Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 155 of 171
Found at i:46425667 original size:2 final size:2
Alignment explanation
Indices: 46425662--46425692 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46425652 TATATATATA
46425662 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
46425693 ATACAGACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:46427109 original size:15 final size:17
Alignment explanation
Indices: 46427091--46427122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46427081 TATATTTTTA
46427091 TAAAAT-AT-AAATTAT
1 TAAAATAATAAAATTAT
46427106 TAAAATAATAAAATTAT
1 TAAAATAATAAAATTAT
46427123 ATAGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATAATAAAATTAT
Found at i:46428893 original size:56 final size:57
Alignment explanation
Indices: 46428753--46428896 Score: 164
Period size: 57 Copynumber: 2.5 Consensus size: 57
46428743 TTGAATCTTA
* * * * ** *
46428753 AAAAAAATTTAGGTATTAAATTAAGAAAAATGTCAAGCTTAAATATTAAATTGGGTT
1 AAAAAAATTTAGATATCAAATTAAAAAAAATATCAAGCTTAAATATTAAATTAAGTC
* * *
46428810 AAAAAATTTTAAATACCAAATTAAAAAAAATATCAAG-TTACAATATTAAATTAAGTC
1 AAAAAAATTTAGATATCAAATTAAAAAAAATATCAAGCTTA-AATATTAAATTAAGTC
* *
46428867 AAAAAAATTTAGTTATCAAATAAAAAAAAA
1 AAAAAAATTTAGATATCAAATTAAAAAAAA
46428897 ACTGTCAAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
56 3 0.04
57 68 0.96
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.30
Consensus pattern (57 bp):
AAAAAAATTTAGATATCAAATTAAAAAAAATATCAAGCTTAAATATTAAATTAAGTC
Found at i:46429235 original size:14 final size:15
Alignment explanation
Indices: 46429213--46429241 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46429203 AATTATTTTT
46429213 TTTAGATTAAATTTG
1 TTTAGATTAAATTTG
46429228 TTTA-ATTAAATTTG
1 TTTAGATTAAATTTG
46429242 GTAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TTTAGATTAAATTTG
Found at i:46430574 original size:109 final size:109
Alignment explanation
Indices: 46430377--46430588 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 109
46430367 ATAAAGAACT
* * *
46430377 TTTATCGATTTAGAATAGGATATTCAATTATTTAGGTTCAAAGAAAAACCACACCCAGCACGTTG
1 TTTATCGATTTAGAATAGGATACTCAATTATTTAGGTTCAAAGAAAAACCACACCCAACACGTTA
* * * *
46430442 GGGCACAATTTTTTGAGTCCCCTAAAATAACAAAACATCGAGCA
66 AGGCACAATTTCTCGAGTCCCCTAAAATAAAAAAACATCGAGCA
* * *
46430486 TTTATTGATTTTA-AATAGGATACTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACGTT
1 TTTATCGA-TTTAGAATAGGATACTCAATTATTTAGGTTCAAAGAAAAACCACACCCAACACGTT
* *
46430550 AAGGCATAGTTTCTCGATGT-CCCTAAAATAAAAAAACAT
65 AAGGCACAATTTCTCGA-GTCCCCTAAAATAAAAAAACAT
46430589 TACCTTGATT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 83 0.93
110 6 0.07
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (109 bp):
TTTATCGATTTAGAATAGGATACTCAATTATTTAGGTTCAAAGAAAAACCACACCCAACACGTTA
AGGCACAATTTCTCGAGTCCCCTAAAATAAAAAAACATCGAGCA
Found at i:46431316 original size:49 final size:49
Alignment explanation
Indices: 46431254--46431373 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
46431244 ACCATCTTGT
* * *
46431254 TGGGCCGTCTGGGATGGTAGAATATAC-AAATAGT-AGAAGTCATTGATGC
1 TGGGCCATCTGGGATGGTAGAAAAT-CGAAATAGTGAGAA-CCATTGATGC
* *
46431303 TGGGCCATTTGGGATGGTAGAAAATCGAAATAGTGAGAACCATTGTTGC
1 TGGGCCATCTGGGATGGTAGAAAATCGAAATAGTGAGAACCATTGATGC
* * *
46431352 CGGGCCACCTAGGATGGTAGAA
1 TGGGCCATCTGGGATGGTAGAA
46431374 CATTCGAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.02
49 55 0.92
50 4 0.07
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (49 bp):
TGGGCCATCTGGGATGGTAGAAAATCGAAATAGTGAGAACCATTGATGC
Found at i:46434647 original size:20 final size:18
Alignment explanation
Indices: 46434622--46434664 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 18
46434612 ATCTTAAAAG
46434622 ATAAAATAAAATTAATAACT
1 ATAAAATAAAATT-A-AACT
46434642 ATAAAATAAAATTAAACT
1 ATAAAATAAAATTAAACT
46434660 ATAAA
1 ATAAA
46434665 CTTTAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 13 0.57
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAATAAAATTAAACT
Found at i:46435236 original size:101 final size:101
Alignment explanation
Indices: 46435061--46435262 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
46435051 TAAGCTAACT
46435061 GTTGCAATGTAAATCTATAAATACGTATGTAACAGATGAAGAAGTTAGTCAATATTTACAATTCT
1 GTTGCAATGTAAATCTATAAATACGTATGTAACAGATGAAGAAGTTAGTCAATATTTACAATTCT
46435126 AAATCAAAAATTTTCAAAGAAATACATAGTTTTCTC
66 AAATCAAAAATTTTCAAAGAAATACATAGTTTTCTC
46435162 GTTGCAATGTAAATCTATAAATACGTATGTAACAGATGAAGAAGTTAGTCAATATTTACAATTCT
1 GTTGCAATGTAAATCTATAAATACGTATGTAACAGATGAAGAAGTTAGTCAATATTTACAATTCT
46435227 AAATCAAAAATTTTCAAAGAAATACATAGTTTTCTC
66 AAATCAAAAATTTTCAAAGAAATACATAGTTTTCTC
46435263 TTTACATTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (101 bp):
GTTGCAATGTAAATCTATAAATACGTATGTAACAGATGAAGAAGTTAGTCAATATTTACAATTCT
AAATCAAAAATTTTCAAAGAAATACATAGTTTTCTC
Found at i:46454536 original size:22 final size:22
Alignment explanation
Indices: 46454485--46454586 Score: 132
Period size: 22 Copynumber: 4.5 Consensus size: 22
46454475 GCTGGGGAAA
*
46454485 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
46454507 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* *
46454530 CAGTAGGCGCACATAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
* * *
46454552 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
46454575 CAGTAGGCACAC
1 CAGTAGGCACAC
46454587 GAAGTGCGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
22 38 0.52
23 35 0.48
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:46454550 original size:45 final size:45
Alignment explanation
Indices: 46454485--46454586 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
46454475 GCTGGGGAAA
* *
46454485 CAGTAAGCACACACAGTGCAATCCAGTAGGCACACACAGTGC-AAT
1 CAGTAGGCACACACAGTGCAAT-CAGTAGGCACACACAGCGCAAAT
* * * *
46454530 CAGTAGGCGCACATAGTGCAATCAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGCAATCAGTAGGCACACACAGCGCAAAT
46454575 CAGTAGGCACAC
1 CAGTAGGCACAC
46454587 GAAGTGCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 16 0.33
45 33 0.67
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (45 bp):
CAGTAGGCACACACAGTGCAATCAGTAGGCACACACAGCGCAAAT
Found at i:46454601 original size:23 final size:22
Alignment explanation
Indices: 46454482--46454602 Score: 118
Period size: 22 Copynumber: 5.4 Consensus size: 22
46454472 AGTGCTGGGG
*
46454482 AAACAGTAAGCACACACAGTGC
1 AAACAGTAGGCACACACAGTGC
*
46454504 AATCCAGTAGGCACACACAGTGC
1 AA-ACAGTAGGCACACACAGTGC
* * *
46454527 AATCAGTAGGCGCACATAGTGC
1 AAACAGTAGGCACACACAGTGC
* * * *
46454549 AATCAGTAGGCGCACATAGCGC
1 AAACAGTAGGCACACACAGTGC
46454571 AAATCAGTAGGCACACGA-AGTGC
1 AAA-CAGTAGGCACAC-ACAGTGC
46454594 GAAACAGTA
1 -AAACAGTA
46454603 AGTGCGCTAG
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
22 42 0.49
23 40 0.47
24 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (22 bp):
AAACAGTAGGCACACACAGTGC
Found at i:46476697 original size:25 final size:23
Alignment explanation
Indices: 46476544--46476693 Score: 101
Period size: 23 Copynumber: 6.4 Consensus size: 23
46476534 CGAAGTACTT
46476544 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
**
46476570 AACAGTAAGCACACGCAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
46476592 ATCCAGTAGGCACACACAGTGC-A
1 A-ACAGTAAGCACACAAAGTGCGA
* * ** * *
46476615 ATCAATAAGTGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
46476637 AATCAGTAGGCACACAAGGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
46476661 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
46476684 AACAGTAAGC
1 AACAGTAAGC
46476694 GCACTAACGT
Statistics
Matches: 99, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
22 17 0.17
23 60 0.61
24 3 0.03
26 14 0.14
27 5 0.05
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:46482890 original size:23 final size:22
Alignment explanation
Indices: 46482777--46482901 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 22
46482767 AGTGTTGGGG
*
46482777 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACAAAGTGC
* * *
46482799 AATCCAGTAGGCACACACAGTGC
1 AA-ACAGTAAGCACACAAAGTGC
* * ** * *
46482822 AATCAATAAGTGCACATAGCGC
1 AAACAGTAAGCACACAAAGTGC
* *
46482844 AAATCAGTAGGCACACAAGGTGC
1 AAA-CAGTAAGCACACAAAGTGC
46482867 GAAACAGTAAGCACACAAAGTGC
1 -AAACAGTAAGCACACAAAGTGC
46482890 GAAACAGTAAGC
1 -AAACAGTAAGC
46482902 GCGCTAGCAT
Statistics
Matches: 81, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
22 17 0.21
23 61 0.75
24 3 0.04
ACGTcount: A:0.42, C:0.24, G:0.22, T:0.12
Consensus pattern (22 bp):
AAACAGTAAGCACACAAAGTGC
Found at i:46483842 original size:7 final size:7
Alignment explanation
Indices: 46483830--46483855 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46483820 CATAAACACA
46483830 TATAAGC
1 TATAAGC
46483837 TATAAGC
1 TATAAGC
46483844 TATAAGC
1 TATAAGC
46483851 TATAA
1 TATAA
46483856 TTCAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (7 bp):
TATAAGC
Found at i:46491070 original size:20 final size:20
Alignment explanation
Indices: 46491040--46491078 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46491030 TTTTATTATT
46491040 TATTCTTTTAA-TTAAATTC
1 TATTCTTTTAATTTAAATTC
46491059 TATTCTTTTTAATTTAAATT
1 TATTC-TTTTAATTTAAATT
46491079 TATAGCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTCTTTTAATTTAAATTC
Found at i:46491087 original size:21 final size:21
Alignment explanation
Indices: 46491045--46491114 Score: 54
Period size: 27 Copynumber: 3.1 Consensus size: 21
46491035 TTATTTATTC
*
46491045 TTTTAA-TTAAATTCTAT-TCT
1 TTTTAATTTAAATT-TATAGCT
46491065 TTTTAATTTAAATTTATAGCTTT
1 TTTTAATTTAAATTTATAGC--T
46491088 AAATTGTTAATTTAAATTTATAGCT
1 ---TT-TTAATTTAAATTTATAGCT
46491113 TT
1 TT
46491115 AAATTGTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
20 9 0.22
21 8 0.20
22 2 0.05
23 1 0.02
25 1 0.02
26 2 0.05
27 18 0.44
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTAATTTAAATTTATAGCT
Found at i:46491090 original size:14 final size:14
Alignment explanation
Indices: 46491071--46491119 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
46491061 TTCTTTTTAA
46491071 TTTAAATTTATAGC
1 TTTAAATTTATAGC
*
46491085 TTTAAATTGT-TA-A
1 TTTAAATT-TATAGC
46491098 TTTAAATTTATAGC
1 TTTAAATTTATAGC
46491112 TTTAAATT
1 TTTAAATT
46491120 GTTTTATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 10 0.33
14 18 0.60
15 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTAAATTTATAGC
Found at i:46491098 original size:27 final size:27
Alignment explanation
Indices: 46491067--46491122 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
46491057 TCTATTCTTT
46491067 TTAATTTAAATTTATAGCTTTAAATTG
1 TTAATTTAAATTTATAGCTTTAAATTG
46491094 TTAATTTAAATTTATAGCTTTAAATTG
1 TTAATTTAAATTTATAGCTTTAAATTG
46491121 TT
1 TT
46491123 TTATCCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (27 bp):
TTAATTTAAATTTATAGCTTTAAATTG
Found at i:46491223 original size:75 final size:72
Alignment explanation
Indices: 46491094--46491265 Score: 256
Period size: 75 Copynumber: 2.4 Consensus size: 72
46491084 CTTTAAATTG
*
46491094 TTAATTTAAATTTATAGCTTTAAA-TTGTTTTATCCTTCAAATATTTCTTATTTTAATTAAATTC
1 TTAATTTAAATTTATAGCTTTAAATTTGTTTTATCCTTCAAATATTTATTATTTTAATTAAA-T-
46491158 TCTATTCTTT
64 TCTATTC-TT
* * * * *
46491168 TTAGTTTAAATTTATTGCTTTAAATTTGTTTTATCCTTTAATTATTTATTCTTTTAATTAAATTC
1 TTAATTTAAATTTATAGCTTTAAATTTGTTTTATCCTTCAAATATTTATTATTTTAATTAAATTC
46491233 TATTCTT
66 TATTCTT
46491240 TTAATTTAAATTTATAGCTTTAAATT
1 TTAATTTAAATTTATAGCTTTAAATT
46491266 GTATTCTGGT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 26 0.29
73 7 0.08
74 23 0.26
75 33 0.37
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (72 bp):
TTAATTTAAATTTATAGCTTTAAATTTGTTTTATCCTTCAAATATTTATTATTTTAATTAAATTC
TATTCTT
Found at i:46491238 original size:19 final size:20
Alignment explanation
Indices: 46491214--46491251 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
46491204 TTTAATTATT
46491214 TATTCTTTTAA-TTAAATTC
1 TATTCTTTTAATTTAAATTC
46491233 TATTCTTTTAATTTAAATT
1 TATTCTTTTAATTTAAATT
46491252 TATAGCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTCTTTTAATTTAAATTC
Found at i:46491260 original size:20 final size:20
Alignment explanation
Indices: 46491218--46491265 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
46491208 ATTATTTATT
*
46491218 CTTTTAA-TTAAATTCTATT
1 CTTTTAATTTAAATTCTATG
46491237 CTTTTAATTTAAATT-TATAG
1 CTTTTAATTTAAATTCTAT-G
*
46491257 CTTTAAATT
1 CTTTTAATT
46491266 GTATTCTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (20 bp):
CTTTTAATTTAAATTCTATG
Found at i:46502716 original size:24 final size:24
Alignment explanation
Indices: 46502684--46502732 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
46502674 AATACATATT
*
46502684 TGTGCAAGCTGACGAGTATAAACG
1 TGTGCAAGCTGACGAGCATAAACG
* *
46502708 TGTGCAAGCTGGCGAGCGTAAACG
1 TGTGCAAGCTGACGAGCATAAACG
46502732 T
1 T
46502733 ACAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (24 bp):
TGTGCAAGCTGACGAGCATAAACG
Found at i:46503985 original size:21 final size:22
Alignment explanation
Indices: 46503941--46503985 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
46503931 GTCGGATACA
* * *
46503941 TTTGTCTTTTTGTGTTTGTTTT
1 TTTGTCTTTTTGTCTCTGTGTT
46503963 TTTG-CTTTTTGTCTCTGTGTT
1 TTTGTCTTTTTGTCTCTGTGTT
46503984 TT
1 TT
46503986 GCAGGTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.00, C:0.09, G:0.18, T:0.73
Consensus pattern (22 bp):
TTTGTCTTTTTGTCTCTGTGTT
Found at i:46505174 original size:18 final size:18
Alignment explanation
Indices: 46505140--46505174 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46505130 TTTGCATTTT
**
46505140 TTATTATTTTATCAATAA
1 TTATTATTTTAAAAATAA
46505158 TTATTATTTTAAAAATA
1 TTATTATTTTAAAAATA
46505175 TTGTTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTATTTTAAAAATAA
Found at i:46507882 original size:28 final size:28
Alignment explanation
Indices: 46507849--46507908 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
46507839 GTTAAGGCAA
*
46507849 AATCATTATA-TT-GTTTATATAGTTAAAT
1 AATCATT-TACTTCGTTTA-ATAGTTAAAC
*
46507877 AATCATTTACTTCGTTTACTAGTTAAAC
1 AATCATTTACTTCGTTTAATAGTTAAAC
46507905 AATC
1 AATC
46507909 GGTCCATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 21 0.75
29 5 0.18
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (28 bp):
AATCATTTACTTCGTTTAATAGTTAAAC
Found at i:46509619 original size:25 final size:27
Alignment explanation
Indices: 46509574--46509624 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
46509564 AACTTTCTTT
* *
46509574 ATATATTTTTAAAAA-TTTAAATTTTC
1 ATATATTTTTAAAAAGGTAAAATTTTC
46509600 ATAT-TTTTTAAAAAGGTAAAATTTT
1 ATATATTTTTAAAAAGGTAAAATTTT
46509625 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
ATATATTTTTAAAAAGGTAAAATTTTC
Found at i:46509631 original size:24 final size:24
Alignment explanation
Indices: 46509576--46509636 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
46509566 CTTTCTTTAT
* *
46509576 ATATTTTTAAAAATTTAAATTTTC
1 ATATTTTTAAAAAGTAAAATTTTC
*
46509600 ATATTTTTTAAAAAGGTAAAATTTTG
1 ATA-TTTTTAAAAA-GTAAAATTTTC
46509626 A-A-TTTTAAAAA
1 ATATTTTTAAAAA
46509637 TTATTTTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 9 0.28
24 3 0.09
25 11 0.34
26 9 0.28
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (24 bp):
ATATTTTTAAAAAGTAAAATTTTC
Found at i:46509673 original size:21 final size:22
Alignment explanation
Indices: 46509627--46509673 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
46509617 AAAATTTTGA
46509627 ATTTTAAAAATTATTTTAACTT
1 ATTTTAAAAATTATTTTAACTT
**
46509649 -TTTTAAAAA-TATTTTATTTT
1 ATTTTAAAAATTATTTTAACTT
46509669 ATTTT
1 ATTTT
46509674 TTAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAAAAATTATTTTAACTT
Found at i:46509682 original size:20 final size:22
Alignment explanation
Indices: 46509628--46509683 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
46509618 AAATTTTGAA
*
46509628 TTTTAAAA-ATTATTTTAACTT
1 TTTTAAAATTTTATTTTAACTT
46509649 TTTTAAAAATATTTTATTTT-A-TT
1 TTTT--AAA-ATTTTATTTTAACTT
46509672 TTTTAAAATTTT
1 TTTTAAAATTTT
46509684 TGTTGAGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
23 9 0.30
24 2 0.07
25 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAAATTTTATTTTAACTT
Found at i:46512825 original size:22 final size:22
Alignment explanation
Indices: 46512800--46512842 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46512790 TACCAAAAAA
46512800 ATTAAAAAAAT-TGATAAAAATC
1 ATTAAAAAAATCT-ATAAAAATC
*
46512822 ATTAAAAATATCTATAAAAAT
1 ATTAAAAAAATCTATAAAAAT
46512843 TGTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
ATTAAAAAAATCTATAAAAATC
Found at i:46512902 original size:10 final size:9
Alignment explanation
Indices: 46512794--46512902 Score: 53
Period size: 10 Copynumber: 11.3 Consensus size: 9
46512784 ACCACATACC
46512794 AAAAAAATT
1 AAAAAAATT
46512803 AAAAAAATT
1 AAAAAAATT
46512812 GATAAAAATCATT
1 -A-AAAAA--ATT
*
46512825 AAAAATATCT
1 AAAAAAAT-T
*
46512835 ATAAAAATT
1 AAAAAAATT
*
46512844 GTAAAAAA-T
1 -AAAAAAATT
**
46512853 ACTTAAAATT
1 A-AAAAAATT
46512863 ATAAAAAATT
1 A-AAAAAATT
*
46512873 --AAATATCT
1 AAAAAAAT-T
46512881 AAAAAAATT
1 AAAAAAATT
46512890 AAAAAAATGT
1 AAAAAAAT-T
46512900 AAA
1 AAA
46512903 CATATATTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
9 26 0.35
10 30 0.40
11 9 0.12
12 1 0.01
13 3 0.04
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAAAATT
Found at i:46512925 original size:9 final size:9
Alignment explanation
Indices: 46512796--46512925 Score: 59
Period size: 9 Copynumber: 13.6 Consensus size: 9
46512786 CACATACCAA
*
46512796 AAAAATTAA
1 AAAAATTAT
46512805 AAAAATTGAT
1 AAAAATT-AT
*
46512815 AAAAATCATT
1 AAAAATTA-T
46512825 AAAAATATCTAT
1 -AAAA-AT-TAT
*
46512837 AAAAATTGT
1 AAAAATTAT
*
46512846 AAAAAATACT
1 AAAAATTA-T
*
46512856 TAAAATTAT
1 AAAAATTAT
*
46512865 AAAAAAT-T
1 AAAAATTAT
* *
46512873 AAATATCTAA
1 AAAAAT-TAT
*
46512883 AAAAATTAA
1 AAAAATTAT
46512892 AAAAATGTA-
1 AAAAAT-TAT
46512901 AACATATATT-T
1 AA-A-A-ATTAT
46512912 AAAAATTAT
1 AAAAATTAT
46512921 AAAAA
1 AAAAA
46512926 AAAATCCAAG
Statistics
Matches: 93, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
8 8 0.09
9 41 0.44
10 26 0.28
11 12 0.13
12 5 0.05
13 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46514421 original size:16 final size:18
Alignment explanation
Indices: 46514382--46514424 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
46514372 GTCCGGGCCT
46514382 AAATAAAAACCAAATCCA
1 AAATAAAAACCAAATCCA
* *
46514400 AGATAAAAA-TAAA-CCA
1 AAATAAAAACCAAATCCA
46514416 AAATAAAAA
1 AAATAAAAA
46514425 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.72, C:0.14, G:0.02, T:0.12
Consensus pattern (18 bp):
AAATAAAAACCAAATCCA
Found at i:46519335 original size:98 final size:98
Alignment explanation
Indices: 46519243--46519603 Score: 379
Period size: 98 Copynumber: 3.7 Consensus size: 98
46519233 GTTGTTACAG
* * * * **
46519243 CTTCAATCTTTCCCTTTATATCTCTAAAGTATAAGGTTTGCCGTTACGGCTTCAACCTTTCCCTC
1 CTTCAATCTTTCCCATTATGTCTCTAAGGTACAAGGTTCACCGTTACGGCTTCAACCTTTCCCTC
*
46519308 CATATTTTCATGGTACAGGATTCGTTGTTGCGA
66 CATATTTTCATGGTACAGGATTCGCTGTTGCGA
** * * * ** * * *
46519341 CTTTTATCTTTCCCATCATGTCTCTGAGGTACGAGGTTTGCAGTTGCGGCTTTAACCTTTCCCTC
1 CTTCAATCTTTCCCATTATGTCTCTAAGGTACAAGGTTCACCGTTACGGCTTCAACCTTTCCCTC
* * *
46519406 CATATCTTCATGGTACAGGATTCACTGTTGCGG
66 CATATTTTCATGGTACAGGATTCGCTGTTGCGA
* * * * * **
46519439 CTTCAATCTTTCCCATTACT-TCTCCAAGGTATACGATTCATCGTTGTGGCTTCAACCTTTCCCT
1 CTTCAATCTTTCCCATTA-TGTCTCTAAGGTACAAGGTTCACCGTTACGGCTTCAACCTTTCCCT
* *
46519503 CCATA-TCTCTATGGTACCA-GATTCGCCGTTGCGA
65 CCATATTTTC-ATGGTA-CAGGATTCGCTGTTGCGA
* *
46519537 CTTCAATCTTTCCCATCT-CGTCTCTAAGGTACAAGGTTCATCGTTACGGCTTCAACCTTTCCCT
1 CTTCAATCTTTCCCAT-TATGTCTCTAAGGTACAAGGTTCACCGTTACGGCTTCAACCTTTCCCT
46519601 CCA
65 CCA
46519604 AACCTATAGA
Statistics
Matches: 215, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
97 2 0.01
98 209 0.97
99 4 0.02
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (98 bp):
CTTCAATCTTTCCCATTATGTCTCTAAGGTACAAGGTTCACCGTTACGGCTTCAACCTTTCCCTC
CATATTTTCATGGTACAGGATTCGCTGTTGCGA
Found at i:46519526 original size:49 final size:49
Alignment explanation
Indices: 46519284--46519603 Score: 185
Period size: 49 Copynumber: 6.5 Consensus size: 49
46519274 TAAGGTTTGC
* * * * *
46519284 CGTTACGGCTTCAACCTTTCCCTCCATAT-TTTCATGGTACAGGATTCGT
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCT-AAGGTACACGATTCAT
* * ** * * * * *
46519333 TGTTGCGACTTTTATCTTTCCCAT-CATGTCTCTGAGGTACGAGGTTTGCA-
1 CGTTGCGGCTTCAACCTTTCCC-TCCATATCTCTAAGGTAC-ACGATT-CAT
* * *
46519383 -GTTGCGGCTTTAACCTTTCCCTCCATATCT-TCATGGTACAGGATTCA-
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCT-AAGGTACACGATTCAT
* * * *
46519430 CTGTTGCGGCTTCAATCTTTCCCAT-TACT-TCTCCAAGGTATACGATTCAT
1 C-GTTGCGGCTTCAACCTTTCCC-TCCA-TATCTCTAAGGTACACGATTCAT
* * **
46519480 CGTTGTGGCTTCAACCTTTCCCTCCATATCTCTATGGTAC-CAGATTCGC
1 CGTTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAC-GATTCAT
* * * * *
46519529 CGTTGCGACTTCAATCTTTCCCAT-C-TCGTCTCTAAGGTACAAGGTTCAT
1 CGTTGCGGCTTCAACCTTTCCC-TCCAT-ATCTCTAAGGTACACGATTCAT
*
46519578 CGTTACGGCTTCAACCTTTCCCTCCA
1 CGTTGCGGCTTCAACCTTTCCCTCCA
46519604 AACCTATAGA
Statistics
Matches: 205, Mismatches: 46, Indels: 39
0.71 0.16 0.13
Matches are distributed among these distances:
47 2 0.01
48 12 0.06
49 178 0.87
50 12 0.06
51 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (49 bp):
CGTTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACACGATTCAT
Found at i:46530629 original size:58 final size:57
Alignment explanation
Indices: 46530566--46530852 Score: 189
Period size: 58 Copynumber: 4.9 Consensus size: 57
46530556 AGACTCTTGG
46530566 GGGTAAAATGGTAATTTTTGAAAATTTTAGGGTT-AAAAAT-GACATTTTT-GACATCTGA
1 GGGTAAAATGGTAATTTTTGAAAA--TTAGGGTTCAAAAATAGA-ATTTTTGGACATC-GA
** *
46530624 GGGTAAAACAGTAATTTTTAGAAAATTCGGGTTCAAAAATAGAATTTTTGGACATCGA
1 GGGTAAAATGGTAATTTTT-GAAAATTAGGGTTCAAAAATAGAATTTTTGGACATCGA
* * * * * *
46530682 GGGTAAAATGGTAATTATTGAAAGTTTAGAGG-TCAAAATTAGGATTTTTGGA-AGTTTGG
1 GGGTAAAATGGTAATTTTTGAAA-ATTAG-GGTTCAAAAATAGAATTTTTGGACA--TCGA
* * ** * *
46530741 GGGTAAAATTGTAATTTTGGGAAGTTTCGGAG-TCAAAAATGGAATTTTTGGA-AGTTCGA
1 GGGTAAAATGGTAATTTT-TGAAAATTAGG-GTTCAAAAATAGAATTTTTGGACA--TCGA
* ** *
46530800 GGGTAAAAAT-GAAATTTTTGGAAGTTTCAGGG-TC-AAAATATAATTTTTGGACA
1 GGGT-AAAATGGTAATTTTT-GAAAATT-AGGGTTCAAAAATAGAATTTTTGGACA
46530853 GTTTAGGGAC
Statistics
Matches: 188, Mismatches: 27, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
57 12 0.06
58 84 0.45
59 82 0.44
60 10 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (57 bp):
GGGTAAAATGGTAATTTTTGAAAATTAGGGTTCAAAAATAGAATTTTTGGACATCGA
Found at i:46530697 original size:28 final size:28
Alignment explanation
Indices: 46530535--46530697 Score: 70
Period size: 28 Copynumber: 5.7 Consensus size: 28
46530525 TTTGGATACC
*
46530535 CGAGGGTAAAATGGTAA-TTTTAGAC-T
1 CGAGGGTAAAATGGTAATTTTTGGACAT
* * *
46530561 CTTGGGGGTAAAATGGTAATTTTTGAAAATT
1 C--GAGGGTAAAATGGTAATTTTTGGACA-T
**
46530592 TTAGGGTTAAAAAT-G-ACATTTTT-GACAT
1 CGAGGG-T-AAAATGGTA-ATTTTTGGACAT
** * *
46530620 CTGAGGGTAAAACAGTAATTTTTAGAAAATT
1 C-GAGGGTAAAATGGTAATTTTT-GGACA-T
* *
46530651 CG-GGTTCAAAAATAG-AATTTTTGGACAT
1 CGAGGGT--AAAATGGTAATTTTTGGACAT
46530679 CGAGGGTAAAATGGTAATT
1 CGAGGGTAAAATGGTAATT
46530698 ATTGAAAGTT
Statistics
Matches: 99, Mismatches: 20, Indels: 34
0.65 0.13 0.22
Matches are distributed among these distances:
26 1 0.01
27 10 0.10
28 31 0.31
29 25 0.25
30 18 0.18
31 14 0.14
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (28 bp):
CGAGGGTAAAATGGTAATTTTTGGACAT
Found at i:46530737 original size:30 final size:29
Alignment explanation
Indices: 46530656--46530860 Score: 136
Period size: 29 Copynumber: 7.0 Consensus size: 29
46530646 AAATTCGGGT
* **
46530656 TCAAAAATAGAATTTTTGGACA-TCGAGGG
1 TCAAAATTAGAATTTTTGGA-AGTTTAGGG
* * *
46530685 T-AAAA-TGGTAATTATTGAAAGTTTAGAGG
1 TCAAAATTAG-AATTTTTGGAAGTTTAG-GG
* *
46530714 TCAAAATTAGGATTTTTGGAAGTTTGGGGG
1 TCAAAATTAGAATTTTTGGAAGTTT-AGGG
* *
46530744 T-AAAATT-GTAATTTTGGGAAGTTTCGGAG
1 TCAAAATTAG-AATTTTTGGAAGTTTAGG-G
* * *
46530773 TCAAAAATGGAATTTTTGGAAGTTCGAGGG
1 TCAAAATTAGAATTTTTGGAAGTT-TAGGG
* *
46530803 TAAAAATGA-AATTTTTGGAAGTTTCAGGG
1 TCAAAATTAGAATTTTTGGAAGTTT-AGGG
*
46530832 TCAAAA-TATAATTTTTGGACAGTTTAGGG
1 TCAAAATTAGAATTTTTGGA-AGTTTAGGG
46530861 ACCTCCAGGG
Statistics
Matches: 138, Mismatches: 24, Indels: 28
0.73 0.13 0.15
Matches are distributed among these distances:
27 3 0.02
28 19 0.14
29 62 0.45
30 48 0.35
31 6 0.04
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
TCAAAATTAGAATTTTTGGAAGTTTAGGG
Found at i:46530756 original size:59 final size:57
Alignment explanation
Indices: 46530680--46530860 Score: 181
Period size: 59 Copynumber: 3.1 Consensus size: 57
46530670 TTTGGACATC
* *
46530680 GAGGGTAAAATGGTAATTATTGAAAGTTTAGAGGTCAAAATTAGGATTTTTGGAAGTTT
1 GAGGGTAAAATTGTAATT-TTGGAAGTTTAG-GGTCAAAATTAGGATTTTTGGAAGTTT
* * * *
46530739 GGGGGTAAAATTGTAATTTTGGGAAGTTTCGGAGTCAAAAAT-GGAATTTTTGGAAGTTC
1 GAGGGTAAAATTGTAATTTT-GGAAGTTTAGG-GTCAAAATTAGG-ATTTTTGGAAGTTT
* *
46530798 GAGGGTAAAAATGAAATTTTTGGAAGTTTCAGGGTCAAAATATA--ATTTTTGGACAGTTT
1 GAGGGTAAAATTGTAA-TTTTGGAAGTTT-AGGGTCAAAAT-TAGGATTTTTGGA-AGTTT
46530857 -AGGG
1 GAGGG
46530861 ACCTCCAGGG
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
58 18 0.18
59 77 0.75
60 7 0.07
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (57 bp):
GAGGGTAAAATTGTAATTTTGGAAGTTTAGGGTCAAAATTAGGATTTTTGGAAGTTT
Found at i:46532830 original size:11 final size:11
Alignment explanation
Indices: 46532816--46532874 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
46532806 TGGACTTTTT
*
46532816 AATTAATTTTA
1 AATTAAATTTA
*
46532827 AATTTAAATTCA
1 AA-TTAAATTTA
46532839 AATTAAATTTA
1 AATTAAATTTA
46532850 AACTT-AATTTA
1 AA-TTAAATTTA
*
46532861 AATTTAAACTTA
1 AA-TTAAATTTA
46532873 AA
1 AA
46532875 AGAAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 22 0.55
12 18 0.45
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTAAATTTA
Found at i:46532836 original size:17 final size:17
Alignment explanation
Indices: 46532818--46532873 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
46532808 GACTTTTTAA
46532818 TTAATTTTAAATTTAAA-
1 TTAA-TTTAAATTTAAAC
*
46532835 TTCAAATTAAATTTAAAC
1 TT-AATTTAAATTTAAAC
46532853 TTAATTTAAATTTAAAC
1 TTAATTTAAATTTAAAC
46532870 TTAA
1 TTAA
46532874 AAGAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATTTAAATTTAAAC
Found at i:46532867 original size:23 final size:23
Alignment explanation
Indices: 46532816--46532874 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
46532806 TGGACTTTTT
* *
46532816 AATTAATTTTAAATTTAAATTCA
1 AATTAAATTTAAACTTAAATTCA
*
46532839 AATTAAATTTAAACTT-AATTTA
1 AATTAAATTTAAACTTAAATTCA
*
46532861 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
46532875 AGAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTAAATTTAAACTTAAATTCA
Found at i:46532873 original size:12 final size:12
Alignment explanation
Indices: 46532818--46532893 Score: 57
Period size: 12 Copynumber: 6.4 Consensus size: 12
46532808 GACTTTTTAA
* *
46532818 TTAATTTTAAAT
1 TTAAATTTAAAC
*
46532830 TTAAATTCAAA-
1 TTAAATTTAAAC
46532841 TTAAATTTAAAC
1 TTAAATTTAAAC
*
46532853 TT-AATTTAAAT
1 TTAAATTTAAAC
* *
46532864 TTAAACTTAAAA
1 TTAAATTTAAAC
**
46532876 GAAAAGTTTAAAC
1 TTAAA-TTTAAAC
46532889 TTAAA
1 TTAAA
46532894 CTAAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
11 20 0.41
12 21 0.43
13 8 0.16
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:46532894 original size:6 final size:6
Alignment explanation
Indices: 46532818--46532874 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
46532808 GACTTTTTAA
* * *
46532818 TTAATT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
46532864 TTAAAC TTAAA
1 TTAAAT TTAAA
46532875 AGAAAAGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:46532935 original size:15 final size:15
Alignment explanation
Indices: 46532915--46532944 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46532905 TTCAATCATG
*
46532915 AATTAAAATTTAAAA
1 AATTAAAAGTTAAAA
46532930 AATTAAAAGTTAAAA
1 AATTAAAAGTTAAAA
46532945 TTGGATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AATTAAAAGTTAAAA
Found at i:46533696 original size:78 final size:78
Alignment explanation
Indices: 46533553--46533875 Score: 380
Period size: 78 Copynumber: 4.1 Consensus size: 78
46533543 CCCGCGATCA
* * ** * ** *
46533553 GGGTAAGAGATTGGTTGATGATGATCTGCTCCAAGCTCGAAGTAAAAGGTCGGATGG-TTATAAT
1 GGGTAAGAGATTGATTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTT-CAAT
46533617 CTG-CCCTAGGCTCG
65 CTGCCCCT-GGCTCG
* * * * *
46533631 GGGTAAGAGATTGGTTGACGACGATCTGCCCCAGGCTCGGGGTAAAAGATCAAATGGCTGCAATC
1 GGGTAAGAGATTGATTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
* *
46533696 TACCCCTGGCTCA
66 TGCCCCTGGCTCG
* * * * * *
46533709 AGGTATGAGATTGATTGATAATGATCTACCCTAAGCTCGGGGTAAGAGATCAAATGGCTTCAATC
1 GGGTAAGAGATTGATTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
46533774 TGCCCCTGGCTCG
66 TGCCCCTGGCTCG
* *
46533787 GGGTAAGAGATTGATTGATGATGATCTCCCCCAAGCTCGGGGTAAGAGATCAAATGGCTTCAATC
1 GGGTAAGAGATTGATTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
* *
46533852 TGCCCCTAGCTTG
66 TGCCCCTGGCTCG
*
46533865 GGATAAGAGAT
1 GGGTAAGAGAT
46533876 CAGAATCTTC
Statistics
Matches: 209, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
78 204 0.98
79 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (78 bp):
GGGTAAGAGATTGATTGATGATGATCTGCCCCAAGCTCGGGGTAAAAGATCAAATGGCTTCAATC
TGCCCCTGGCTCG
Found at i:46533707 original size:39 final size:39
Alignment explanation
Indices: 46533654--46533877 Score: 145
Period size: 39 Copynumber: 5.7 Consensus size: 39
46533644 GTTGACGACG
*
46533654 ATCTGCCCC-AGGCTCGGGGTAAAAGATCAAATGGCTGCA
1 ATCTGCCCCTA-GCTCGGGGTAAGAGATCAAATGGCTGCA
* * ** * ** * * *
46533693 ATCTACCCCTGGCTCAAGGTATGAGAT-TGATTGAT-AA
1 ATCTGCCCCTAGCTCGGGGTAAGAGATCAAATGGCTGCA
* *
46533730 TGATCT-ACCCTAAGCTCGGGGTAAGAGATCAAATGGCTTCA
1 --ATCTGCCCCT-AGCTCGGGGTAAGAGATCAAATGGCTGCA
* ** * *
46533771 ATCTGCCCCTGGCTCGGGGTAAGAGAT-TGATTGATG-A
1 ATCTGCCCCTAGCTCGGGGTAAGAGATCAAATGGCTGCA
* * *
46533808 TGATCTCCCCCAAGCTCGGGGTAAGAGATCAAATGGCTTCA
1 --ATCTGCCCCTAGCTCGGGGTAAGAGATCAAATGGCTGCA
* *
46533849 ATCTGCCCCTAGCTTGGGATAAGAGATCA
1 ATCTGCCCCTAGCTCGGGGTAAGAGATCA
46533878 GAATCTTCAT
Statistics
Matches: 134, Mismatches: 40, Indels: 22
0.68 0.20 0.11
Matches are distributed among these distances:
37 2 0.01
38 12 0.09
39 106 0.79
40 12 0.09
41 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCTAGCTCGGGGTAAGAGATCAAATGGCTGCA
Found at i:46534131 original size:40 final size:39
Alignment explanation
Indices: 46534087--46534236 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 39
46534077 CATCTTGCTC
46534087 TTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
* ***
46534127 TTACTACAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCT
1 TTACTACAACTTCAAGA-GATA--AA--GA--CTT---GC-T-ATCCAACT
*
46534178 CCTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 -TTACTACAACTTCA-AGAGATAAAGACTTGCTATCCAACT
*
46534219 TTACTGCAACTTCAAGAG
1 TTACTACAACTTCAAGAG
46534237 GATAGGAATT
Statistics
Matches: 85, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
39 7 0.08
40 30 0.35
41 5 0.06
42 3 0.04
43 2 0.02
44 2 0.02
46 4 0.05
48 2 0.02
49 2 0.02
50 3 0.04
51 5 0.06
52 17 0.20
53 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (39 bp):
TTACTACAACTTCAAGAGATAAAGACTTGCTATCCAACT
Found at i:46534190 original size:52 final size:52
Alignment explanation
Indices: 46534128--46534281 Score: 145
Period size: 52 Copynumber: 3.2 Consensus size: 52
46534118 TATCCAACTT
*
46534128 TACTACAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCC
1 TACTACAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCA
* *** *
46534180 TACTACAACTTC-AGAGAGATA--AA--GA--CTT---GC-T-ATCCAACT-T
1 TACTACAACTTCAAGAG-GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCA
*
46534220 TACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCA
1 TACTACAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCA
46534272 TACTACAACT
1 TACTACAACT
46534282 ACAAAAAGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
40 15 0.20
41 9 0.12
42 3 0.04
43 2 0.03
44 2 0.03
46 4 0.05
48 2 0.03
49 2 0.03
50 3 0.04
51 9 0.12
52 25 0.33
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (52 bp):
TACTACAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCA
Found at i:46534220 original size:92 final size:92
Alignment explanation
Indices: 46533961--46534299 Score: 554
Period size: 92 Copynumber: 3.7 Consensus size: 92
46533951 TATTCATGAA
* ** * *
46533961 GATAGGATTTGATG-TCGAAGCTTCATCTTGCTCTTACTGCAACTTTAGAGAGATAAAGACTTGC
1 GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC
46534025 TATCCAACTTTACTACAACTTCAAGAG
66 TATCCAACTTTACTACAACTTCAAGAG
*
46534052 GATAGGGATTGATGTTTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
1 GATAGGAATTGATG-TTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
46534117 CTATCCAACTTTACTACAACTTCAAGAG
65 CTATCCAACTTTACTACAACTTCAAGAG
*
46534145 GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCCTACTACAACTTCAGAGAGATAAAGACTTGC
1 GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC
*
46534210 TATCCAACTTTACTGCAACTTCAAGAG
66 TATCCAACTTTACTACAACTTCAAGAG
* * * *
46534237 GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCATACTACAACTACAAAAAGATAAAGACTT
1 GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTT
46534300 TTCCCTGTTG
Statistics
Matches: 233, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
91 12 0.05
92 135 0.58
93 86 0.37
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (92 bp):
GATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC
TATCCAACTTTACTACAACTTCAAGAG
Found at i:46534474 original size:101 final size:101
Alignment explanation
Indices: 46534294--46534563 Score: 398
Period size: 101 Copynumber: 2.7 Consensus size: 101
46534284 AAAAAGATAA
* * * *
46534294 AGACTTTTCCCTGTTGTCTTTTTGCGGTACTAGATTCGCCGTTACGGTCTTAGATCTTTCCCGTC
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTAGATCCACCGTTACGGTCTTAGATCTTTCCCGTC
*
46534359 GTGTCTTCTAAGGTACACGGTCCGCCATTGCGACTT
66 GTGTCTTCTAAGGTACACGGTCCACCATTGCGACTT
* *
46534395 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCATCGTTACGGTCTTAGATCTTTCCCGTC
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTAGATCCACCGTTACGGTCTTAGATCTTTCCCGTC
* * *
46534460 GTGTCTTTTGAGGTACACGGTCCACCGTTGCGACTT
66 GTGTCTTCTAAGGTACACGGTCCACCATTGCGACTT
* * * * *
46534496 -GACCTTTCCTTTTTGTCTTTTTGTGGTACTAGATCTACCGTTGCGGTCTTAGATCTTTCTCGTC
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTAGATCCACCGTTACGGTCTTAGATCTTTCCCGTC
46534560 GTGT
66 GTGT
46534564 TTTCGTGGTA
Statistics
Matches: 152, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 61 0.40
101 91 0.60
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (101 bp):
AGACCTTTCCCTTTTGTCTTTTTGCGGTACTAGATCCACCGTTACGGTCTTAGATCTTTCCCGTC
GTGTCTTCTAAGGTACACGGTCCACCATTGCGACTT
Found at i:46534536 original size:49 final size:50
Alignment explanation
Indices: 46534294--46534779 Score: 222
Period size: 50 Copynumber: 9.7 Consensus size: 50
46534284 AAAAAGATAA
* * * * * * *
46534294 AGACTTTTCCCTGTTGTCTTTTTGCGGTACTAGATTCGCCGTTACGGTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGC-GACTT
* ** * * * * *
46534345 AGATCTTTCCCGTCGTGTC-TTCTAAGGTAC-ACGGTCCGCCATTGCGACTT
1 AGACCTTTCCC-TTTTGTCTTTTTGAGGTACTA-GATCCACCGTTGCGACTT
* * * * *
46534395 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCATCGTTACGGTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGC-GACTT
* ** *
46534446 AGATCTTTCCCGTCGTGTC-TTTTGAGGTAC-ACGGTCCACCGTTGCGACTT
1 AGACCTTTCCC-TTTTGTCTTTTTGAGGTACTA-GATCCACCGTTGCGACTT
* * * *
46534496 -GACCTTTCCTTTTTGTCTTTTTGTGGTACTAGATCTACCGTTGCGGTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGC-GACTT
* * * * * * * * * *
46534546 AGATCTTTCTC-GTCGTGTTTTCGTGGTACTGGATCCCCCGTTGCGGTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGC-GACTT
* * * * * * * * *
46534596 ACATCTTTCCC-GTCGTGTTTTCGTGGTACTGGATCCACCGTTGTGACTT
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGCGACTT
* * * * *
46534645 AGATCTTTCCCTTATGTC---TTCACGGTACTAGATTCACCGTTGCGGCTT
1 AGACCTTTCCCTTTTGTCTTTTTGA-GGTACTAGATCCACCGTTGCGACTT
* * * * * *
46534693 AAATCTTTCCCTTCTTGTC-TTCTGAGGTAC-ATGGTCCGCCGTTGCGACTG
1 AGACCTTTCCCTT-TTGTCTTTTTGAGGTACTA-GATCCACCGTTGCGACTT
* * * * *
46534743 AAACCTTTCCCTTTTGTATCTTTGTGGTACTGGATCC
1 AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCC
46534780 GTCAATGCAG
Statistics
Matches: 331, Mismatches: 85, Indels: 39
0.73 0.19 0.09
Matches are distributed among these distances:
47 1 0.00
48 38 0.11
49 57 0.17
50 156 0.47
51 69 0.21
52 10 0.03
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (50 bp):
AGACCTTTCCCTTTTGTCTTTTTGAGGTACTAGATCCACCGTTGCGACTT
Found at i:46534574 original size:150 final size:147
Alignment explanation
Indices: 46534420--46534701 Score: 354
Period size: 150 Copynumber: 1.9 Consensus size: 147
46534410 GTCTTTTTGC
* * *
46534420 GGTACTGGATCCATCGTTACGGTCTTAGATCTTTCCCGTCGTGTCTTTTGAGGTACACGG-TCCA
1 GGTACTGGATCCACCGTTACGGTCTTACATCTTTCCCGTCGTGT-TTTCGAGGTAC-CGGATCCA
* * ***
46534484 CCGTTGCGACTT-GACCTTTCCTTTTTGTCTTTTTGTGGTACTAGA-TCTACCGTTGCGGTCTTA
64 CCGTTGCGACTTAGACCTTTCCCTTATGTC--TTCACGGTACTAGATTC-ACCGTTGCGG-CTTA
*
46534547 GATCTTTCTCGTCGTGTTTTCGT
125 AATCTTTCTCGTCGTGTTTTCGT
* * * *
46534570 GGTACTGGATCCCCCGTTGCGGTCTTACATCTTTCCCGTCGTGTTTTCGTGGTACTGGATCCACC
1 GGTACTGGATCCACCGTTACGGTCTTACATCTTTCCCGTCGTGTTTTCGAGGTACCGGATCCACC
* *
46534635 GTTGTGACTTAGATCTTTCCCTTATGTCTTCACGGTACTAGATTCACCGTTGCGGCTTAAATCTT
66 GTTGCGACTTAGACCTTTCCCTTATGTCTTCACGGTACTAGATTCACCGTTGCGGCTTAAATCTT
46534700 TC
131 TC
46534702 CCTTCTTGTC
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
147 11 0.10
148 23 0.20
149 26 0.23
150 54 0.47
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (147 bp):
GGTACTGGATCCACCGTTACGGTCTTACATCTTTCCCGTCGTGTTTTCGAGGTACCGGATCCACC
GTTGCGACTTAGACCTTTCCCTTATGTCTTCACGGTACTAGATTCACCGTTGCGGCTTAAATCTT
TCTCGTCGTGTTTTCGT
Found at i:46535956 original size:27 final size:26
Alignment explanation
Indices: 46535926--46535979 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
46535916 GACCTCTCCC
46535926 TTTTT-CTATTTTTGT-TTTTCTTCTTA
1 TTTTTCCTATTTTT-TCTTTTCTT-TTA
*
46535952 TTTTTCCTCTTTTTTCTTTTCTTTTA
1 TTTTTCCTATTTTTTCTTTTCTTTTA
46535978 TT
1 TT
46535980 CATTGAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTTCCTATTTTTTCTTTTCTTTTA
Found at i:46540727 original size:59 final size:58
Alignment explanation
Indices: 46540601--46540742 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 58
46540591 GATTATCTCG
** * * * * *
46540601 ATTTGAGGGTAAAATGGTAATTTTTAAAAAGTTTGGGGTTAAAAATGGCATTTTGGAT
1 ATTTGAGGGTAAAATGGTAATTTTTAAAAAAATCGGGATCAAAAATAGAATTTTGGAT
* **
46540659 ATTCGAGGGTAAAACAGTAATTTTTAAAAAAATCGGGATCAAAAATAGAATTTTTGGAT
1 ATTTGAGGGTAAAATGGTAATTTTTAAAAAAATCGGGATCAAAAATAGAA-TTTTGGAT
*
46540718 ATTTAAGGGTAAAATGGTAATTTTT
1 ATTTGAGGGTAAAATGGTAATTTTT
46540743 GAAAGTTTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
58 40 0.58
59 29 0.42
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.36
Consensus pattern (58 bp):
ATTTGAGGGTAAAATGGTAATTTTTAAAAAAATCGGGATCAAAAATAGAATTTTGGAT
Found at i:46540731 original size:29 final size:30
Alignment explanation
Indices: 46540699--46540897 Score: 166
Period size: 29 Copynumber: 6.8 Consensus size: 30
46540689 AATCGGGATC
* *
46540699 AAAAATAGAATTTTTGGATA-TTTAAGGGT
1 AAAAATGGAATTTTTGGAAAGTTTAAGGGT
*
46540728 -AAAATGGTAATTTTT-GAAAGTTT-TGAGGT
1 AAAAATGG-AATTTTTGGAAAGTTTAAG-GGT
* * *
46540757 CAAAATCGAGATTTTTGGAAA-TTTAGGGGT
1 AAAAATGGA-ATTTTTGGAAAGTTTAAGGGT
* * *
46540787 AAAAATGTAA-TTTTGGGAAGTTT-TGGAGCT
1 AAAAATGGAATTTTTGGAAAGTTTAAGG-G-T
46540817 AAAAATGGAATTTTTGG-AAGTTTAAGGGT
1 AAAAATGGAATTTTTGGAAAGTTTAAGGGT
* ** *
46540846 AAAAATGTAA-TTTTCAAAAGTTTGAGGGT
1 AAAAATGGAATTTTTGGAAAGTTTAAGGGT
46540875 AAAAATGGAATTTTTGG-AAGTTT
1 AAAAATGGAATTTTTGGAAAGTTT
46540898 CGAGGTCAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 28
0.74 0.10 0.15
Matches are distributed among these distances:
28 24 0.18
29 55 0.40
30 45 0.33
31 13 0.09
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAAGTTTAAGGGT
Found at i:46540760 original size:59 final size:56
Alignment explanation
Indices: 46540601--46540892 Score: 239
Period size: 59 Copynumber: 5.0 Consensus size: 56
46540591 GATTATCTCG
* * *
46540601 ATTTGAGGGTAAAATGGTAATTTTTAAAAAGTTTGGGGTTAAAAATGGCA-TTTTGGAT
1 ATTTAAGGGTAAAAT-GTAATTTTT-AAAAGTTTGAGG-TAAAAATGGAATTTTTGGAT
** * ** * *
46540659 ATTCGAGGGTAAAACAGTAATTTTTAAAAAAATCG-GGATCAAAAATAGAATTTTTGGAT
1 ATTTAAGGGTAAAA-TGTAATTTTT-AAAAGTTTGAGG-T-AAAAATGGAATTTTTGGAT
* * * *
46540718 ATTTAAGGGTAAAATGGTAATTTTTGAAAGTTTTGAGGTCAAAATCGAGATTTTTGGAA
1 ATTTAAGGGTAAAAT-GTAATTTTTAAAAG-TTTGAGGTAAAAATGGA-ATTTTTGGAT
* *** *
46540777 ATTTAGGGGTAAAAATGTAATTTTGGGAAGTTTTGGAGCTAAAAATGGAATTTTTGGA-
1 ATTTAAGGGT-AAAATGTAATTTTTAAAAG-TTT-GAGGTAAAAATGGAATTTTTGGAT
*
46540835 AGTTTAAGGGTAAAAATGTAATTTTCAAAAGTTTGAGGGTAAAAATGGAATTTTTGGA
1 A-TTTAAGGGT-AAAATGTAATTTTTAAAAGTTTGA-GGTAAAAATGGAATTTTTGGA
46540893 AGTTTCGAGG
Statistics
Matches: 194, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
57 5 0.03
58 71 0.37
59 100 0.52
60 18 0.09
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (56 bp):
ATTTAAGGGTAAAATGTAATTTTTAAAAGTTTGAGGTAAAAATGGAATTTTTGGAT
Found at i:46540908 original size:29 final size:28
Alignment explanation
Indices: 46540699--46540927 Score: 165
Period size: 29 Copynumber: 7.8 Consensus size: 28
46540689 AATCGGGATC
* *
46540699 AAAAATAGAATTTTTGGATA-TTTAAGGGT
1 AAAAATGGAATTTTTGGA-AGTTTGA-GGT
*
46540728 -AAAATGGTAATTTTTGAAAGTTTTGAGGT
1 AAAAATGG-AATTTTTGGAAG-TTTGAGGT
* * * *
46540757 CAAAATCGAGATTTTTGGAAATTTAGGGGT
1 AAAAATGGA-ATTTTTGGAAGTTT-GAGGT
* * *
46540787 AAAAATGTAATTTTGGGAAGTTTTGGAGCT
1 AAAAATGGAATTTTTGGAAG-TTT-GAGGT
*
46540817 AAAAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAAATGGAATTTTTGGAAGTTTGA-GGT
* ***
46540846 AAAAATGTAATTTTCAAAAGTTTGAGGGT
1 AAAAATGGAATTTTTGGAAGTTTGA-GGT
46540875 AAAAATGGAATTTTTGGAAGTTTCGAGGT
1 AAAAATGGAATTTTTGGAAGTTT-GAGGT
* ** *
46540904 CAAAATATAATTTCTGGACAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
46540928 AGGGAGCTCC
Statistics
Matches: 158, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
28 8 0.05
29 90 0.57
30 60 0.38
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAAATGGAATTTTTGGAAGTTTGAGGT
Found at i:46541201 original size:10 final size:10
Alignment explanation
Indices: 46541167--46541195 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46541157 TAAGGGATTA
46541167 AATTGAAAAG
1 AATTGAAAAG
46541177 AATTGAAAAG
1 AATTGAAAAG
46541187 AATTGAAAA
1 AATTGAAAA
46541196 TTATTGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (10 bp):
AATTGAAAAG
Found at i:46542677 original size:11 final size:11
Alignment explanation
Indices: 46542663--46542721 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
46542653 TGGACTTTTT
*
46542663 AATTAATTTTA
1 AATTAAATTTA
*
46542674 AATTTAAATTCA
1 AA-TTAAATTTA
46542686 AATTAAATTTA
1 AATTAAATTTA
46542697 AACTT-AATTTA
1 AA-TTAAATTTA
*
46542708 AATTTAAACTTA
1 AA-TTAAATTTA
46542720 AA
1 AA
46542722 AGAAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 22 0.55
12 18 0.45
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTAAATTTA
Found at i:46542683 original size:17 final size:17
Alignment explanation
Indices: 46542665--46542720 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
46542655 GACTTTTTAA
46542665 TTAATTTTAAATTTAAA-
1 TTAA-TTTAAATTTAAAC
*
46542682 TTCAAATTAAATTTAAAC
1 TT-AATTTAAATTTAAAC
46542700 TTAATTTAAATTTAAAC
1 TTAATTTAAATTTAAAC
46542717 TTAA
1 TTAA
46542721 AAGAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATTTAAATTTAAAC
Found at i:46542714 original size:23 final size:23
Alignment explanation
Indices: 46542663--46542721 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
46542653 TGGACTTTTT
* *
46542663 AATTAATTTTAAATTTAAATTCA
1 AATTAAATTTAAACTTAAATTCA
*
46542686 AATTAAATTTAAACTT-AATTTA
1 AATTAAATTTAAACTTAAATTCA
*
46542708 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
46542722 AGAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTAAATTTAAACTTAAATTCA
Found at i:46542720 original size:12 final size:12
Alignment explanation
Indices: 46542665--46542740 Score: 57
Period size: 12 Copynumber: 6.4 Consensus size: 12
46542655 GACTTTTTAA
* *
46542665 TTAATTTTAAAT
1 TTAAATTTAAAC
*
46542677 TTAAATTCAAA-
1 TTAAATTTAAAC
46542688 TTAAATTTAAAC
1 TTAAATTTAAAC
*
46542700 TT-AATTTAAAT
1 TTAAATTTAAAC
* *
46542711 TTAAACTTAAAA
1 TTAAATTTAAAC
**
46542723 GAAAAGTTTAAAC
1 TTAAA-TTTAAAC
46542736 TTAAA
1 TTAAA
46542741 CTAAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
11 20 0.41
12 21 0.43
13 8 0.16
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:46542741 original size:6 final size:6
Alignment explanation
Indices: 46542665--46542721 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
46542655 GACTTTTTAA
* * *
46542665 TTAATT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
46542711 TTAAAC TTAAA
1 TTAAAT TTAAA
46542722 AGAAAAGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:46544734 original size:17 final size:17
Alignment explanation
Indices: 46544712--46544817 Score: 104
Period size: 17 Copynumber: 6.2 Consensus size: 17
46544702 CCAACTTTTA
*
46544712 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
**
46544729 ATTTTAAATTCGAATTT
1 ATTTTAAATTTAAATTT
*
46544746 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTT
***
46544763 ATTTTGGGTTTAAATTT
1 ATTTTAAATTTAAATTT
* *
46544780 ATTTTGAATTTGAATTT
1 ATTTTAAATTTAAATTT
* * *
46544797 ATTTTGAATTAAAAATT
1 ATTTTAAATTTAAATTT
46544814 ATTT
1 ATTT
46544818 AATATTAAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 74 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:46545528 original size:22 final size:22
Alignment explanation
Indices: 46545506--46545551 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
46545496 AAGTGCATTA
46545506 AATAAA-T-ATTAAGTAATATTT
1 AATAAAGTCATTAA-TAATATTT
46545527 AATAAAGTCATTAATAATA-TT
1 AATAAAGTCATTAATAATATTT
46545548 AATA
1 AATA
46545552 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.52
22 6 0.26
23 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
AATAAAGTCATTAATAATATTT
Found at i:46545953 original size:14 final size:14
Alignment explanation
Indices: 46545934--46545964 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46545924 TTGTTTTTTT
46545934 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
*
46545948 AAAAGAAGAAAAGA
1 AAAAGAAAAAAAGA
46545962 AAA
1 AAA
46545965 GGGTAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:46546795 original size:29 final size:29
Alignment explanation
Indices: 46546763--46546868 Score: 124
Period size: 29 Copynumber: 3.7 Consensus size: 29
46546753 AAAATTTTTG
* *
46546763 AAAATTACA-TTTTGACCTCAAAACTTCCA
1 AAAATTTCATTTTTGACC-CAGAACTTCCA
* *
46546792 AAAATTTCATTTTTGCCCCCGAACTTCCA
1 AAAATTTCATTTTTGACCCAGAACTTCCA
* *
46546821 AAAATTTCATTTTTAACCCTGAACTTCCA
1 AAAATTTCATTTTTGACCCAGAACTTCCA
* *
46546850 AAAATTCCATTTTTAACCC
1 AAAATTTCATTTTTGACCC
46546869 TGAAACTCTC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 61 0.90
30 7 0.10
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTTCATTTTTGACCCAGAACTTCCA
Found at i:46546869 original size:29 final size:29
Alignment explanation
Indices: 46546784--46546872 Score: 142
Period size: 29 Copynumber: 3.1 Consensus size: 29
46546774 TTGACCTCAA
** *
46546784 AACTTCCAAAAATTTCATTTTTGCCCCCG
1 AACTTCCAAAAATTTCATTTTTAACCCTG
46546813 AACTTCCAAAAATTTCATTTTTAACCCTG
1 AACTTCCAAAAATTTCATTTTTAACCCTG
*
46546842 AACTTCCAAAAATTCCATTTTTAACCCTG
1 AACTTCCAAAAATTTCATTTTTAACCCTG
46546871 AA
1 AA
46546873 ACTCTCAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (29 bp):
AACTTCCAAAAATTTCATTTTTAACCCTG
Found at i:46546921 original size:29 final size:29
Alignment explanation
Indices: 46546784--46546921 Score: 131
Period size: 29 Copynumber: 4.8 Consensus size: 29
46546774 TTGACCTCAA
* *
46546784 AACTTCCAAAAATTTCATTTTTGCCCCCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* * *
46546813 AACTTCCAAAAATTTCATTTTTAACCCTG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* *
46546842 AACTTCCAAAAATTCCATTTTTAACCCTG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
46546871 AAAC-TCTC-AAAATTACCA-TTTTACCCCCG
1 -AACTTC-CAAAAATT-CCATTTTTACCCCCG
* *
46546900 GA-TATCCAAAAATCCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
46546922 GATCCCGATT
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.05
29 82 0.87
30 7 0.07
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCCCG
Found at i:46547055 original size:28 final size:28
Alignment explanation
Indices: 46546996--46547055 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
46546986 AAATTTTCCT
* * *
46546996 AAAATTACCATTTTACCCCTGAAAGTCT
1 AAAATTACCATTTTACCCCTCAAAATCC
46547024 AAAATTACCATTTTA-CCCTCAAACATCC
1 AAAATTACCATTTTACCCCTCAAA-ATCC
46547052 AAAA
1 AAAA
46547056 GGTCTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCTCAAAATCC
Found at i:46547116 original size:147 final size:146
Alignment explanation
Indices: 46546821--46547212 Score: 425
Period size: 147 Copynumber: 2.7 Consensus size: 146
46546811 CGAACTTCCA
* * * * * *
46546821 AAAATTTCATTTTTAACCCTGAA-CTTCCAAAAATT-CCATTTTTAACCCTGAAACTCTCAAAAT
1 AAAATTTCATTTCTAACCCTAAATTTTCCTAAAATTACCA-TTTTACCCCTGAAAGTCT-AAAAT
* * * * *
46546884 TACCATTTTACCCCCGGATATCCAAAA-ATCCCATTTTTGATCCCGATTTTGCTAAAAATTTTTG
64 TACCATTTTACCCTCAGATATCCAAAAGGTCCCATTTTTGATCCCGATTTTGCTAAAAATTATCG
***
46546948 TTTTACCCTCAATTGTCT
129 TTTTACCCTCAAACATCT
*
46546966 AAAATTTCATTTCTAACCCCAAATTTTCCTAAAATTACCATTTTACCCCTGAAAGTCTAAAATTA
1 AAAATTTCATTTCTAACCCTAAATTTTCCTAAAATTACCATTTTACCCCTGAAAGTCTAAAATTA
* * ** *
46547031 CCATTTTACCCTCAAACATCCAAAAGGTCTCGTTTTTTTATCCCGATACTTT-C-AAAAATTATC
66 CCATTTTACCCTCAGATATCCAAAAGGTC-CCATTTTTGATCCCGAT--TTTGCTAAAAATTATC
* *
46547094 GTTTTGCCCTCAAACATTT
128 GTTTTACCCTCAAACATCT
* * * * *
46547113 AAAATGTCATTTCTAACCCTAAATTTTCCTAAAATTACCATTTTGCCCCCGAGAGTTTAAAATTA
1 AAAATTTCATTTCTAACCCTAAATTTTCCTAAAATTACCATTTTACCCCTGAAAGTCTAAAATTA
* * * *
46547178 TCATTTTGCCCTCAGGTATCCAAAAGGTCCTATTT
66 CCATTTTACCCTCAGATATCCAAAAGGTCCCATTT
46547213 CCAACCTCGA
Statistics
Matches: 206, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
145 48 0.23
146 32 0.16
147 122 0.59
148 1 0.00
149 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (146 bp):
AAAATTTCATTTCTAACCCTAAATTTTCCTAAAATTACCATTTTACCCCTGAAAGTCTAAAATTA
CCATTTTACCCTCAGATATCCAAAAGGTCCCATTTTTGATCCCGATTTTGCTAAAAATTATCGTT
TTACCCTCAAACATCT
Found at i:46548824 original size:12 final size:12
Alignment explanation
Indices: 46548807--46548831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46548797 AATATGGTCA
46548807 TGTTACCGATAT
1 TGTTACCGATAT
46548819 TGTTACCGATAT
1 TGTTACCGATAT
46548831 T
1 T
46548832 ATTTCAGATA
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGTTACCGATAT
Found at i:46556107 original size:92 final size:92
Alignment explanation
Indices: 46555947--46556496 Score: 911
Period size: 92 Copynumber: 6.0 Consensus size: 92
46555937 AGATCAAAAT
* * * *
46555947 AACATCAATTCCTATTCTCTTGAAGTTGTGGTAAAGTTGGATGGCGAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
46556012 TTGTAGTAAGAGCAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* * *
46556039 AATATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAATTCTTTATCTCTTTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
46556104 TTGTAGTAAGAGCAAGATGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* * *
46556131 AACATCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATCGCAAGTCTTTATCTCTCTAAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
46556196 TTGTAGTAAGAGCAAGGTGAAGCATCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
* *
46556223 AACATCAATTCCTATCCCCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGACG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* * *
46556288 TTGTAGTAAGAGTATGATGAAGCTTCA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
46556315 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
* *
46556380 TTGTAGTAAGAGCAAGATGAAGCTTAA
66 TTGTAGTAAGAGCAAGATGAAGCATCA
*
46556407 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAACTCTTTATCTCTCTCTGA
1 AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTA--TCTCTCTGA
46556472 AGTTGTAGTAAGAGCAAGATGAAGC
64 AGTTGTAGTAAGAGCAAGATGAAGC
46556497 CTCGACATCA
Statistics
Matches: 427, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
92 393 0.92
94 34 0.08
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (92 bp):
AACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
TTGTAGTAAGAGCAAGATGAAGCATCA
Found at i:46556785 original size:17 final size:17
Alignment explanation
Indices: 46556763--46556851 Score: 97
Period size: 17 Copynumber: 5.2 Consensus size: 17
46556753 CCAACTTTTA
**
46556763 ATTTTAAATTCGAATTT
1 ATTTTAAATTTAAATTT
46556780 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
***
46556797 ATTTTGGGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
46556814 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
* * *
46556831 ATTTTGAATTAAAAATT
1 ATTTTAAATTTAAATTT
46556848 ATTT
1 ATTT
46556852 AATATTAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:46557593 original size:10 final size:10
Alignment explanation
Indices: 46557570--46557625 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
46557560 TAATAAAGGC
46557570 ATTAATAA-T
1 ATTAATAATT
*
46557579 ATTAATATTT
1 ATTAATAATT
46557589 ATTAATAATT
1 ATTAATAATT
* *
46557599 AATAATAATA
1 ATTAATAATT
46557609 ATTAAT-ATT
1 ATTAATAATT
46557618 A-TAATAAT
1 ATTAATAAT
46557626 AATAAATAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 4 0.10
9 12 0.31
10 23 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTAATAATT
Found at i:46557624 original size:21 final size:21
Alignment explanation
Indices: 46557591--46557633 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
46557581 TAATATTTAT
46557591 TAATAATTAATAATAATAAT-
1 TAATAATTAATAATAATAATA
46557611 TAAT-ATT-ATAATAATAATA
1 TAATAATTAATAATAATAATA
46557630 -AATA
1 TAATA
46557634 GAAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 14 0.67
19 3 0.14
20 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATAATTAATAATAATAATA
Found at i:46557995 original size:8 final size:9
Alignment explanation
Indices: 46557971--46558005 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
46557961 GTTTTTTTAA
46557971 AAGAAAAAG
1 AAGAAAAAG
46557980 AAGAAAAAG
1 AAGAAAAAG
*
46557989 AAGAAAAGAA
1 AAGAAAA-AG
46557999 AAGAAAA
1 AAGAAAA
46558006 GGGTAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:46558819 original size:30 final size:29
Alignment explanation
Indices: 46558783--46558946 Score: 206
Period size: 29 Copynumber: 5.6 Consensus size: 29
46558773 AAATTTCTCC
*
46558783 AAAATTACATTTTTGACCATAAAACTTTCA
1 AAAATTACATTTTTGACC-TAAAACTTCCA
46558813 AAAATTACA-TTTTGACCCTAAAACTTCCA
1 AAAATTACATTTTTGA-CCTAAAACTTCCA
*
46558842 AAAATTACATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTGA-CCTAAAACTTCCA
***
46558872 AAAATTACATTTTT-ACCCCGAACTTCCA
1 AAAATTACATTTTTGACCTAAAACTTCCA
* * *
46558900 AAAATTCCATTTTTAACCTTAAACTTCCA
1 AAAATTACATTTTTGACCTAAAACTTCCA
*
46558929 AAAATTCCATTTTTGACC
1 AAAATTACATTTTTGACC
46558947 CCGAAACTCT
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
28 24 0.20
29 54 0.44
30 44 0.36
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTTGACCTAAAACTTCCA
Found at i:46558963 original size:58 final size:59
Alignment explanation
Indices: 46558783--46558954 Score: 224
Period size: 59 Copynumber: 2.9 Consensus size: 59
46558773 AAATTTCTCC
* * **
46558783 AAAATTACATTTTTGACCATAAAACTTTCAAAAATTACA-TTTTGACCCTAAAACTTCCA
1 AAAATTACATTTTTAACC-TAAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
* *
46558842 AAAATTACATTTTTGACCCCAAAACTTCCAAAAATTACATTTTT-ACCCCG-AACTTCCA
1 AAAATTACATTTTT-AACCTAAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
* * *
46558900 AAAATTCCATTTTTAACCTTAAACTTCCAAAAATTCCATTTTTGACCCCGAAACT
1 AAAATTACATTTTTAACCTAAAACTTCCAAAAATTACATTTTTGACCCCGAAACT
46558955 CTCGAAATTA
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 25 0.26
58 27 0.28
59 40 0.41
60 6 0.06
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAATTACATTTTTAACCTAAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
Found at i:46558970 original size:87 final size:87
Alignment explanation
Indices: 46558805--46559000 Score: 247
Period size: 87 Copynumber: 2.3 Consensus size: 87
46558795 TTGACCATAA
* * * *
46558805 AACTTTCAAAAATTACATTTTGACCCTAAAACTTCCAAAAATTACATTTTTGACCCCAAAACTTC
1 AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCCAAAAATTACATTTTTGACCCCAAAACTTC
46558870 CAAAAATTACATTTTTACCC-CG
66 CAAAAATTACA-TTTTACCCTCG
* * *
46558892 AACTTCCAAAAATTCCATTTTTAACCTTAAACTTCCAAAAATTCCATTTTTGACCCCGAAAC-TC
1 AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCCAAAAATTACATTTTTGACCCCAAAACTTC
*
46558956 TC-GAAATTATCATTTTACCCTCG
66 -CAAAAATTA-CATTTTACCCTCG
*
46558979 AA-TGTCCAAAAATCCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
46559001 GATCCTAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
86 17 0.18
87 79 0.82
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (87 bp):
AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCCAAAAATTACATTTTTGACCCCAAAACTTC
CAAAAATTACATTTTACCCTCG
Found at i:46559116 original size:28 final size:28
Alignment explanation
Indices: 46559076--46559135 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
46559066 AATTTTTCCT
*
46559076 AAAAATACCATTTTGCCCCAGAA-AGTCC
1 AAAAATACCATTTTACCCCAGAACA-TCC
* *
46559104 AAAATTACCATTTTACCCCCGAACATCC
1 AAAAATACCATTTTACCCCAGAACATCC
46559132 AAAA
1 AAAA
46559136 GGTCTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.22
Consensus pattern (28 bp):
AAAAATACCATTTTACCCCAGAACATCC
Found at i:46559280 original size:28 final size:28
Alignment explanation
Indices: 46559219--46559280 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
46559209 CCAAATTTTC
* *
46559219 CCAAAATTACCATTTTGCCCCCGAGAGT
1 CCAAAATTACCATTTTACCCCCAAGAGT
* *
46559247 CTAAAATTATCATTTTACCCCCAAGTA-T
1 CCAAAATTACCATTTTACCCCCAAG-AGT
46559275 CCAAAA
1 CCAAAA
46559281 GGTCCTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCAAGAGT
Found at i:46560858 original size:31 final size:31
Alignment explanation
Indices: 46560820--46560881 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46560810 TCCTTCAGCT
46560820 GATGGGTCGGGTATCCAAATTCCAATATTAA
1 GATGGGTCGGGTATCCAAATTCCAATATTAA
46560851 GATGGGTCGGGTATCCAAATTCCAATATTAA
1 GATGGGTCGGGTATCCAAATTCCAATATTAA
46560882 AATGATGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (31 bp):
GATGGGTCGGGTATCCAAATTCCAATATTAA
Found at i:46562792 original size:30 final size:30
Alignment explanation
Indices: 46562756--46562852 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
46562746 TTTTAGAGTA
*
46562756 AAATTAATGTATAACTATGATAAGTTAGTT
1 AAATTAATGTATAATTATGATAAGTTAGTT
*
46562786 AAATTAATGTATAATTGTGATAAGTTAGTT
1 AAATTAATGTATAATTATGATAAGTTAGTT
46562816 AAATTAATGTATAATTATGATAAGTTAGTT
1 AAATTAATGTATAATTATGATAAGTTAGTT
46562846 AAATTAA
1 AAATTAA
46562853 AGTAAAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.41
Consensus pattern (30 bp):
AAATTAATGTATAATTATGATAAGTTAGTT
Found at i:46563863 original size:25 final size:25
Alignment explanation
Indices: 46563820--46563974 Score: 110
Period size: 25 Copynumber: 6.2 Consensus size: 25
46563810 AAGAGATAAA
46563820 TAGCAGGCCTT-GAGCCGGTGACTTT
1 TAGCAGG-CTTCGAGCCGGTGACTTT
* * *
46563845 TAACAGGCTTCGAGTCGGTGA-TTAAA
1 TAGCAGGCTTCGAGCCGGTGACTT--T
*
46563871 TAGCAAGCCTT-GAGCCGGTGACTTT
1 TAGC-AGGCTTCGAGCCGGTGACTTT
*
46563896 TAGCAGGCTTCGAGCCGATGA-TTT
1 TAGCAGGCTTCGAGCCGGTGACTTT
* *
46563920 AATAG-A-CCTT-GAGCCGGTGATTTT
1 --TAGCAGGCTTCGAGCCGGTGACTTT
*
46563944 TAGCAGGCTTC-ATGTCGGTGAACTTT
1 TAGCAGGCTTCGA-GCCGGTG-ACTTT
46563970 TAGCA
1 TAGCA
46563975 AGTATTATGT
Statistics
Matches: 102, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
22 3 0.03
23 10 0.10
24 23 0.23
25 35 0.34
26 24 0.24
27 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (25 bp):
TAGCAGGCTTCGAGCCGGTGACTTT
Found at i:46563892 original size:51 final size:51
Alignment explanation
Indices: 46563816--46563964 Score: 207
Period size: 51 Copynumber: 3.0 Consensus size: 51
46563806 AAATAAGAGA
* *
46563816 TAAATAGCAGGCCTTGAGCCGGTGACTTTTAACAGGCTTCGAGTCGGTGAT
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGTCGGTGAT
* *
46563867 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGCCGATGAT
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGTCGGTGAT
* *
46563918 TTAATAG--A-CCTTGAGCCGGTGATTTTTAGCAGGCTTC-ATGTCGGTGA
1 TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGA-GTCGGTGA
46563965 ACTTTTAGCA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
47 1 0.01
48 34 0.38
49 1 0.01
51 53 0.60
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (51 bp):
TAAATAGCAAGCCTTGAGCCGGTGACTTTTAGCAGGCTTCGAGTCGGTGAT
Found at i:46573840 original size:31 final size:32
Alignment explanation
Indices: 46573780--46573879 Score: 102
Period size: 31 Copynumber: 3.2 Consensus size: 32
46573770 GGAATTATCA
* * *
46573780 AAATATT-TATATTAAT-TATTGAATATATTT
1 AAATATTATATATCATTATATTAAATATATTT
*
46573810 AAATTTTATATATCATTATATTAAAT-TATTT
1 AAATATTATATATCATTATATTAAATATATTT
*
46573841 AAATATTATTTATCATTATATTTAAA-AT-TTT
1 AAATATTATATATCATTATA-TTAAATATATTT
46573872 AAAATATT
1 -AAATATT
46573880 TCATGTATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
30 6 0.10
31 33 0.56
32 20 0.34
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (32 bp):
AAATATTATATATCATTATATTAAATATATTT
Found at i:46579654 original size:31 final size:30
Alignment explanation
Indices: 46579560--46579666 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 30
46579550 GCCAAAAAAA
46579560 TTTTACCAACTTTTAAGGTACCCTAAATTTTAT
1 TTTTACCAACTTTTAAGG-A-CCTAAATTTT-T
* * *
46579593 TTTT--TAGCTTTTAAGGGCCTAAA-TTTT
1 TTTTACCAACTTTTAAGGACCTAAATTTTT
*
46579620 TTTTACCAACTTTTAAGAGACGTAAATTTTT
1 TTTTACCAACTTTTAAG-GACCTAAATTTTT
*
46579651 TTTTTCCAACTTTTAA
1 TTTTACCAACTTTTAA
46579667 TAAACTTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
27 5 0.08
28 3 0.05
29 15 0.24
30 6 0.10
31 29 0.47
33 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (30 bp):
TTTTACCAACTTTTAAGGACCTAAATTTTT
Found at i:46587993 original size:30 final size:30
Alignment explanation
Indices: 46587948--46588076 Score: 138
Period size: 30 Copynumber: 4.3 Consensus size: 30
46587938 GGTGAAATGG
* *
46587948 TAATTTTTG-AAAGTTTCGGGGGCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGGCAAAATA
* *
46587977 TAATTTTGGAAAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGGCAAAATA
* * * *
46588007 TAATTTTGGAAAAATTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGGCAAAATA
*
46588037 TAATTTT-TAGAAAGTTTTGGGGG-AAAATA
1 TAATTTTGGA-AAAGTTTTGGGGGCAAAATA
46588066 TAATTTCTGGA
1 TAATTT-TGGA
46588077 CAATTTAGGG
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.24
30 63 0.75
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGGCAAAATA
Found at i:46589917 original size:6 final size:6
Alignment explanation
Indices: 46589908--46590011 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
46589898 TAATATTATT
* *
46589908 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAAATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* * *
46589955 TTTAAA TTTAAGA --TAAA TTTAAA TCTAAA -TAAAA TTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
46590000 TTTAAA CTTAAA
1 TTTAAA TTTAAA
46590012 AATCAAAGTC
Statistics
Matches: 77, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
4 3 0.04
5 18 0.23
6 50 0.65
7 1 0.01
8 5 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:46589942 original size:17 final size:16
Alignment explanation
Indices: 46589908--46589999 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
46589898 TAATATTATT
*
46589908 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
46589924 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
46589941 TTTAAA--TAAATAAA
1 TTTAAATTTAAATAAA
46589955 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
46589972 TTTAAATCTAAATAAAA
1 TTTAAATTTAAAT-AAA
*
46589989 TTTAAAATTAA
1 TTTAAATTTAA
46590000 TTTAAACTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.15
15 4 0.06
16 16 0.24
17 37 0.55
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:46590011 original size:28 final size:28
Alignment explanation
Indices: 46589910--46590005 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 28
46589900 ATATTATTTT
* *
46589910 TAAATTT-AAT-TAAATTTAAATTTAAAG
1 TAAATTTAAATCTAAA-TAAAATTTAAAA
* * *
46589937 TAAATTTAAATAAATAAATTTAAATTTAAGA
1 TAAATTTAAAT--CTAAA-TAAAATTTAAAA
46589968 TAAATTTAAATCTAAATAAAATTTAAAA
1 TAAATTTAAATCTAAATAAAATTTAAAA
*
46589996 TTAATTTAAA
1 TAAATTTAAA
46590006 CTTAAAAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.12
28 22 0.37
29 4 0.07
31 26 0.44
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAATTTAAATCTAAATAAAATTTAAAA
Found at i:46590513 original size:68 final size:68
Alignment explanation
Indices: 46590329--46592747 Score: 3565
Period size: 68 Copynumber: 34.9 Consensus size: 68
46590319 CTTCATCTTA
* * * *
46590329 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTCTATTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACTTGTTATCCA-CTCTACTTCAATTTC-A-A-G---
46590394 GGGAATGATC-TTG
57 GGG-ATGA-CGTTG
* * * * *
46590407 CTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46590472 TTG
66 TTG
* * * *
46590475 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGACGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46590540 TTG
66 TTG
* *
46590543 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
46590608 GTTG
65 GTTG
* *
46590612 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
46590677 GTTG
65 GTTG
* *
46590681 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46590746 TTG
66 TTG
* *
46590749 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTTAAGGGGATAACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46590814 TTG
66 TTG
46590817 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46590882 TTG
66 TTG
*
46590885 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA--GG---GG-
46590950 AATGATC-TTG
60 -ATGA-CGTTG
* * * * *
46590960 CTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591025 TTG
66 TTG
* * * *
46591028 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGACGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591093 TTG
66 TTG
* * *
46591096 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAATTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
46591161 GTTG
65 GTTG
*
46591165 CTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGA
1 CTCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCC-ACTCTACTTCAATTTCAAGGGGATGA
46591229 CGTTG
64 CGTTG
* *
46591234 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591299 TTG
66 TTG
* *
46591302 CTCTTACTTCGATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTTAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591367 TTG
66 TTG
46591370 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591435 TTG
66 TTG
* *
46591438 CTCTTACTTCAATTTCAGAGATAAATACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA--GG---GG-
46591503 AATGATC-TTG
60 -ATGA-CGTTG
* * * ** *
46591513 CTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAATAGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591578 TTG
66 TTG
* * * *
46591581 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGACGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591646 TTG
66 TTG
* *
46591649 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
46591714 GTTG
65 GTTG
* *
46591718 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
*
46591783 ATTG
65 GTTG
*
46591787 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591852 TTG
66 TTG
46591855 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591920 TTG
66 TTG
*
46591923 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46591988 TTG
66 TTG
* * *
46591991 CTCTTACTTCAAATTCAGAGATAAAGACGTGTTAACCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA--GG---GG-
46592056 AATGATC-TTG
60 -ATGA-CGTTG
* * *
46592066 CTCTTACTTCAATTTCAGATATGAAGGCTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592131 TTG
66 TTG
46592134 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592199 TTG
66 TTG
*
46592202 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTTAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592267 TTG
66 TTG
*
46592270 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA--GG---GG-
46592335 AATGATC-TTG
60 -ATGA-CGTTG
* * * * *
46592345 CTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAAGAGGATGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592410 TTG
66 TTG
* * * *
46592413 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGACGACA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592478 TTG
66 TTG
*
46592481 CTCTTACTTCAATTTCAGAGATAAAGA-TATGTTATCCAACTCTACTTCAATTTCAAGCGGATGA
1 CTCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCC-ACTCTACTTCAATTTCAAGGGGATGA
46592545 CGTTG
64 CGTTG
* * *
46592550 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCGAGCGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGGGGATGAC
46592615 GTTG
65 GTTG
* *
46592619 CTCTTACTTCAATTTCTGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
46592684 TTG
66 TTG
* *
46592687 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGAT
46592748 TGGAAATGAT
Statistics
Matches: 2187, Mismatches: 109, Indels: 100
0.91 0.05 0.04
Matches are distributed among these distances:
67 5 0.00
68 1347 0.62
69 518 0.24
70 17 0.01
72 1 0.00
73 13 0.01
74 1 0.00
75 247 0.11
76 20 0.01
78 18 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
TTG
Found at i:46591285 original size:485 final size:478
Alignment explanation
Indices: 46590329--46592747 Score: 3719
Period size: 485 Copynumber: 5.0 Consensus size: 478
46590319 CTTCATCTTA
* * * *
46590329 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTCTATTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACTTGTTATCCA-CTCTACTTCAATTTC-A-A-G---
* *
46590394 GGGAATGATC-TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATT
57 GGG-ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATT
46590458 TCAA-GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTC
120 TCAAGGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTC
*
46590522 AATTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTA
185 AATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTA
* * *
46590587 CTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAAC
249 CTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAAC
*
46590652 TCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATC
314 TCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATC
*
46590717 CATTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTT
379 CACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTT
* *
46590782 ATCCACTCTACTTCAATTTTAAGGGGATAACGTTG
444 ATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
46590817 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
*
46590882 TTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA--GGA--
* * *
46590947 GGAAATGATC-TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATT
127 GG--ATGA-CATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATT
46591011 TCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCA
189 TCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCA
* *
46591076 ATTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAATTCTAC
254 ATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTAC
46591141 TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCAAC
319 TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCC-AC
* *
46591205 TCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATC
382 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATC
*
46591270 CATTCTACTTCAATTTCAAGGGGATGACGTTG
447 CACTCTACTTCAATTTCAAGGGGATGACGTTG
* *
46591302 CTCTTACTTCGATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTTAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
*
46591367 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGG-GGAT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGAGGAT
* *
46591431 GACGTTGCTCTTACTTCAATTTCAGAGATAAATACATGTTATCCACTCTACTTCAATTTCAAGCG
131 GACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAA---
* * *
46591496 GATTGGAAATGATC-TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTC
193 GA--GG--ATGA-CATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTC
*
46591560 AATTTCAATAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTA
253 AATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTA
* * * *
46591624 CTTCAATTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAAC
318 CTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-AC
* *
46591689 TCTACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATC
382 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATC
* *
46591754 CAACTCTACTTCAATTTCAAGCGGATGACATTG
447 C-ACTCTACTTCAATTTCAAGGGGATGACGTTG
*
46591787 CTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
*
46591852 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGG-GGAT
66 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGAGGAT
* * *
46591916 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGG
131 GACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAG
* * *
46591981 GATGACATTGCTCTTACTTCAAATTCAGAGATAAAGACGTGTTAACCACTCTACTTCAATTTCAA
196 GATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAA
* * * *
46592046 GCGGATTGGAAATGATC-TTGCTCTTACTTCAATTTCAGATATGAAGGCTTGTTATCC-ACTCTA
261 ---GA--GG--ATGA-CATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTA
*
46592109 CTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACT
318 CTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACT
46592174 CTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC
383 CTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC
*
46592239 ACTCTACTTTAATTTCAAGGGGATGACGTTG
448 ACTCTACTTCAATTTCAAGGGGATGACGTTG
*
46592270 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA--GG---GG-
* *
46592335 AATGATC-TTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCA
60 -ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCA
46592399 A-GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAAT
123 AGGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAAT
* *
46592463 TTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGATATGTTATCCAACTCTACTT
188 TTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTT
* * *
46592528 CAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCT
252 CAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCT
* * *
46592593 ACTTCAATTTCGAGCGGATGACGTTGCTCTTACTTCAATTTCTGAGATGAAGACTTGTTATCCAC
317 ACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAC
*
46592658 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATC
382 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATC
*
46592723 CACTCTACTTCAATTTCAAGCGGAT
447 CACTCTACTTCAATTTCAAGGGGAT
46592748 TGGAAATGAT
Statistics
Matches: 1796, Mismatches: 92, Indels: 89
0.91 0.05 0.05
Matches are distributed among these distances:
477 3 0.00
478 177 0.10
479 3 0.00
480 4 0.00
481 5 0.00
482 2 0.00
483 92 0.05
484 365 0.20
485 915 0.51
486 21 0.01
488 22 0.01
489 1 0.00
490 167 0.09
491 19 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (478 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGAGGAT
GACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAG
GATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAA
GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCAATT
TCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCA
ATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACT
TCAATTTCAAGGGGATGACGTTG
Found at i:46591422 original size:553 final size:553
Alignment explanation
Indices: 46590329--46592742 Score: 4110
Period size: 553 Copynumber: 4.4 Consensus size: 553
46590319 CTTCATCTTA
* * * * * * *
46590329 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTCTATTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACATGTTATCCA-CTCTACTTCAATTTCAAGCGGATT
*
46590394 GGGAATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTT
63 GGAAATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTT
46590459 CAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAA
128 CAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAA
46590524 TTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACT
193 TTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACT
46590589 TCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
258 TCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
46590654 TACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCA
323 TACTTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCA
*
46590719 TTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
388 CTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
* *
46590784 CCACTCTACTTCAATTTTAAGGGGATAACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGT
453 CCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGT
46590849 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
518 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
46590885 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
46590950 AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
66 AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
46591015 GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
131 GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
*
46591080 CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAATTCTACTTCA
196 CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCA
*
46591145 ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGTGTTATCCAACTCTAC
261 ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTAC
*
46591210 TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCATTC
326 TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591275 TACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCGATTTCAGAGATAAAGACTTGTTATCCA
391 TACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
*
46591340 CTCTACTTCAATTTTAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
456 CTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
46591405 CCACTCTACTTCAATTTCAAGGGGATGACGTTG
521 CCACTCTACTTCAATTTCAAGGGGATGACGTTG
*
46591438 CTCTTACTTCAATTTCAGAGATAAATACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
46591503 AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
66 AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
*
46591568 TAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
131 GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
46591633 CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCA
196 CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCA
46591698 ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTAC
261 ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTAC
*
46591763 TTCAATTTCAAGCGGATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
326 TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
46591828 TACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
391 TACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
46591893 CTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
456 CTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
*
46591958 CCACTCTACTTCAATTTCAAGGGGATGACATTG
521 CCACTCTACTTCAATTTCAAGGGGATGACGTTG
* * *
46591991 CTCTTACTTCAAATTCAGAGATAAAGACGTGTTAACCACTCTACTTCAATTTCAAGCGGATTGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
* * * *
46592056 AATGATCTTGCTCTTACTTCAATTTCAGATATGAAGGCTTGTTATCCACTCTACTTCAATTTCAA
66 AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
* * *
46592121 GGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTT
131 GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
* * * * *
46592186 CAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTTA
196 CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCA
*
46592250 ATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTAC
261 ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTAC
* * * * *
46592314 TTCAATTTCAAGCGGATTGGAAATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTA
326 TTCAATTTCAAGCGGA-T-G--ACG---TTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTA
* * *
46592379 TCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATG
384 TCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTG
* * *
46592444 TTATCCACTCTACTTCAATTTCAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGA-
449 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC
*
46592508 TATGTTATCCAACTCTACTTCAATTTCAAGCGGATGACGTTG
514 T-TGTTATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTG
* *
46592550 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCGAGCGGA-T-G
1 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGCGGATTGG
* * * * * *
46592613 --ACG---TTGCTCTTACTTCAATTTCTGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCA
65 AAATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCA
* * *
46592673 AGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATT
130 AGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATT
46592738 TCAAG
195 TCAAG
46592743 CGGATTGGAA
Statistics
Matches: 1787, Mismatches: 61, Indels: 23
0.96 0.03 0.01
Matches are distributed among these distances:
551 23 0.01
552 67 0.04
553 1407 0.79
554 15 0.01
555 1 0.00
556 21 0.01
557 1 0.00
558 165 0.09
559 65 0.04
560 22 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (553 bp):
CTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGCGGATTGGA
AATGATCTTGCTCTTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAA
GAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTT
CAAGAGGACGACATTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCAACTCTACTTCA
ATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTAC
TTCAATTTCAAGCGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
TACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
CTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
CCACTCTACTTCAATTTCAAGGGGATGACGTTG
Found at i:46592119 original size:37 final size:37
Alignment explanation
Indices: 46590411--46592740 Score: 934
Period size: 37 Copynumber: 67.4 Consensus size: 37
46590401 ATCTTGCTCT
* * * *
46590411 TACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46590448 TACTTCAATTTCA-AGAGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46590479 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46590516 TACTTCAATTTCA-AGAGGACGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46590547 TACTTCAATTTCAGAGATAAAGACATGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * * *
46590585 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46590616 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * * *
46590654 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46590685 TACTTCAATTTCAGAGATGAAGACTTGTTATCCATTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46590722 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46590753 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* ** * *
46590790 TACTTCAATTTTA-AGGGGATA-AC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGA-AGACTTGTTATCCACTC
*
46590821 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46590858 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46590889 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* **
46590926 TACTTCAATTTCAAGCGGATTGGAA-A--TG--ATCTTGCTC
1 TACTTCAATTTC-AG-AGA-T-GAAGACTTGTTATC-CACTC
* * * *
46590963 TTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46591001 TACTTCAATTTCA-AGAGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46591032 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46591069 TACTTCAATTTCA-AGAGGACGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* * *
46591100 TACTTCAATTTCAGAGATAAAGACATGTTATCCAATTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * * *
46591138 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591169 TACTTCAATTTCAGAGATAAAGA-TGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACT-TGTTATCC-ACTC
** * * *
46591207 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591238 TACTTCAATTTCAGAGATGAAGACTTGTTATCCATTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46591275 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46591306 TACTTCGATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* ** * * *
46591343 TACTTCAATTTTA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591374 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46591411 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46591442 TACTTCAATTTCAGAGATAAATACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* **
46591479 TACTTCAATTTCAAGCGGATTGGAA-A--TG--ATCTTGCTC
1 TACTTCAATTTC-AG-AGA-T-GAAGACTTGTTATC-CACTC
* * * *
46591516 TTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * * *
46591554 TACTTCAATTTCA-ATAGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46591585 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46591622 TACTTCAATTTCA-AGAGGACGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46591653 TACTTCAATTTCAGAGATAAAGACATGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * * *
46591691 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46591722 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * *
46591760 TACTTCAATTTCA-AGCGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
46591791 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46591828 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591859 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46591896 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46591927 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * *
46591964 TACTTCAATTTCA-AGGGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* * * *
46591995 TACTTCAAATTCAGAGATAAAGACGTGTTAACCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* **
46592032 TACTTCAATTTCAAGCGGATTGGAA-A--TG--ATCTTGCTC
1 TACTTCAATTTC-AG-AGA-T-GAAGACTTGTTATC-CACTC
* *
46592069 TTACTTCAATTTCAGATATGAAGGCTTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46592107 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46592138 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46592175 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46592206 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* ** * * *
46592243 TACTTTAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46592274 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* **
46592311 TACTTCAATTTCAAGCGGATTGGAA-A--TG--ATCTTGCTC
1 TACTTCAATTTC-AG-AGA-T-GAAGACTTGTTATC-CACTC
* * * *
46592348 TTACTTCAAATTCAGAGATAAAGGCGTGTTATCCACTC
1 -TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46592386 TACTTCAATTTCA-AGAGGATGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
* *
46592417 TACTTCAATTTCAGAGATAAAGACATGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* * *
46592454 TACTTCAATTTCA-AGAGGACGACATTG-----CTCT-
1 TACTTCAATTTCAGAGATGAAGAC-TTGTTATCCACTC
*
46592485 TACTTCAATTTCAGAGATAAAGA-TATGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACT-TGTTATCC-ACTC
** * * *
46592523 TACTTCAATTTCA-AGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46592554 TACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCC-ACTC
** * * *
46592592 TACTTCAATTTC-GAGCGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
*
46592623 TACTTCAATTTCTGAGATGAAGACTTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
** * * *
46592660 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
* *
46592691 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
46592728 TACTTCAATTTCA
1 TACTTCAATTTCA
46592741 AGCGGATTGG
Statistics
Matches: 1653, Mismatches: 388, Indels: 504
0.65 0.15 0.20
Matches are distributed among these distances:
30 1 0.00
31 393 0.24
32 270 0.16
33 27 0.02
34 47 0.03
35 30 0.02
36 237 0.14
37 434 0.26
38 178 0.11
39 20 0.01
40 8 0.00
41 8 0.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATGAAGACTTGTTATCCACTC
Found at i:46592145 original size:31 final size:31
Alignment explanation
Indices: 46592107--46592286 Score: 135
Period size: 31 Copynumber: 5.4 Consensus size: 31
46592097 TTATCCACTC
46592107 TACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TACTTCAATTTCAAGGGGATGACGTTGCTCT
*** * * *
46592138 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACT
1 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT
46592174 CTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
*** * * *
46592206 TACTTCAATTTCAGAGATAAAGACTTGTTATCCACT
1 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT
*
46592242 CTACTTTAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
46592274 TACTTCAATTTCA
1 TACTTCAATTTCA
46592287 GAGATAAAGA
Statistics
Matches: 111, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
31 38 0.34
32 20 0.18
33 2 0.02
34 4 0.04
35 2 0.02
36 20 0.18
37 25 0.23
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGATGACGTTGCTCT
Found at i:46604525 original size:29 final size:29
Alignment explanation
Indices: 46604493--46604650 Score: 121
Period size: 30 Copynumber: 5.4 Consensus size: 29
46604483 GGATTTAGGG
* *
46604493 AAGTTTGAGGGTGAAATGGTAATTTTTG-A
1 AAGTTTGAGGGTAAAAT-GTAATTTTGGAA
* *
46604522 AAGTTTCGAGGGCAAAATATAATTTTGGAA
1 AAGTTT-GAGGGTAAAATGTAATTTTGGAA
46604552 AAGTTTTG-GGGTCAAAATGTAATTTTGGAA
1 AAG-TTTGAGGGT-AAAATGTAATTTTGGAA
* * *
46604582 AAATTTTAGGGTTAAAATGTAATTTT-TAGA
1 AAGTTTGAGGG-TAAAATGTAATTTTGGA-A
* *
46604612 AAGTTTTG-GGGGAAAATATAATTTTTGGAA
1 AAG-TTTGAGGGTAAAATGTAA-TTTTGGAA
46604642 AA-TTT-AGGG
1 AAGTTTGAGGG
46604651 ACTTACAAAG
Statistics
Matches: 104, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
28 6 0.06
29 29 0.28
30 61 0.59
31 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
AAGTTTGAGGGTAAAATGTAATTTTGGAA
Found at i:46604555 original size:30 final size:30
Alignment explanation
Indices: 46604512--46604643 Score: 128
Period size: 30 Copynumber: 4.4 Consensus size: 30
46604502 GGTGAAATGG
* *
46604512 TAATTTTTG-AAAGTTTCGAGGG-CAAAATA
1 TAATTTTGGAAAAGTTTTG-GGGTCAAAATA
*
46604541 TAATTTTGGAAAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * * *
46604571 TAATTTTGGAAAAATTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
46604601 TAATTTT-TAGAAAGTTTTGGGG-GAAAATA
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
46604630 TAATTTTTGGAAAA
1 TAA-TTTTGGAAAA
46604644 TTTAGGGACT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
29 20 0.23
30 65 0.76
31 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:46604605 original size:60 final size:58
Alignment explanation
Indices: 46604535--46604650 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 58
46604525 TTTCGAGGGC
*
46604535 AAAATATAATTTTG-GAAAAGTTTTGGGGTCAAAATGTAA-TTTTGGAAAAATTTTAGGGTT
1 AAAATATAATTTTGAG-AAAGTTTTGGGG-CAAAATATAATTTTTGG-AAAA-TTTAGGGTT
* * *
46604595 AAAATGTAATTTTTAGAAAGTTTTGGGGGAAAATATAATTTTTGGAAAATTTAGGG
1 AAAATATAATTTTGAGAAAGTTTTGGGGCAAAATATAATTTTTGGAAAATTTAGGG
46604651 ACTTACAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 7 0.14
59 12 0.24
60 30 0.60
61 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (58 bp):
AAAATATAATTTTGAGAAAGTTTTGGGGCAAAATATAATTTTTGGAAAATTTAGGGTT
Found at i:46605638 original size:6 final size:6
Alignment explanation
Indices: 46605629--46605732 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
46605619 TAATATTATT
* *
46605629 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAAATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* * *
46605676 TTTAAA TTTAAGA --TAAA TTTAAA TCTAAA -TAAAA TTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
46605721 TTTAAA CTTAAA
1 TTTAAA TTTAAA
46605733 AATCAAAGTC
Statistics
Matches: 77, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
4 3 0.04
5 18 0.23
6 50 0.65
7 1 0.01
8 5 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:46605663 original size:17 final size:16
Alignment explanation
Indices: 46605629--46605720 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
46605619 TAATATTATT
*
46605629 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
46605645 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
46605662 TTTAAA--TAAATAAA
1 TTTAAATTTAAATAAA
46605676 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
46605693 TTTAAATCTAAATAAAA
1 TTTAAATTTAAAT-AAA
*
46605710 TTTAAAATTAA
1 TTTAAATTTAA
46605721 TTTAAACTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.15
15 4 0.06
16 16 0.24
17 37 0.55
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:46605732 original size:28 final size:28
Alignment explanation
Indices: 46605631--46605726 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 28
46605621 ATATTATTTT
* *
46605631 TAAATTT-AAT-TAAATTTAAATTTAAAG
1 TAAATTTAAATCTAAA-TAAAATTTAAAA
* * *
46605658 TAAATTTAAATAAATAAATTTAAATTTAAGA
1 TAAATTTAAAT--CTAAA-TAAAATTTAAAA
46605689 TAAATTTAAATCTAAATAAAATTTAAAA
1 TAAATTTAAATCTAAATAAAATTTAAAA
*
46605717 TTAATTTAAA
1 TAAATTTAAA
46605727 CTTAAAAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.12
28 22 0.37
29 4 0.07
31 26 0.44
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAATTTAAATCTAAATAAAATTTAAAA
Found at i:46606807 original size:22 final size:22
Alignment explanation
Indices: 46606777--46606820 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46606767 TAGCAAAAAT
*
46606777 GAAATGAAACAACTAAACCTAA
1 GAAAAGAAACAACTAAACCTAA
*
46606799 GAAAAGAAATAACTAAACCTAA
1 GAAAAGAAACAACTAAACCTAA
46606821 ATTACAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (22 bp):
GAAAAGAAACAACTAAACCTAA
Found at i:46609349 original size:22 final size:22
Alignment explanation
Indices: 46609324--46609369 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46609314 TATCATTCTA
*
46609324 CATATCAAAGCAT-ATCATAAAT
1 CATAACAAAGC-TCATCATAAAT
*
46609346 CATAACAAAGCTCATCATATAT
1 CATAACAAAGCTCATCATAAAT
46609368 CA
1 CA
46609370 GAACGTGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (22 bp):
CATAACAAAGCTCATCATAAAT
Found at i:46612591 original size:23 final size:23
Alignment explanation
Indices: 46612565--46612846 Score: 345
Period size: 23 Copynumber: 12.3 Consensus size: 23
46612555 TTCACGGTTC
*
46612565 TATTTACA-CATAAATCGCATTAA
1 TATTTA-AGCATAAATCACATTAA
46612588 TATTTAAGCATAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
*
46612611 CATTTAAGCATAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
* * *
46612634 CATTCAAGTATAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
*
46612657 TATTTAAGCATAAATCACTTTAA
1 TATTTAAGCATAAATCACATTAA
* * *
46612680 CATTTAAAGAAGAAATCACATTAA
1 TATTT-AAGCATAAATCACATTAA
*
46612704 TATTTAAGCATAAATCATATTAA
1 TATTTAAGCATAAATCACATTAA
* *
46612727 CATTTAAGCATAAATCAAATTAA
1 TATTTAAGCATAAATCACATTAA
* *
46612750 TATTTAAACACAAAT--CATTAA
1 TATTTAAGCATAAATCACATTAA
* *
46612771 TATTTAAGCACAAATAACATTAA
1 TATTTAAGCATAAATCACATTAA
* *
46612794 CATTTAAACATAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
* *
46612817 TATTTAAACACAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
46612840 TATTTAA
1 TATTTAA
46612847 TTATCTTTCA
Statistics
Matches: 226, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
21 19 0.08
22 1 0.00
23 187 0.83
24 19 0.08
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (23 bp):
TATTTAAGCATAAATCACATTAA
Found at i:46618483 original size:21 final size:20
Alignment explanation
Indices: 46618444--46618490 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
46618434 GAATAAATTA
*
46618444 ATTATTTTTTATGTGTTTTT
1 ATTATTTTTTATGTATTTTT
*
46618464 ATTATTTTTTTTGTCATTTTT
1 ATTATTTTTTATGT-ATTTTT
*
46618485 AGTATT
1 ATTATT
46618491 ATTTGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (20 bp):
ATTATTTTTTATGTATTTTT
Found at i:46619363 original size:23 final size:23
Alignment explanation
Indices: 46619337--46619380 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
46619327 TGTGTTATAC
46619337 GCTT-AAAAGTTAATATGATTTAT
1 GCTTGAAAA-TTAATATGATTTAT
* *
46619360 GCTTGAATATTAATTTGATTT
1 GCTTGAAAATTAATATGATTT
46619381 TATGTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (23 bp):
GCTTGAAAATTAATATGATTTAT
Found at i:46619453 original size:66 final size:66
Alignment explanation
Indices: 46619368--46619499 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 66
46619358 ATGCTTGAAT
* *
46619368 ATTAATTTGATTTTATGTAATGTAATATGTGCTTAAATGAGAATATGATTACTGTG-TCAAATTA
1 ATTAATGTGATTTTATGTAATGTAATACGTGCTTAAATGAGAATATGATTACTGTGCT-AAATTA
46619432 TC
65 TC
* * * *
46619434 ATTAATGTGATTTTGTGTAATGTGATACGTGCTTTAATGAGAATATGATTATTGTGCTAAATTAT
1 ATTAATGTGATTTTATGTAATGTAATACGTGCTTAAATGAGAATATGATTACTGTGCTAAATTAT
46619499 C
66 C
46619500 GTTTAAATGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (66 bp):
ATTAATGTGATTTTATGTAATGTAATACGTGCTTAAATGAGAATATGATTACTGTGCTAAATTAT
C
Found at i:46629272 original size:24 final size:24
Alignment explanation
Indices: 46629245--46629307 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
46629235 AGAAATAATC
* *
46629245 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAGTTA
*
46629269 TTTCAATTAAACTCTGTTTAGTTA
1 TTTCAGTTAAACTCTGTTTAGTTA
* *
46629293 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
46629308 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAGTTA
Found at i:46631249 original size:24 final size:24
Alignment explanation
Indices: 46631221--46631283 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
46631211 AGAAATAATC
* *
46631221 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAGTTG
*
46631245 TTTCAATTAAACTTTGTTTAGTTG
1 TTTCAATTAAACTCTGTTTAGTTG
* *
46631269 TTTGAATCAAACTCT
1 TTTCAATTAAACTCT
46631284 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAGTTG
Found at i:46632658 original size:22 final size:20
Alignment explanation
Indices: 46632633--46632675 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
46632623 TACATTTTAT
46632633 ATTATATTTAAATTTAATTAAA
1 ATTATATTTAAA-TT-ATTAAA
*
46632655 ATTATTTTTAAATTATTAAA
1 ATTATATTTAAATTATTAAA
46632675 A
1 A
46632676 ATTAAAGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATATTTAAATTATTAAA
Found at i:46633413 original size:14 final size:14
Alignment explanation
Indices: 46633384--46633442 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
46633374 AGTTATTTTT
46633384 TTATT-TATTTT-A
1 TTATTATATTTTAA
46633396 -TATTATATTTTAA
1 TTATTATATTTTAA
*
46633409 TTATTTATATTTAAA
1 TTA-TTATATTTTAA
* * *
46633424 ATGTTATGTTTTAA
1 TTATTATATTTTAA
46633438 TTATT
1 TTATT
46633443 TACGTTATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 4 0.11
12 6 0.17
13 1 0.03
14 14 0.39
15 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TTATTATATTTTAA
Found at i:46633418 original size:15 final size:16
Alignment explanation
Indices: 46633393--46633441 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
46633383 TTTATTTATT
46633393 TTATATTATATTTTAA
1 TTATATTATATTTTAA
46633409 TTAT-TTATA-TTTAA
1 TTATATTATATTTTAA
* * *
46633423 -AATGTTATGTTTTAA
1 TTATATTATATTTTAA
46633438 TTAT
1 TTAT
46633442 TTACGTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 10 0.37
16 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATATTATATTTTAA
Found at i:46635058 original size:23 final size:24
Alignment explanation
Indices: 46635008--46635063 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
46634998 AATAATTCCA
46635008 AAAATTTAAAGTAAAAGTTCTTTAT
1 AAAATTTAAAG-AAAAGTTCTTTAT
*
46635033 AAAATTTAAA-ATAAGTT-TTTATT
1 AAAATTTAAAGAAAAGTTCTTTA-T
46635056 AAAATTTA
1 AAAATTTA
46635064 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 15 0.52
25 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (24 bp):
AAAATTTAAAGAAAAGTTCTTTAT
Found at i:46635115 original size:19 final size:18
Alignment explanation
Indices: 46635079--46635118 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
46635069 ATAATGTATT
**
46635079 AATTATATAAAATTTAAA
1 AATTATATAAAAAATAAA
46635097 AATTATATCAAAAAATAAA
1 AATTATAT-AAAAAATAAA
46635116 AAT
1 AAT
46635119 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTATATAAAAAATAAA
Found at i:46638537 original size:29 final size:30
Alignment explanation
Indices: 46638495--46638558 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
46638485 CAACTTAACA
* *
46638495 AACAAATGTCTCTAAAATAGTAA-AAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
46638524 AACAAATGCCTCTAAGATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
46638554 AACAA
1 AACAA
46638559 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:46639268 original size:21 final size:21
Alignment explanation
Indices: 46639244--46639300 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
46639234 AACTTAAAAA
46639244 TCAAAACTCTAAACCCTAAAT
1 TCAAAACTCTAAACCCTAAAT
*
46639265 TC-AAA-TCATTAACCCTAAAT
1 TCAAAACTC-TAAACCCTAAAT
*
46639285 TCATACACT-TAAACCC
1 TCA-AAACTCTAAACCC
46639301 AATTTATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
19 2 0.07
20 16 0.55
21 8 0.28
22 2 0.07
23 1 0.03
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
TCAAAACTCTAAACCCTAAAT
Found at i:46643740 original size:36 final size:36
Alignment explanation
Indices: 46643711--46643822 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
46643701 GTGAAAGCGG
* * *
46643711 ATATGTGAGTATGTTATTAATGTCATGTGACAGTAA
1 ATATGTGGGTATGTTATTAATGCCATGTGACAGTGA
* * * *
46643747 ATATATGGGTATGATATTAATGCCATGAGACTGTGA
1 ATATGTGGGTATGTTATTAATGCCATGTGACAGTGA
*
46643783 ATATGTGGGTATGTTATTCATGCCATGTGACAGTGA
1 ATATGTGGGTATGTTATTAATGCCATGTGACAGTGA
46643819 ATAT
1 ATAT
46643823 ATTGTGCTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (36 bp):
ATATGTGGGTATGTTATTAATGCCATGTGACAGTGA
Done.