGCACATAGCCTGCGGACCCTAAGT
1 ATTCCAGCACATAGCCTGCGGACCCTAAGT
46438421 ATTCCAGCACATAGCCTGCGGACCCTAAGT
1 ATTCCAGCACATAGCCTGCGGACCCTAAGT
46438451 CCGGATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (30 bp):
ATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:46438444 original size:69 final size:69
Alignment explanation
Indices: 46438353--46438489 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 69
46438343 CTGGACATAT
* * *
46438353 TTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
46438418 AGTA
66 AGTA
46438422 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
46438487 AGT
66 AGT
46438490 CCGAATACAC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (69 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCTA
AGTA
Found at i:46443107 original size:34 final size:34
Alignment explanation
Indices: 46443069--46443147 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 34
46443059 GTTTCAGTTA
* *
46443069 GGGCCTTAGCCCT-TATCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCTATATCAGTAACAGTAGCAGT-G
* * * *
46443103 GGGCCTGAG-CCTATCTCAGTAATAGTATCAGTG
1 GGGCCTAAGCCCTATATCAGTAACAGTAGCAGTG
46443136 GGGCCTAAGCCC
1 GGGCCTAAGCCC
46443148 ATTCAAGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (34 bp):
GGGCCTAAGCCCTATATCAGTAACAGTAGCAGTG
Found at i:46460523 original size:13 final size:13
Alignment explanation
Indices: 46460504--46460567 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
46460494 TAAACCAAAT
46460504 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
46460517 TTCTCAAAAGCA-
1 TTTTCAAAAGCAC
* *
46460529 TCTTTCCACAGCAC
1 T-TTTCAAAAGCAC
46460543 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
46460556 TTTTCAAAAGCA
1 TTTTCAAAAGCA
46460568 TTGCCAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 1 0.02
13 41 0.95
14 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:46463373 original size:14 final size:16
Alignment explanation
Indices: 46463351--46463388 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
46463341 AGAAAATAAA
*
46463351 GATACATGAAA-A-GT
1 GATATATGAAATATGT
46463365 GATATATGAAATATGT
1 GATATATGAAATATGT
46463381 GATATATG
1 GATATATG
46463389 TTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (16 bp):
GATATATGAAATATGT
Found at i:46463818 original size:50 final size:49
Alignment explanation
Indices: 46463687--46463883 Score: 202
Period size: 49 Copynumber: 4.0 Consensus size: 49
46463677 TGATCTATTG
* * * * *
46463687 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT
1 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACT
**
46463739 GTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-T
1 -TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
46463786 GGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
1 --TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
** * * * *
46463837 TTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
46463884 TAGCTTCGGC
Statistics
Matches: 125, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 6 0.05
49 41 0.33
50 40 0.32
51 34 0.27
53 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT
Found at i:46463870 original size:49 final size:49
Alignment explanation
Indices: 46463690--46463883 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 49
46463680 TCTATTGTGA
* * *
46463690 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAAC-TGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTTGT
* * * ** *
46463741 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT--TGT
* * *
46463791 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTTGT
* *
46463840 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
46463884 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.02
49 41 0.34
50 43 0.36
51 35 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTTGT
Found at i:46487103 original size:72 final size:72
Alignment explanation
Indices: 46487010--46487153 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
46487000 GACAAGGAGG
* *
46487010 TTCCAATAATCTTGGGACGACCAGTTTTAGGCACTGGACGAACGCTTATTGATGTTTACAAAGGT
1 TTCCAATAATCTTGGGACGACCAGTTTTAGGCACCGAACGAACGCTTATTGATGTTTACAAAGGT
46487075 GAACTAA
66 GAACTAA
* *
46487082 TTCCAATAATCTTGGGACGACCATTTTTAGGCACCGAACGAACTCTTATTGATGTTTACAAAGGT
1 TTCCAATAATCTTGGGACGACCAGTTTTAGGCACCGAACGAACGCTTATTGATGTTTACAAAGGT
46487147 GAACTAA
66 GAACTAA
46487154 CCATGTGACT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (72 bp):
TTCCAATAATCTTGGGACGACCAGTTTTAGGCACCGAACGAACGCTTATTGATGTTTACAAAGGT
GAACTAA
Found at i:46494207 original size:21 final size:21
Alignment explanation
Indices: 46494181--46494222 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46494171 GGGACTCAAA
46494181 GGTGGCCACACAACCGCACAT
1 GGTGGCCACACAACCGCACAT
46494202 GGTGGCCACACAACCGCACAT
1 GGTGGCCACACAACCGCACAT
46494223 ACTTTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.38, G:0.24, T:0.10
Consensus pattern (21 bp):
GGTGGCCACACAACCGCACAT
Found at i:46499391 original size:19 final size:19
Alignment explanation
Indices: 46499367--46499415 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
46499357 GGGCTAGGGC
*
46499367 CACGGGTGTGTCCCACGCA
1 CACGGGTGTGTCCCACACA
46499386 CACGGGCT-TGTCCCACACA
1 CACGGG-TGTGTCCCACACA
*
46499405 CACGGGCGTGT
1 CACGGGTGTGT
46499416 GGTGTACCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.16, C:0.37, G:0.31, T:0.16
Consensus pattern (19 bp):
CACGGGTGTGTCCCACACA
Found at i:46502929 original size:28 final size:28
Alignment explanation
Indices: 46502860--46502960 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46502850 GACAAGATTG
* * * *
46502860 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46502890 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46502918 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46502947 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46502961 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46510880 original size:28 final size:28
Alignment explanation
Indices: 46510811--46510911 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46510801 GACAAGATTG
* * * *
46510811 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46510841 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46510869 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46510898 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46510912 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46524358 original size:40 final size:39
Alignment explanation
Indices: 46524190--46524364 Score: 160
Period size: 40 Copynumber: 4.4 Consensus size: 39
46524180 AGAAATTGAA
* *
46524190 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
46524230 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
46524270 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
46524310 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
46524350 TGATATCCGGG-TAAG
1 TGATATCCGGGCTAAG
46524365 TCCGTTGGCC
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 8 0.07
40 95 0.86
41 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:46533958 original size:46 final size:45
Alignment explanation
Indices: 46533908--46534082 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
46533898 TGGTTGAGCA
46533908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
46533954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-ATAT-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAG
46534000 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
46534046 CCCGAGCTCATTGTGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46534083 GCGGTTACAT
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
43 2 0.02
44 6 0.06
45 1 0.01
46 91 0.83
47 1 0.01
48 6 0.06
49 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:46534064 original size:92 final size:92
Alignment explanation
Indices: 46533905--46534074 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
46533895 GGATGGTTGA
* * *
46533905 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
46533970 TGAGTCCGAGTTCGTGAATATAACTAG
66 TGAGTCCGAGTTCGTGAATATAACTAG
* *
46533997 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGTGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
46534062 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46534075 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAATATAACTAG
Found at i:46535581 original size:47 final size:47
Alignment explanation
Indices: 46535512--46535608 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
46535502 GTGACCAGCA
46535512 CTTAGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAAC
1 CTTAGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAAC
46535559 CTTAGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAAC
1 CTTAGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAAC
46535606 CTT
1 CTT
46535609 GCACACATCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (47 bp):
CTTAGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAAC
Found at i:46536367 original size:31 final size:31
Alignment explanation
Indices: 46536326--46536389 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46536316 CCTTTTCATA
*
46536326 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46536357 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46536388 TT
1 TT
46536390 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46536658 original size:47 final size:48
Alignment explanation
Indices: 46536581--46536746 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
46536571 TGCTTTATCA
* *
46536581 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
46536630 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAG-CCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
46536676 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
46536723 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
46536747 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
46 25 0.23
47 62 0.58
48 7 0.07
49 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:46536661 original size:23 final size:23
Alignment explanation
Indices: 46536603--46536745 Score: 214
Period size: 23 Copynumber: 6.1 Consensus size: 23
46536593 CCTAGCCTCT
*
46536603 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
46536626 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
46536650 TTTAATAACTGGGGCGTAAGCCT
1 TTTAATAACTGGGGCATAAGCCC
*
46536673 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
46536696 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
46536720 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
46536743 TTT
1 TTT
46536746 TTCACTTCCT
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
23 65 0.60
24 44 0.40
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:46536697 original size:70 final size:71
Alignment explanation
Indices: 46536582--46536746 Score: 253
Period size: 70 Copynumber: 2.3 Consensus size: 71
46536572 GCTTTATCAT
* *
46536582 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
46536646 GCCCTTTA
64 GCCCTTTA
* * *
46536654 ATAACTGGGGCGTAAG-CCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
46536718 CCTTTA
66 CCTTTA
46536724 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46536747 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 65 0.76
71 11 0.13
72 10 0.12
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:46536824 original size:20 final size:20
Alignment explanation
Indices: 46536801--46536843 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
46536791 GAACATCTCG
46536801 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46536821 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
46536841 TGT
1 TGT
46536844 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:46536908 original size:25 final size:25
Alignment explanation
Indices: 46536880--46536927 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46536870 ATATATAAAC
* * *
46536880 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46536905 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46536928 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46538186 original size:27 final size:27
Alignment explanation
Indices: 46538165--46538524 Score: 366
Period size: 27 Copynumber: 13.3 Consensus size: 27
46538155 AAGGGTATTT
*
46538165 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
46538192 CAGTAATTTTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
46538219 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
46538246 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
46538273 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
46538300 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
** * * *
46538327 CGGTAATTATGTAAATTGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
46538354 -CGATAATTCTATAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
46538381 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
46538408 CGGTAATTCTGTAAATCGACGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
46538435 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
46538462 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
46538489 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
46538516 CAATAATTC
1 TAGTAATTC
46538525 CGTATTACTT
Statistics
Matches: 294, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 288 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:46538524 original size:54 final size:54
Alignment explanation
Indices: 46538166--46538516 Score: 452
Period size: 54 Copynumber: 6.5 Consensus size: 54
46538156 AGGGTATTTT
* * * *
46538166 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * * *
46538220 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * * * *
46538274 GGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * * * * *
46538328 GGTAATTATGTAAATTGGGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* *
46538382 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * **
46538436 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
*
46538490 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
46538517 AATAATTCCG
Statistics
Matches: 254, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
54 253 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:46541379 original size:40 final size:39
Alignment explanation
Indices: 46541214--46541397 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46541204 AAATTGAATG
* * *
46541214 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
46541254 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46541294 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46541334 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46541373 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46541398 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46541422 original size:80 final size:81
Alignment explanation
Indices: 46541254--46541442 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
46541244 GCTGGAAATT
* * * *
46541254 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
46541319 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
46541335 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
46541398 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
46541414 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
46541443 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:46542970 original size:28 final size:28
Alignment explanation
Indices: 46542891--46542959 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
46542881 TTTAAAACCC
*
46542891 TAGGGGT-ATATCGGTAATTATGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
*
46542918 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
46542946 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
46542960 TGATCTATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTATGCTCTT
Done.