Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 208 of 213
Found at i:62231878 original size:18 final size:18
Alignment explanation
Indices: 62231836--62231878 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
62231826 TTGTTGAAAA
62231836 ATATTTATTTTAATGTTT
1 ATATTTATTTTAATGTTT
*
62231854 TTAATTTA-TTTAATGTATT
1 AT-ATTTATTTTAATGT-TT
62231873 ATATTT
1 ATATTT
62231879 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATATTTATTTTAATGTTT
Found at i:62239608 original size:23 final size:23
Alignment explanation
Indices: 62239581--62239679 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
62239571 AGTGTTATTG
62239581 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
62239604 TTCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
62239627 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
62239650 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
62239673 ATCAGTG
1 ATCAGTG
62239680 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:62242953 original size:2 final size:2
Alignment explanation
Indices: 62242946--62242975 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
62242936 TGGATTGATG
*
62242946 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62242976 TAAAATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:62248866 original size:22 final size:23
Alignment explanation
Indices: 62248826--62248868 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
62248816 AAAGGATAAA
**
62248826 TTTTAATTTTTATTTCAAATATT
1 TTTTAATTTTTATACCAAATATT
62248849 TTTTAA-TTTTATACCAAATA
1 TTTTAATTTTTATACCAAATA
62248869 AAATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATTTTTATACCAAATATT
Found at i:62254291 original size:9 final size:9
Alignment explanation
Indices: 62254273--62254321 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
62254263 TTTGGTTAAA
62254273 AATTAACCG
1 AATTAACCG
*
62254282 AATTACCCG
1 AATTAACCG
*
62254291 AATTAACTG
1 AATTAACCG
* *
62254300 GATTACCCG
1 AATTAACCG
*
62254309 AAATAACCG
1 AATTAACCG
62254318 AATT
1 AATT
62254322 GAATCACTAC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:62254296 original size:18 final size:18
Alignment explanation
Indices: 62254273--62254321 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
62254263 TTTGGTTAAA
62254273 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
62254291 AATTAACTGGATTACCCG
1 AATTAACCGAATTACCCG
*
62254309 AAATAACCGAATT
1 AATTAACCGAATT
62254322 GAATCACTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:62257125 original size:30 final size:30
Alignment explanation
Indices: 62257072--62257138 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
62257062 GTTAAGAGTT
*
62257072 TGACTTAAATTTTGAAATCTAAAAA-ATAGAA
1 TGAC-TAAATTTTGAAATATAAAAATATA-AA
62257103 TGACTAAATTTCTGAAA-ATAAAAATATAAA
1 TGACTAAATTT-TGAAATATAAAAATATAAA
62257133 -GACTAA
1 TGACTAA
62257139 TTACTGACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 6 0.18
30 15 0.45
31 12 0.36
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (30 bp):
TGACTAAATTTTGAAATATAAAAATATAAA
Found at i:62259923 original size:12 final size:12
Alignment explanation
Indices: 62259906--62259930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62259896 GGTGTTCATT
62259906 CGGTTAACCGAC
1 CGGTTAACCGAC
62259918 CGGTTAACCGAC
1 CGGTTAACCGAC
62259930 C
1 C
62259931 CGAAATTACT
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:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:62260105 original size:9 final size:9
Alignment explanation
Indices: 62260091--62260133 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
62260081 TTTGGTTAAA
*
62260091 AATTACCCG
1 AATTAACCG
*
62260100 AATTACCCG
1 AATTAACCG
*
62260109 AATTAACCA
1 AATTAACCG
62260118 AATTAACCG
1 AATTAACCG
62260127 AATTAAC
1 AATTAAC
62260134 TGAAAAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:62267589 original size:162 final size:163
Alignment explanation
Indices: 62267309--62267626 Score: 516
Period size: 162 Copynumber: 2.0 Consensus size: 163
62267299 TTCTTCTCTA
*
62267309 TAACCTCTACAACCATCTACACCACTATAGTCCGATGACTCTCTATCCCACAAGAATAAACCGGT
1 TAACCTCTACAACCATCTACACCACTATAGTCCGATCACTCTCTATCCCACAAGAATAAACCGGT
* * * *
62267374 ACCTTTCTTGTCATCTTTCTCCCTTTGTGGGTTCCTACTATCCACATGAAGTAATAGTAGGCTAA
66 ACCTTTCTTGTCATCTTTCTCCCTTTGTGGATTCCTACAATCCACACGAAGTAATAGTAGACTAA
*
62267439 AGGGTT-ACAGATTGAAAATGTTGTTCCTCAAC
131 AGGGTTAAAAGATTGAAAATGTTGTTCCTCAAC
*
62267471 TAACCTCTACAACCATCTACACCATTATAGTCCGATCACTCTCTATCGCC-CAAGAATAAA-CGG
1 TAACCTCTACAACCATCTACACCACTATAGTCCGATCACTCTCTATC-CCACAAGAATAAACCGG
* *
62267534 ATACCTTTCTTGTCATCTTTCTCCCTTTGTTGATTCCTACAATCTACACGAAGTAATAGTAGACT
65 -TACCTTTCTTGTCATCTTTCTCCCTTTGTGGATTCCTACAATCCACACGAAGTAATAGTAGACT
62267599 AAAGGGTTAAAAGATTGAAAATGTTGTT
129 AAAGGGTTAAAAGATTGAAAATGTTGTT
62267627 GAGGAAATTA
Statistics
Matches: 144, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
161 3 0.02
162 121 0.84
163 20 0.14
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (163 bp):
TAACCTCTACAACCATCTACACCACTATAGTCCGATCACTCTCTATCCCACAAGAATAAACCGGT
ACCTTTCTTGTCATCTTTCTCCCTTTGTGGATTCCTACAATCCACACGAAGTAATAGTAGACTAA
AGGGTTAAAAGATTGAAAATGTTGTTCCTCAAC
Found at i:62268536 original size:32 final size:32
Alignment explanation
Indices: 62268490--62268561 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
62268480 CTCCTAATTT
*
62268490 CAGAATTAGTCCCTACAATTTAACCAATCTTG
1 CAGAATTAGGCCCTACAATTTAACCAATCTTG
* * *
62268522 TAGAATTAGGCCCTATAGTTTAACCAATCTTG
1 CAGAATTAGGCCCTACAATTTAACCAATCTTG
62268554 CAGAATTA
1 CAGAATTA
62268562 AGCTAAACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (32 bp):
CAGAATTAGGCCCTACAATTTAACCAATCTTG
Found at i:62269272 original size:21 final size:20
Alignment explanation
Indices: 62269224--62269272 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
62269214 ATTTTTTTGG
*
62269224 TTTTTTAAATATTTATATTTA
1 TTTTTT-AATATTTATAATTA
**
62269245 TAATTTAATATTTAATAATTA
1 TTTTTTAATATTT-ATAATTA
62269266 TTTTTTA
1 TTTTTTA
62269273 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATATTTATAATTA
Found at i:62271608 original size:47 final size:47
Alignment explanation
Indices: 62271521--62271611 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
62271511 TTAGAAAATT
* *
62271521 ATAAAAATTAAATAGAAATTTTAATAATATATAAAATATATAAATAC
1 ATAAAAATTAAATAGAAATTTTAATAAGATAAAAAATATATAAATAC
*
62271568 ATAAAAATTAAAT-GAAAATTTTAA-AAGCTAAAAAATTATATAAA
1 ATAAAAATTAAATAG-AAATTTTAATAAGATAAAAAA-TATATAAA
62271612 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 9 0.23
47 30 0.77
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (47 bp):
ATAAAAATTAAATAGAAATTTTAATAAGATAAAAAATATATAAATAC
Found at i:62277790 original size:17 final size:16
Alignment explanation
Indices: 62277752--62277791 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
62277742 GTTTATATTT
62277752 TTATTATTTAATAATA
1 TTATTATTTAATAATA
*
62277768 TATATTATTTCATAATTA
1 T-TATTATTTAATAA-TA
62277786 TTATTA
1 TTATTA
62277792 AAAATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTATTTAATAATA
Found at i:62278580 original size:20 final size:19
Alignment explanation
Indices: 62278555--62278608 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
62278545 GAACCCAAAA
*
62278555 AGTTTAAAGTTTAAAGTTTG
1 AGTTT-AAGTTTAAAGTTCG
*
62278575 AGTTTAAGATTTAAGGTTCG
1 AGTTTAAG-TTTAAAGTTCG
*
62278595 AGTTCGAAGTTTAA
1 AGTT-TAAGTTTAA
62278609 TATAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 23 0.79
21 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (19 bp):
AGTTTAAGTTTAAAGTTCG
Found at i:62281721 original size:3 final size:3
Alignment explanation
Indices: 62281713--62281776 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
62281703 TAGAAGAGTC
* * *
62281713 TGA TGA TGA AGA TGA TGA TGA TGA TGA TGA TGA TGA -GTC TGA TGG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG-A TGA TGA
62281758 TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA T
62281777 AAAGAAACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.34, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:62286574 original size:5 final size:5
Alignment explanation
Indices: 62286564--62286589 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
62286554 TATTGATGCT
62286564 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
62286590 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:62308087 original size:15 final size:15
Alignment explanation
Indices: 62308067--62308095 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62308057 ATCTCCTGTG
62308067 GTTCAGGATGGGGCA
1 GTTCAGGATGGGGCA
62308082 GTTCAGGATGGGGC
1 GTTCAGGATGGGGC
62308096 CACTTGTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.14, G:0.48, T:0.21
Consensus pattern (15 bp):
GTTCAGGATGGGGCA
Found at i:62310154 original size:28 final size:28
Alignment explanation
Indices: 62310104--62310161 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
62310094 AAATTATTTA
* * *
62310104 AAATTTGTAAAAATAATTTTTATTTTTT
1 AAATTTGTAAAAAAAATTATTATTTGTT
62310132 AAATTT-TAAAAAAAATTAATTATTTGTT
1 AAATTTGTAAAAAAAATT-ATTATTTGTT
62310160 AA
1 AA
62310162 TGTGACATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
AAATTTGTAAAAAAAATTATTATTTGTT
Found at i:62316720 original size:17 final size:16
Alignment explanation
Indices: 62316672--62316753 Score: 71
Period size: 16 Copynumber: 5.1 Consensus size: 16
62316662 AGTTCAGTGG
*
62316672 AAAA-AAAAGAACAAA
1 AAAACAAAAGAAAAAA
* *
62316687 AAAATAAAA-AACCAAA
1 AAAACAAAAGAA-AAAA
62316703 AAAACAAAAGCAAAAAA
1 AAAACAAAAG-AAAAAA
62316720 AAAACAAAA-AAATAAA
1 AAAACAAAAGAAA-AAA
* *
62316736 AAAATAAGAGAAAAAA
1 AAAACAAAAGAAAAAA
62316752 AA
1 AA
62316754 CCTCTACCGG
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.16
16 31 0.54
17 15 0.26
18 2 0.04
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.04
Consensus pattern (16 bp):
AAAACAAAAGAAAAAA
Found at i:62316729 original size:33 final size:31
Alignment explanation
Indices: 62316672--62316753 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 31
62316662 AGTTCAGTGG
* * *
62316672 AAAAAAAAGAACAAAAAAATAAAAAACCAAA
1 AAAAAAAAGAAAAAAAAAACAAAAAAACAAA
*
62316703 AAAACAAAAGCAAAAAAAAAACAAAAAAATAAA
1 AAAA-AAAAG-AAAAAAAAAACAAAAAAACAAA
*
62316736 AAAATAAGAGAAAAAAAA
1 AAAA-AAAAGAAAAAAAA
62316754 CCTCTACCGG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
31 4 0.09
32 13 0.30
33 26 0.60
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.04
Consensus pattern (31 bp):
AAAAAAAAGAAAAAAAAAACAAAAAAACAAA
Found at i:62316742 original size:8 final size:8
Alignment explanation
Indices: 62316675--62316739 Score: 69
Period size: 8 Copynumber: 7.9 Consensus size: 8
62316665 TCAGTGGAAA
62316675 AAAAAGAAC
1 AAAAA-AAC
*
62316684 AAAAAAAT
1 AAAAAAAC
*
62316692 AAAAAACC
1 AAAAAAAC
62316700 AAAAAAAC
1 AAAAAAAC
62316708 AAAAGCAAA-
1 AAAA--AAAC
62316717 AAAAAAAC
1 AAAAAAAC
*
62316725 AAAAAAAT
1 AAAAAAAC
62316733 AAAAAAA
1 AAAAAAA
62316740 TAAGAGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
7 3 0.06
8 33 0.69
9 9 0.19
10 3 0.06
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:62317219 original size:12 final size:12
Alignment explanation
Indices: 62317180--62317228 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
62317170 TACTTCACTC
62317180 AAAAAAAAGAAACG
1 AAAAAAAAG-AA-G
62317194 AAAAAAGAAG-AG
1 AAAAAA-AAGAAG
62317206 AAAAAAAAGAAG
1 AAAAAAAAGAAG
*
62317218 AACAAAAAGAA
1 AAAAAAAAGAA
62317229 AAAGGAGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.09
12 19 0.59
13 1 0.03
14 6 0.19
15 3 0.09
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:62318360 original size:100 final size:100
Alignment explanation
Indices: 62318181--62318766 Score: 661
Period size: 100 Copynumber: 5.9 Consensus size: 100
62318171 GGCGATGCAA
* * * * *
62318181 TGGATCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGAAG
1 TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
* * * *
62318245 TCACAACGGCAAATCTCACTTTTTTGGCAGTACAG
66 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
* * ** * *
62318280 TAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTTTCTAATATTGCAATTAAAAAGATTGAAG
1 TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
* * * *
62318345 CCGCAACGGTGAATCTTACTT-TCCTGGTGATGT--AG
66 CCACAACGGCGAATCTCACTTCT-CTGG-CA-GTACAG
* * * * *
62318380 TGGATCAGATTAAAGCTACAACGGTGAATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGAAG
1 TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
62318444 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
66 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
* * * * *
62318479 TGGAGCAGATTAAAGCTATGACGGCGAATCTTGCTTCCCTAACATTACAATTAAAGAGATTGGAG
1 TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
62318544 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
66 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
* * *
62318579 TGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGACATTGCAATTTAAAATATTGAAG
1 TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
* * * ** *
62318644 CCGCAACGGTGAATCTTACTTC-CTTGGTGGTGCAG
66 CCACAACGGCGAATCTCACTTCTC-TGGCAGTACAG
* * *
62318679 T-GAGACTGATTGAAGCTACAACGGCGAATCTTG-TTCTCC-GACATTGCAATTAAAGAA-ATTG
1 TGGAG-CAGATTAAAGCTACGACGGCGAATCTTGCTTC-CCTGACATTGCAATTAAA-AAGATTG
*
62318740 AAGCCACAACGGTGAATCTCACTTCTC
63 AAGCCACAACGGCGAATCTCACTTCTC
62318767 CCTAAGTAGT
Statistics
Matches: 414, Mismatches: 60, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
97 2 0.00
98 1 0.00
99 155 0.37
100 253 0.61
101 1 0.00
102 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
TGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAG
CCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
Found at i:62318503 original size:50 final size:50
Alignment explanation
Indices: 62318435--62318609 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 50
62318425 GCAATTAAAG
* * *
62318435 AGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGC
* ** * ** * * **
62318485 AGATTAAAGCTATGACGGCGAATCTTGCTTCCCTAACATTACAATTAAAG-
1 AGATTAAAGCTACGACGGCGAATCTCACTTCTCTGGCAGTAC-AGTGGAGC
** * *
62318535 AGATTGGAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGC
*
62318585 AGATTAAAGCTACGACGGCAAATCT
1 AGATTAAAGCTACGACGGCGAATCT
62318610 TGCTTCCCTG
Statistics
Matches: 91, Mismatches: 32, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
49 4 0.04
50 83 0.91
51 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGC
Found at i:62318510 original size:199 final size:197
Alignment explanation
Indices: 62318164--62318763 Score: 726
Period size: 199 Copynumber: 3.0 Consensus size: 197
62318154 ATGAAGTTAC
* * *
62318164 CTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
1 CTTTCCTGG-GATGTAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
* * * *
62318229 ATTAAAGAGATTGAAGTCACAACGGCAAATCTCACTTTTTTGGCAGTACAGTAGAGCAGATTAAA
65 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGT-GAGCAGATTAAA
* * * *
62318294 GCTACGACGGTGAATCTTGCTTTTCTAATATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAAT
129 GCTACGACGGCGAATCTTGCTTCTCTAACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAAT
*
62318359 CTTA
194 CTCA
*
62318363 CTTTCCTGGTGATGTAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCA
1 CTTTCCTGG-GATGTAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCA
62318428 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGCAGATTAAA
65 ATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGT-GAGCAGATTAAA
* * * * * *
62318493 GCTATGACGGCGAATCTTGCTTCCCTAACATTACAATTAAAGAGATTGGAGCCACAACGGCGAAT
129 GCTACGACGGCGAATCTTGCTTCTCTAACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAAT
62318558 CTCA
194 CTCA
* * * * *
62318562 C-TTCTCTGGCA-GTACAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGACATT
1 CTTTC-CTGGGATGT--AGTGGATCAGATTAAAGCTACAACGGCGAATCTTG-TTCCCCGACATT
* * * * ** * *
62318625 GCAATTTAAA-ATATTGAAGCCGCAACGGTGAATCTTACTTC-CTTGGTGGTGCAGTGAGACTGA
62 GCAA-TTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTC-TGGCAGTACAGTGAG-CAGA
* * **
62318688 TTGAAGCTACAACGGCGAATCTTG-TTCTCCGACATTGCAATTAAAGAA-ATTGAAGCCACAACG
124 TTAAAGCTACGACGGCGAATCTTGCTTCTCTAACATTGCAATTAAA-AAGATTGAAGCCACAACG
62318751 GTGAATCTCA
188 GTGAATCTCA
62318761 CTT
1 CTT
62318764 CTCCCTAAGT
Statistics
Matches: 347, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
197 2 0.01
198 4 0.01
199 259 0.75
200 77 0.22
201 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (197 bp):
CTTTCCTGGGATGTAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAA
TTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGAGCAGATTAAAGC
TACGACGGCGAATCTTGCTTCTCTAACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCT
CA
Found at i:62318765 original size:299 final size:298
Alignment explanation
Indices: 62318181--62318766 Score: 870
Period size: 299 Copynumber: 2.0 Consensus size: 298
62318171 GGCGATGCAA
* * * * *
62318181 TGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGT
1 TGGAGCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAACATTACAATTAAAGAGATTGAAGC
* * **
62318246 CACAACGGCAAATCTCACTTTTTTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGTGAATCT
66 CACAACGGCAAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCAAATCT
** *
62318311 TGCTTTTCTAATATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTTCCTGGTGAT
131 TGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTTCCTGGTGAT
* * *
62318376 GTAGTGGATCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTG
196 GCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAAATTG
62318441 AAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
261 AAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
** * *
62318479 TGGAGCAGATTAAAGCTATGACGGCGAATCTTGCTTCCCTAACATTACAATTAAAGAGATTGGAG
1 TGGAGCAGATTAAAGCTACAACGGCGAATCTTG-TTCCCCAACATTACAATTAAAGAGATTGAAG
* *
62318544 CCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCAAATC
65 CCACAACGGCAAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCAAATC
* * *
62318609 TTGCTTCCCTGACATTGCAATTTAAAATATTGAAGCCGCAACGGTGAATCTTAC-TTCCTTGGTG
130 TTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTTCC-TGGTG
* * * *
62318673 GTGCAGTGAGA-CTGATTGAAGCTACAACGGCGAATCTTGTTCTCCGACATTGCAATTAAAGAAA
194 ATGCAGTG-GATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAAA
*
62318737 TTGAAGCCACAACGGTGAATCTCACTTCTC
258 TTGAAGCCACAACGGCGAATCTCACTTCTC
62318767 CCTAAGTAGT
Statistics
Matches: 256, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
298 33 0.13
299 221 0.86
300 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (298 bp):
TGGAGCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCAACATTACAATTAAAGAGATTGAAGC
CACAACGGCAAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCAAATCT
TGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTTCCTGGTGAT
GCAGTGGATCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAAATTG
AAGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAG
Found at i:62318818 original size:40 final size:40
Alignment explanation
Indices: 62318763--62318954 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 40
62318753 GAATCTCACT
* *
62318763 TCTCCCTAAGTAGTAGTGGAGCAGATCACATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCTTA
* * *
62318803 TCTCCCTAAGCAGTAGTGGAGCAGA-CGGAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCCAGTCTTA
* ** * * * *
62318846 TCTCCCTGGAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATC-CAG-TCTTA
* *
62318890 TCTCCCTAAGCAGTGGTGGAGCAGATCACATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCTTA
62318930 TCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGA
62318955 CGAAAGAAAC
Statistics
Matches: 119, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.01
40 53 0.45
41 3 0.03
42 8 0.07
43 30 0.25
44 24 0.20
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAATCCAGTCTTA
Found at i:62318848 original size:43 final size:41
Alignment explanation
Indices: 62318763--62318979 Score: 154
Period size: 40 Copynumber: 5.2 Consensus size: 41
62318753 GAATCTCACT
* * * * *
62318763 TCTCCCTAAGTAGTAGTGGAGCAGATC--ACATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAACCAATCCTA
62318803 TCTCCCTAAGCAGTAGTGGAGCAGACGGAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGAC-GAA-AAACCAATCCTA
* ** * * ** * *
62318846 TCTCCCTGGAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGACGAAAAAC-CA-ATCCTA
* * * * *
62318890 TCTCCCTAAGCAGTGGTGGAGCAGATC--ACATCCAGTCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAACCAATCCTA
62318930 TCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGACG-AA-AAACCAATCCTA
62318973 TCTCCCT
1 TCTCCCT
62318980 GAAGTTGCAG
Statistics
Matches: 136, Mismatches: 29, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
39 2 0.01
40 53 0.39
41 2 0.01
42 8 0.06
43 46 0.34
44 25 0.18
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (41 bp):
TCTCCCTAAGCAGTAGTGGAGCAGACGAAAAACCAATCCTA
Found at i:62318989 original size:127 final size:127
Alignment explanation
Indices: 62318754--62319022 Score: 459
Period size: 127 Copynumber: 2.1 Consensus size: 127
62318744 CACAACGGTG
*
62318754 AATCTCACTTCTCCCTAAGTAGTAGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAG
1 AATCTCA--TCTCCCTAAGCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAG
* *
62318819 TGGAGCAGACGGAAGAAACCAATCCTATCTCCCTGGAGTTGCAGTGGAGCGGATTAAAACCACA
64 TGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
* * *
62318883 GATCTTATCTCCCTAAGCAGTGGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTG
1 AATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTG
62318948 GAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
66 GAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
62319010 AATCTCATC-CCCT
1 AATCTCATCTCCCT
62319023 GAAGGCACAG
Statistics
Matches: 132, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
126 4 0.03
127 123 0.93
129 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (127 bp):
AATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTG
GAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
Found at i:62321090 original size:126 final size:125
Alignment explanation
Indices: 62320823--62321069 Score: 318
Period size: 130 Copynumber: 1.9 Consensus size: 125
62320813 GTCAAAAGGG
* *
62320823 TAAAATTTTAAAAATAAGGCAATATTCTGAATTTAGAAAATTCAAGAAATCGTACCCTAACTTAC
1 TAAAATTTCAAATA-AAGGCAATATTCTGAATTTAGAAAATTCAAGAAATCGTACCCTAACTTAC
* *
62320888 TGGGTCTCGATCTTCTCGTTAAACCTAAATAGCAAAATATCCTTTTAAATTTCCAAAAACA
65 TGGGTCTCGATCTTCTCGTTAAACCTAAATAACAAAATATCCTTTTAAAATTCCAAAAACA
*
62320949 TAAAATTTCCAAAATAAAGGC-ATATTCT-ATATTTAGAAAATTCAAGAAAATCGTGCCCTAACT
1 TAAAATTT-C-AAATAAAGGCAATATTCTGA-ATTTAGAAAATTCAAG-AAATCGTACCCTAACT
* * * **
62321012 TACTGGGTTTCGATTTTTTTCTCGTTAATCCTAAATAACCGAATATCCTTTTAAAATT
62 TACTGGGTCTCGA---TCTTCTCGTTAAACCTAAATAACAAAATATCCTTTTAAAATT
62321070 GAAATAAATG
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
125 1 0.01
126 31 0.30
127 32 0.31
128 4 0.04
130 36 0.35
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (125 bp):
TAAAATTTCAAATAAAGGCAATATTCTGAATTTAGAAAATTCAAGAAATCGTACCCTAACTTACT
GGGTCTCGATCTTCTCGTTAAACCTAAATAACAAAATATCCTTTTAAAATTCCAAAAACA
Found at i:62322883 original size:20 final size:19
Alignment explanation
Indices: 62322827--62322898 Score: 101
Period size: 20 Copynumber: 3.7 Consensus size: 19
62322817 AAAAATATAA
62322827 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
*
62322847 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
62322866 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
62322886 ATTTTGAATTTTT
1 ATTTTGAATTTTT
62322899 TTTGTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.06
19 21 0.44
20 24 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:62326550 original size:31 final size:31
Alignment explanation
Indices: 62326491--62326562 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
62326481 TTTTTTATCT
* * *
62326491 AATTAGATACTTGAACTTGGTTTCTTAGTTCA
1 AATTAG-TACCTGAACGTGGTTTCTTAGTCCA
*
62326523 AATTGGTACCTGAACGTGGCTTT-TTAGTCCA
1 AATTAGTACCTGAACGTGG-TTTCTTAGTCCA
62326554 AATTAGTAC
1 AATTAGTAC
62326563 TTACAGTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (31 bp):
AATTAGTACCTGAACGTGGTTTCTTAGTCCA
Found at i:62330803 original size:111 final size:111
Alignment explanation
Indices: 62330580--62330795 Score: 324
Period size: 111 Copynumber: 1.9 Consensus size: 111
62330570 ATCTAAGATA
* * *
62330580 ACTCAAGACACATCATAACACTATTCTACTTAAGCTTATGACACCAAATCACTTGTCATTTATCT
1 ACTCAAGACACATCATAACACCATTCTACTTAAGCCTATGACACCAAATCACTTGTCATTTATCC
*
62330645 CTAATCTACCAATAGTGAATCAACACGTGACACCTCGAGACGAGAG
66 CTAATCTACCAATAGCGAATCAACACGTGACACCTCGAGACGAGAG
* * * *
62330691 ACTCAAGGCACGTCATAGCACCATTCTACTTAAGCCTATGACACCAGATCACTTGTCATTTATCC
1 ACTCAAGACACATCATAACACCATTCTACTTAAGCCTATGACACCAAATCACTTGTCATTTATCC
* * * *
62330756 CTAGTTTACTAATAGCGAATCGACACGTGACACCTCGAGA
66 CTAATCTACCAATAGCGAATCAACACGTGACACCTCGAGA
62330796 TGGGAGACAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.26
Consensus pattern (111 bp):
ACTCAAGACACATCATAACACCATTCTACTTAAGCCTATGACACCAAATCACTTGTCATTTATCC
CTAATCTACCAATAGCGAATCAACACGTGACACCTCGAGACGAGAG
Found at i:62334107 original size:26 final size:26
Alignment explanation
Indices: 62334039--62334112 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
62334029 TTTCTCACCC
*
62334039 CAATTTTA-CCCCAGTAAAATTTTGA
1 CAATTTTACCCCCAATAAAATTTTGA
** * *
62334064 CAATTTTACCATCGATAAGATTTTGA
1 CAATTTTACCCCCAATAAAATTTTGA
*
62334090 CGATTTTACCCCCAATAAAATTT
1 CAATTTTACCCCCAATAAAATTT
62334113 CGAGAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 8 0.21
26 30 0.79
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.36
Consensus pattern (26 bp):
CAATTTTACCCCCAATAAAATTTTGA
Found at i:62335668 original size:21 final size:21
Alignment explanation
Indices: 62335644--62335687 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
62335634 ACAAATACAT
*
62335644 AATGAACAGATTAAGTGCTAA
1 AATGAACAAATTAAGTGCTAA
62335665 AATGAACAAATTAAGTGCTAA
1 AATGAACAAATTAAGTGCTAA
62335686 AA
1 AA
62335688 CTCTCATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (21 bp):
AATGAACAAATTAAGTGCTAA
Found at i:62343464 original size:19 final size:19
Alignment explanation
Indices: 62343437--62343473 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62343427 TACTATAATT
*
62343437 TATACAAAATAACAAAATA
1 TATACAAAATAAAAAAATA
*
62343456 TATATAAAATAAAAAAAT
1 TATACAAAATAAAAAAAT
62343474 CTAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
TATACAAAATAAAAAAATA
Found at i:62344534 original size:1 final size:1
Alignment explanation
Indices: 62344528--62344584 Score: 114
Period size: 1 Copynumber: 57.0 Consensus size: 1
62344518 AAGAAATAAT
62344528 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62344585 GCATTAACTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62362348 original size:21 final size:20
Alignment explanation
Indices: 62362312--62362353 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
62362302 CTATTCATAT
62362312 ATTATAAAATATTAAA-AAA
1 ATTATAAAATATTAAATAAA
62362331 ATTATAATAATAATTAAATAAA
1 ATTATAA-AAT-ATTAAATAAA
62362353 A
1 A
62362354 ATATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 6 0.30
22 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTATAAAATATTAAATAAA
Found at i:62370642 original size:9 final size:9
Alignment explanation
Indices: 62370630--62370655 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
62370620 TTCTGATATT
62370630 TGAATCGGC
1 TGAATCGGC
62370639 TGAATCGGC
1 TGAATCGGC
62370648 TGAATCGG
1 TGAATCGG
62370656 TTTGACCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (9 bp):
TGAATCGGC
Found at i:62370750 original size:18 final size:18
Alignment explanation
Indices: 62370715--62370748 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
62370705 GTTCAATTAA
62370715 ATAAATTATTAAAAAAAT
1 ATAAATTATTAAAAAAAT
62370733 ATAAA-TATTAAAAAAA
1 ATAAATTATTAAAAAAA
62370749 ATTAATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATTATTAAAAAAAT
Found at i:62374166 original size:31 final size:31
Alignment explanation
Indices: 62374131--62374204 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
62374121 ATTATAAAAT
62374131 AGTCATTAAAATATTTAAAAAATTTTATTTA
1 AGTCATTAAAATATTTAAAAAATTTTATTTA
* * **
62374162 AGTCATTAAATTATTTGAAAGTTTTTATTTA
1 AGTCATTAAAATATTTAAAAAATTTTATTTA
*
62374193 AGTTATTAAAAT
1 AGTCATTAAAAT
62374205 GTTATTCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (31 bp):
AGTCATTAAAATATTTAAAAAATTTTATTTA
Found at i:62375088 original size:14 final size:14
Alignment explanation
Indices: 62375065--62375098 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
62375055 TGGTATGGGT
62375065 TTAT-GGGTTTTAG
1 TTATAGGGTTTTAG
*
62375078 TTATAGGGTTTTGG
1 TTATAGGGTTTTAG
62375092 TTATAGG
1 TTATAGG
62375099 CAAATGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTAG
Found at i:62385259 original size:3 final size:3
Alignment explanation
Indices: 62385253--62385281 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62385243 TCTTCTTCTT
62385253 CTG CTG CTG CTG CTG CTG CTG CTG CTG CT
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CT
62385282 CTTACATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (3 bp):
CTG
Found at i:62389262 original size:33 final size:33
Alignment explanation
Indices: 62389225--62389299 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
62389215 GTTAAAAGTT
*
62389225 TATATAAAAACCAAATAATCCTATGTTTGAATC
1 TATATAAAAACCAAATAAACCTATGTTTGAATC
*
62389258 TATATAAAAACCAAATAAACCTATGTTTGATTC
1 TATATAAAAACCAAATAAACCTATGTTTGAATC
*
62389291 GATATAAAA
1 TATATAAAA
62389300 TCAAACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (33 bp):
TATATAAAAACCAAATAAACCTATGTTTGAATC
Found at i:62390419 original size:82 final size:82
Alignment explanation
Indices: 62390279--62390432 Score: 272
Period size: 82 Copynumber: 1.9 Consensus size: 82
62390269 GCTCAAGTTG
*
62390279 GGGTTGGCTGAGCAACACCAGCAGCAATGGACAATGGTGCAGAAAAGCTTGTTGTTTTTACAAGC
1 GGGTTGGCTGAGCAACACCAGCAGCAATGGACAATGGTGCAGAAAAGCTTGTTCTTTTTACAAGC
62390344 TCAAGTTAAGTTGGGCC
66 TCAAGTTAAGTTGGGCC
* * *
62390361 GGGTTGGCTGAGCAACACCAGCAGCAATGGAGAATGGTGCGGAAAAGCTTGTTCTTTTTCCAAGC
1 GGGTTGGCTGAGCAACACCAGCAGCAATGGACAATGGTGCAGAAAAGCTTGTTCTTTTTACAAGC
62390426 TCAAGTT
66 TCAAGTT
62390433 GGAGTCGCGT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (82 bp):
GGGTTGGCTGAGCAACACCAGCAGCAATGGACAATGGTGCAGAAAAGCTTGTTCTTTTTACAAGC
TCAAGTTAAGTTGGGCC
Found at i:62390451 original size:73 final size:73
Alignment explanation
Indices: 62390244--62390471 Score: 269
Period size: 82 Copynumber: 3.0 Consensus size: 73
62390234 GGCTTCCTCA
* * * *
62390244 GCAGAAAAGCTTGTCCTGTTTAGAAGCTCAAGTTGGGGTTGGCTGAGCAACACCAGCAGCAATGG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTCGGCTGAGCAACACCAGCAGCAATGG
62390309 ACAATGGT
66 ACAATGGT
* *
62390317 GCAGAAAAGCTTGTTGTTTTTACAAGCTCAAGTTAAGTTGGGCCGGGTTGGCTGAGCAACACCAG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTC-----AAGTT--G--GGGTCGGCTGAGCAACACCAG
*
62390382 CAGCAATGGAGAATGGT
57 CAGCAATGGACAATGGT
* * *
62390399 GCGGAAAAGCTTGTTCTTTTTCCAAGCTCAAGTTGGAGTC-GCGTGAGCAACACCAGCAGCAATG
1 GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTCGGC-TGAGCAACACCAGCAGCAATG
62390463 GACAATGGT
65 GACAATGGT
62390472 ACAAATGGGT
Statistics
Matches: 134, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
72 2 0.01
73 57 0.43
75 1 0.01
77 5 0.04
78 5 0.04
80 1 0.01
82 63 0.47
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (73 bp):
GCAGAAAAGCTTGTTCTTTTTACAAGCTCAAGTTGGGGTCGGCTGAGCAACACCAGCAGCAATGG
ACAATGGT
Found at i:62391248 original size:11 final size:11
Alignment explanation
Indices: 62391232--62391257 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62391222 TCATATTACT
62391232 TAAAATAAAAA
1 TAAAATAAAAA
62391243 TAAAATAAAAA
1 TAAAATAAAAA
62391254 TAAA
1 TAAA
62391258 GGATAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:62391898 original size:19 final size:19
Alignment explanation
Indices: 62391855--62391900 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
62391845 AAAAGTATGA
*
62391855 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAA-TTTTAAAAAT
62391875 ATTTTGAAA-TTTAAAAATT
1 ATTTTGAAATTTTAAAAA-T
62391894 ATTTTGA
1 ATTTTGA
62391901 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTTTGAAATTTTAAAAAT
Found at i:62391906 original size:19 final size:18
Alignment explanation
Indices: 62391863--62391907 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
62391853 GAATTTTGAA
*
62391863 ATTTTTATAAATATTTTG
1 ATTTTTAAAAATATTTTG
**
62391881 AAATTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTTG
62391900 ATTTTTAA
1 ATTTTTAA
62391908 TTTGTAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:62395079 original size:21 final size:21
Alignment explanation
Indices: 62395053--62395093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62395043 ATCTGCTCAA
* *
62395053 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
62395074 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
62395094 TTACTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:62395657 original size:13 final size:13
Alignment explanation
Indices: 62395639--62395670 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
62395629 TGCCAGTCTG
62395639 GTTTTCGATCATA
1 GTTTTCGATCATA
62395652 GTTTTCGATCATA
1 GTTTTCGATCATA
62395665 GTTTTC
1 GTTTTC
62395671 CATTTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (13 bp):
GTTTTCGATCATA
Found at i:62410289 original size:64 final size:65
Alignment explanation
Indices: 62410204--62410336 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 65
62410194 ATTTGTTTCT
* *
62410204 TGAAGTACTCTAGTGTCTCACACTTGTCTCCGTAGTATATCCTGATCCCAAAGACCCCAAATACA
1 TGAAGTACTCTAGCGTCTCACACTTGTATCCGTAGTATATCCTGATCCCAAAGACCCCAAATACA
* * *
62410269 TGAAGTCCTCT-GCGTCTCACACTTGTATCCGTAGTATATCCTGATTCCAAAGACTCCAAATACA
1 TGAAGTACTCTAGCGTCTCACACTTGTATCCGTAGTATATCCTGATCCCAAAGACCCCAAATACA
62410333 TGAA
1 TGAA
62410337 AAATCATATG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 53 0.84
65 10 0.16
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (65 bp):
TGAAGTACTCTAGCGTCTCACACTTGTATCCGTAGTATATCCTGATCCCAAAGACCCCAAATACA
Found at i:62420396 original size:18 final size:18
Alignment explanation
Indices: 62420363--62420400 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
62420353 CCGCATTGAG
62420363 AAAAGGAGAAGAAAAGTAA
1 AAAAGGAGAAGAAAAG-AA
*
62420382 AAAAGGA-AAGCAAAGAA
1 AAAAGGAGAAGAAAAGAA
62420399 AA
1 AA
62420401 TAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.03
Consensus pattern (18 bp):
AAAAGGAGAAGAAAAGAA
Found at i:62423439 original size:21 final size:22
Alignment explanation
Indices: 62423394--62423450 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
62423384 ATTTATTACT
*
62423394 TTTTGTTGTTGTTT-TTACTGC
1 TTTTGTTGTTGTTTGTCACTGC
*
62423415 TTTTGTTGTTGTTTGTCATTG-
1 TTTTGTTGTTGTTTGTCACTGC
*
62423436 TTTTGGTGTTGTTTG
1 TTTTGTTGTTGTTTG
62423451 GCTATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.04, C:0.05, G:0.25, T:0.67
Consensus pattern (22 bp):
TTTTGTTGTTGTTTGTCACTGC
Found at i:62423528 original size:12 final size:12
Alignment explanation
Indices: 62423513--62423554 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
62423503 TGTTTTATTG
62423513 TTATTTTTACTA
1 TTATTTTTACTA
*
62423525 TTA-TTTTA-GA
1 TTATTTTTACTA
62423535 GTTATTTTTACTA
1 -TTATTTTTACTA
62423548 TTATTTT
1 TTATTTT
62423555 AGAGGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 1 0.04
11 8 0.32
12 15 0.60
13 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (12 bp):
TTATTTTTACTA
Found at i:62423531 original size:23 final size:23
Alignment explanation
Indices: 62423512--62423564 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
62423502 TTGTTTTATT
62423512 GTTATTTTTACTATTATTTTAGA
1 GTTATTTTTACTATTATTTTAGA
62423535 GTTATTTTTACTATTATTTTAGA
1 GTTATTTTTACTATTATTTTAGA
*
62423558 GGTATTT
1 GTTATTT
62423565 GCTTGATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.11, T:0.60
Consensus pattern (23 bp):
GTTATTTTTACTATTATTTTAGA
Found at i:62429828 original size:15 final size:16
Alignment explanation
Indices: 62429810--62429847 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
62429800 ACCGATTCAA
62429810 AAAAATATA-TAAATT
1 AAAAATATACTAAATT
62429825 AAAAATA-ACTAAATT
1 AAAAATATACTAAATT
62429840 -AAAATATA
1 AAAAATATA
62429848 ATTATACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATACTAAATT
Found at i:62430849 original size:29 final size:29
Alignment explanation
Indices: 62430816--62430871 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
62430806 TTTGATCTCT
62430816 ATATTGTTATAATGTTATTAATTAGTTTA
1 ATATTGTTATAATGTTATTAATTAGTTTA
*
62430845 ATATTTTTATAATGTTATTAATTAGTT
1 ATATTGTTATAATGTTATTAATTAGTT
62430872 CAAATAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (29 bp):
ATATTGTTATAATGTTATTAATTAGTTTA
Found at i:62445031 original size:22 final size:24
Alignment explanation
Indices: 62444987--62445031 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
62444977 ACCCATGTAT
*
62444987 TTCTCTCTTTCTCCTGCTTTATTC
1 TTCTCTCTTTCTCCTGCTATATTC
*
62445011 TTCT-TCTTT-TCCTTCTATATT
1 TTCTCTCTTTCTCCTGCTATATT
62445032 TGTTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.07, C:0.29, G:0.02, T:0.62
Consensus pattern (24 bp):
TTCTCTCTTTCTCCTGCTATATTC
Found at i:62445236 original size:3 final size:3
Alignment explanation
Indices: 62445230--62445268 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
62445220 GCAACTAAGG
62445230 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
62445269 TATTGGGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62445419 original size:3 final size:3
Alignment explanation
Indices: 62445411--62445453 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
62445401 TTATAGTCTA
* *
62445411 TTC TTC TTC TTC TTC TTT TTC CTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
62445454 GTTATTAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:62446946 original size:30 final size:30
Alignment explanation
Indices: 62446912--62446973 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
62446902 ACTTATTTTA
*
62446912 TTGTTAATTTTGTTATTATTTTA-ATGGCAT
1 TTGTTAATTTTGCTATTATTTTAGA-GGCAT
62446942 TTGTTAATTTTGCTATTATTTTAGAGGCAT
1 TTGTTAATTTTGCTATTATTTTAGAGGCAT
62446972 TT
1 TT
62446974 TCTTGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAGAGGCAT
Found at i:62464658 original size:21 final size:20
Alignment explanation
Indices: 62464603--62464659 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
62464593 TAAAACAACT
* * *
62464603 AAAAACGATTGAATCGCTAA
1 AAAAACCATTGAATCGATTA
* *
62464623 AAAAATCAATCGAATCGATTA
1 AAAAA-CCATTGAATCGATTA
62464644 AAAAACCAGTTGAATC
1 AAAAACCA-TTGAATC
62464660 AAATTAAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (20 bp):
AAAAACCATTGAATCGATTA
Found at i:62466224 original size:12 final size:12
Alignment explanation
Indices: 62466207--62466233 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62466197 ATTAAGGGAC
62466207 TGTATTTATATA
1 TGTATTTATATA
62466219 TGTATTTATATA
1 TGTATTTATATA
62466231 TGT
1 TGT
62466234 TGGAGGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (12 bp):
TGTATTTATATA
Found at i:62469076 original size:2 final size:2
Alignment explanation
Indices: 62469069--62469093 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62469059 CTTTCCACTT
62469069 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
62469094 TTTTTTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62487073 original size:14 final size:14
Alignment explanation
Indices: 62487036--62487062 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62487026 TTAAATCCAA
62487036 ATTCAAGGTTCAAG
1 ATTCAAGGTTCAAG
62487050 ATTCAAGGTTCAA
1 ATTCAAGGTTCAA
62487063 TATTAGAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
ATTCAAGGTTCAAG
Found at i:62488440 original size:3 final size:3
Alignment explanation
Indices: 62488434--62488460 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62488424 CTTGACCCTC
62488434 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
62488461 ATCCATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:62494675 original size:17 final size:17
Alignment explanation
Indices: 62494653--62494685 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62494643 TAATATTAAT
*
62494653 AATTTTTTTATTTATTG
1 AATTTTTTTATATATTG
62494670 AATTTTTTTATATATT
1 AATTTTTTTATATATT
62494686 CATCTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
AATTTTTTTATATATTG
Found at i:62495264 original size:31 final size:31
Alignment explanation
Indices: 62495228--62495288 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
62495218 AGTTAGTCTT
* * *
62495228 TGAACTTGGCAATTGTTCCCATATTTGGGCC
1 TGAACTTGGCAAATATTCCCACATTTGGGCC
*
62495259 TGAACTTGGCAAATATTCTCACATTTGGGC
1 TGAACTTGGCAAATATTCCCACATTTGGGC
62495289 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (31 bp):
TGAACTTGGCAAATATTCCCACATTTGGGCC
Found at i:62495276 original size:91 final size:91
Alignment explanation
Indices: 62495113--62495281 Score: 225
Period size: 91 Copynumber: 1.9 Consensus size: 91
62495103 GGGATTTAAA
* *
62495113 TTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTTCCGTATTGGGGCCTGAACTGAAC
1 TTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTCCCATATTGGGGCCTGAACTGAAC
*
62495178 AATTATTCCCACACTGATGCTTGAAC
66 AAATATTCCCACACTGATGCTTGAAC
* * * *
62495204 TTTTTTTTTGTTCAAGTTAGTCTTTGA-ACTTGGCAATTGTTCCCATATTTGGGCCTGAACTTG-
1 TTTTTTTTAGTTCAAGTTAGGCTCT-ACACTTGGCAATTGTTCCCATATTGGGGCCTGAAC-TGA
* *
62495267 GCAAATATTCTCACA
64 ACAAATATTCCCACA
62495282 TTTGGGCTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 64 0.96
92 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (91 bp):
TTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTCCCATATTGGGGCCTGAACTGAAC
AAATATTCCCACACTGATGCTTGAAC
Found at i:62495296 original size:31 final size:31
Alignment explanation
Indices: 62495230--62495296 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
62495220 TTAGTCTTTG
* * * *
62495230 AACTTGGCAATTGTTCCCATATTTGGGCCTG
1 AACTTGGCAAATATTCCCACATTTGGGCCTA
* *
62495261 AACTTGGCAAATATTCTCACATTTGGGCTTA
1 AACTTGGCAAATATTCCCACATTTGGGCCTA
62495292 AACTT
1 AACTT
62495297 TAAGGCTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (31 bp):
AACTTGGCAAATATTCCCACATTTGGGCCTA
Found at i:62495296 original size:91 final size:90
Alignment explanation
Indices: 62495091--62495297 Score: 222
Period size: 91 Copynumber: 2.3 Consensus size: 90
62495081 AACTTGTAAC
* * *
62495091 TATTCTCATATTGGGATTTAAA-TTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTT
1 TATTCTCACATTGGG-CTTAAACTTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTC
* *
62495155 CCGTATTGGGGCCTGAACTGAACAAT
65 CCATATTGGGGCCTGAACTGAACAAA
* * * * * * *
62495181 TATTCCCACACTGATGCTTGAACTTTTTTTTTGTTCAAGTTAGTCTTTGA-ACTTGGCAATTGTT
1 TATTCTCACATTG-GGCTTAAACTTTTTTTTAGTTCAAGTTAGGCTCT-ACACTTGGCAATTGTT
* *
62495245 CCCATATTTGGGCCTGAACTTG-GCAAA
64 CCCATATTGGGGCCTGAAC-TGAACAAA
62495272 TATTCTCACATTTGGGCTTAAACTTT
1 TATTCTCACA-TTGGGCTTAAACTTT
62495298 AAGGCTTTCA
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
90 14 0.15
91 75 0.80
92 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (90 bp):
TATTCTCACATTGGGCTTAAACTTTTTTTTAGTTCAAGTTAGGCTCTACACTTGGCAATTGTTCC
CATATTGGGGCCTGAACTGAACAAA
Found at i:62499809 original size:25 final size:24
Alignment explanation
Indices: 62499781--62499829 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
62499771 CCATTTAGGG
*
62499781 GTCAGAATTAAATTGTAATTTTTTT
1 GTCAG-ATTAAAATGTAATTTTTTT
*
62499806 GTCAGGTTAAAATGTAATTTTTTT
1 GTCAGATTAAAATGTAATTTTTTT
62499830 TAATATGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (24 bp):
GTCAGATTAAAATGTAATTTTTTT
Found at i:62502133 original size:14 final size:14
Alignment explanation
Indices: 62502110--62502149 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
62502100 ACAGAAAAGT
*
62502110 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
62502124 AAATCATTTTACGG
1 AAAACATTTTACAG
62502138 AAAACATTTTAC
1 AAAACATTTTAC
62502150 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:62502599 original size:15 final size:14
Alignment explanation
Indices: 62502571--62502622 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
62502561 ACGAATTGAT
*
62502571 AATATTAATGATTAA
1 AATA-TAATAATTAA
62502586 AATATAATAAATTAA
1 AATATAAT-AATTAA
* * *
62502601 AATTTAGTAACTAA
1 AATATAATAATTAA
62502615 AATATAAT
1 AATATAAT
62502623 TTAAATTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (14 bp):
AATATAATAATTAA
Found at i:62511378 original size:24 final size:24
Alignment explanation
Indices: 62511351--62511397 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
62511341 TGAATATTAC
62511351 AAGATATAGAAAAGTAAT-TAAATT
1 AAGAT-TAGAAAAGTAATATAAATT
**
62511375 AAGATTTTAAAAGTAATATAAAT
1 AAGATTAGAAAAGTAATATAAAT
62511398 AGATTGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
AAGATTAGAAAAGTAATATAAATT
Found at i:62516184 original size:23 final size:24
Alignment explanation
Indices: 62516157--62516206 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
62516147 TACAGATATC
* * *
62516157 ACTTTGTATCATATAAAT-TATTT
1 ACTTTGAATCACATAAATACATTT
62516180 ACTTTGAATCACATAAATACATTT
1 ACTTTGAATCACATAAATACATTT
62516204 ACT
1 ACT
62516207 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (24 bp):
ACTTTGAATCACATAAATACATTT
Found at i:62516343 original size:6 final size:6
Alignment explanation
Indices: 62516332--62516361 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
62516322 GTTAGCGAAC
62516332 AAATAT AAATAT AAATAT AAATATT AAATA
1 AAATAT AAATAT AAATAT AAATA-T AAATA
62516362 CAAGATCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:62517322 original size:16 final size:16
Alignment explanation
Indices: 62517298--62517347 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
62517288 AATTTTACCA
*
62517298 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
*
62517314 TTATAAATTATAAAATG
1 TTATAAATT-TAAAATT
*
62517331 CT-TAAA-TTAAAATT
1 TTATAAATTTAAAATT
62517345 TTA
1 TTA
62517348 CCATTTTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 7 0.26
15 1 0.04
16 12 0.44
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:62517735 original size:18 final size:17
Alignment explanation
Indices: 62517696--62517728 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62517686 ATTTAATATA
62517696 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
62517713 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
62517729 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:62519943 original size:8 final size:8
Alignment explanation
Indices: 62519930--62519956 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
62519920 AATCTTAATT
62519930 AAATTTTA
1 AAATTTTA
62519938 AAATTTTA
1 AAATTTTA
62519946 AAATTTTA
1 AAATTTTA
62519954 AAA
1 AAA
62519957 AAATCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTTA
Found at i:62523833 original size:7 final size:7
Alignment explanation
Indices: 62523796--62523829 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
62523786 AAAACAAGTT
62523796 TGGGAAG
1 TGGGAAG
62523803 TGGGAAG
1 TGGGAAG
62523810 TGGGAAG
1 TGGGAAG
*
62523817 TGGGAAA
1 TGGGAAG
62523824 TGGGAA
1 TGGGAA
62523830 ATGGATAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.53, T:0.15
Consensus pattern (7 bp):
TGGGAAG
Found at i:62528461 original size:2 final size:2
Alignment explanation
Indices: 62528454--62528481 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62528444 TTAATGCTCC
62528454 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
62528482 TCTATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:62528857 original size:51 final size:51
Alignment explanation
Indices: 62528802--62528914 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
62528792 ATTGGTATAA
* * *
62528802 TAATAAATTTAG-CCTTCAAAATTTACACATTTTGTCAATTTGGTCATGATT
1 TAATAAATTTAGCCCGT-AAAATTTACACATTCTGTCAATTTAGTCATGATT
* * * *
62528853 TAATAAATTTAGCCCGTAATATTTATATATTCTGTCAATTTAGTCTTGATT
1 TAATAAATTTAGCCCGTAAAATTTACACATTCTGTCAATTTAGTCATGATT
*
62528904 TAACAAATTTA
1 TAATAAATTTA
62528915 TCTCACAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 50 0.94
52 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (51 bp):
TAATAAATTTAGCCCGTAAAATTTACACATTCTGTCAATTTAGTCATGATT
Found at i:62530602 original size:15 final size:14
Alignment explanation
Indices: 62530567--62530624 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
62530557 AAATTTGAAA
*
62530567 TTTAA-TTTTATAT
1 TTTAATTTTTAAAT
*
62530580 TTTTATTTTTAAAGT
1 TTTAATTTTTAAA-T
62530595 TTTAATTTTGTAAAT
1 TTTAATTTT-TAAAT
**
62530610 TTTAAAATTTAAAT
1 TTTAATTTTTAAAT
62530624 T
1 T
62530625 CAATTGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.11
14 12 0.32
15 17 0.46
16 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTAATTTTTAAAT
Found at i:62536702 original size:7 final size:8
Alignment explanation
Indices: 62536683--62536710 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
62536673 ATATAATAAT
62536683 TTTTTTAA
1 TTTTTTAA
62536691 TTTTTTAA
1 TTTTTTAA
62536699 TTTTTTAA
1 TTTTTTAA
62536707 TTTT
1 TTTT
62536711 AAAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAA
Found at i:62536761 original size:9 final size:9
Alignment explanation
Indices: 62536730--62536754 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62536720 TAAAAATACT
62536730 TTTTTAAAA
1 TTTTTAAAA
62536739 TTTTTAAAA
1 TTTTTAAAA
62536748 TTTTTAA
1 TTTTTAA
62536755 CTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:62536781 original size:29 final size:28
Alignment explanation
Indices: 62536755--62536810 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
62536745 AAATTTTTAA
62536755 CTTT-TTTTAAAATACTTTTTTAATTTT
1 CTTTATTTTAAAATACTTTTTTAATTTT
* *
62536782 TTTTAATTTTAAAATATTTTTTTAATTTT
1 CTTT-ATTTTAAAATACTTTTTTAATTTT
62536811 TAAAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
29 22 0.88
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTATTTTAAAATACTTTTTTAATTTT
Found at i:62536800 original size:20 final size:20
Alignment explanation
Indices: 62536779--62536817 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
62536769 CTTTTTTAAT
62536779 TTTTTTTAA-TTTTAAAATA
1 TTTTTTTAATTTTTAAAATA
62536798 TTTTTTTAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAATA
62536818 AATTTTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTAATTTTTAAAATA
Found at i:62536802 original size:40 final size:39
Alignment explanation
Indices: 62536691--62536802 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 39
62536681 ATTTTTTTAA
* *
62536691 TTTTTTAA-TTTTTTAATTTTAAAATACTTTAAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
** * * *
62536729 TTTTTTAAAATTTTTAAAATTTTTAACTTTTTTTAAAATAC
1 TTTTTT--AATTTTTTTAATTTTAAAATATTTTTAAAATAC
62536770 TTTTTTAATTTTTTTTAATTTTAAAATATTTTT
1 TTTTTTAA-TTTTTTTAATTTTAAAATATTTTT
62536803 TTAATTTTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 6 0.10
39 2 0.03
40 21 0.36
41 29 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:62536823 original size:19 final size:19
Alignment explanation
Indices: 62536782--62536823 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
62536772 TTTTAATTTT
**
62536782 TTTTAATTTTAAAATATTT
1 TTTTAATTTTAAAATATAA
62536801 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATATAA
62536820 TTTT
1 TTTT
62536824 TGGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTAAAATATAA
Found at i:62536823 original size:20 final size:19
Alignment explanation
Indices: 62536781--62536824 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
62536771 TTTTTAATTT
**
62536781 TTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAATAAA
62536800 TTTTTAATTTTTAAAATAAA
1 TTTTTAA-TTTTAAAATAAA
62536820 TTTTT
1 TTTTT
62536825 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:62544262 original size:15 final size:15
Alignment explanation
Indices: 62544242--62544272 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62544232 CTTCGTATCG
*
62544242 GTTCGTAGGTTAATT
1 GTTCGTAGATTAATT
62544257 GTTCGTAGATTAATT
1 GTTCGTAGATTAATT
62544272 G
1 G
62544273 ATTTAATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (15 bp):
GTTCGTAGATTAATT
Found at i:62549576 original size:83 final size:81
Alignment explanation
Indices: 62549374--62549662 Score: 250
Period size: 83 Copynumber: 3.5 Consensus size: 81
62549364 GCCAAAAGGT
*
62549374 TTAAACTTTATTCATACAAACCCCCCAATTTCCCTAACAAATT-AAATAACAAATAAAAAC-TTG
1 TTAAAC-TT-TTCATACAAA--CCCCAATTTCCCTAAC-AATTCAAATAACAAATCAAAACTTTG
** *
62549437 ATCTTAATCAAGACCCAAAGG
61 ATCTTAATCAAGACAAAAAGC
* *
62549458 TTAAACTTTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCAGAACTTTGGTCT
1 TTAAACTTTTCATACAAACCCC-AATTTCCCTAACAATTCAAATAACAAATCAAAACTTTGATCT
*
62549523 TAATCAAGGCTAAAAAGC
65 TAATCAAGAC-AAAAAGC
* * * * *
62549541 TTACA-TTGTTCATTCAAACCCACAATTTCCATAACAATTCGAATAA-ACAATCAAAAC-TTGGT
1 TTAAACTT-TTCATACAAACCC-CAATTTCCCTAACAATTCAAATAACA-AATCAAAACTTTGAT
* * * *
62549603 TTTATTCAA-AGC-CAAAGT
63 CTTAATCAAGA-CAAAAAGC
62549621 TTAAACTTTTTTCATACAAACCCCACAATTTCCCTAACAATT
1 TTAAAC--TTTTCATACAAA-CCC-CAATTTCCCTAACAATT
62549663 AAGACCAAAA
Statistics
Matches: 173, Mismatches: 20, Indels: 25
0.79 0.09 0.11
Matches are distributed among these distances:
80 16 0.09
81 27 0.16
82 50 0.29
83 73 0.42
84 7 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.29
Consensus pattern (81 bp):
TTAAACTTTTCATACAAACCCCAATTTCCCTAACAATTCAAATAACAAATCAAAACTTTGATCTT
AATCAAGACAAAAAGC
Found at i:62549811 original size:83 final size:80
Alignment explanation
Indices: 62549658--62549948 Score: 311
Period size: 79 Copynumber: 3.6 Consensus size: 80
62549648 ATTTCCCTAA
* * * * * *
62549658 CAATTAAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCC-AAT-A
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAA--CCCCAATTTCCTTCACGA-TCCAAATAA
*
62549721 ACAAATCAGAACTTGGTCT
63 AC-AATCAGAACTTGGTTT
*
62549740 CAATCAAGGCCAAAAGGTTTAAAATTTTTCATACAAACCCTCAATTTCCTTCACGATCCAAATAA
1 CAATCAAGGCCAAAAGG-TT-AAACTTTTCATACAAACCC-CAATTTCCTTCACGATCCAAATAA
* *
62549805 ACAATCAAAATTTGGTTT
63 ACAATCAGAACTTGGTTT
* * * * * *
62549823 CAATCAAAGCC-AAAGTTTGAACTTCTAATAC-AACCCACAATTTCCTTCACGATTCAAATAAAC
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCC-CAATTTCCTTCACGATCCAAATAAAC
* *
62549886 AATCAGGACTTTGTTT
65 AATCAGAACTTGGTTT
62549902 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCCCTAATTTCC
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCCC-AATTTCC
62549949 CTAACAATTC
Statistics
Matches: 174, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
79 52 0.30
80 26 0.15
81 14 0.08
82 25 0.14
83 40 0.23
84 17 0.10
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (80 bp):
CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCCCAATTTCCTTCACGATCCAAATAAACA
ATCAGAACTTGGTTT
Found at i:62549832 original size:218 final size:217
Alignment explanation
Indices: 62549446--62549846 Score: 588
Period size: 218 Copynumber: 1.8 Consensus size: 217
62549436 GATCTTAATC
* *
62549446 AAGACCCAAAGGTTAAACTTTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
1 AAGACCAAAAGGTTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
* * * *
62549511 GAACTTTGGTCTTAATCAAGGCTAAAAAGCTTACATTGTTCATTCAAACCCACAATTTCCATAAC
66 GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTAAATTGTTCATACAAACCCACAATTTCCATAAC
* * * *
62549576 AATTCGAATAAACAATCAAAACTTGGTTTTATTCAAAGCCAAAGTTTAAACTTTTTTCATACAAA
131 AATCCAAATAAACAATCAAAACTTGGTTTCAATCAAAGCCAAAGTTTAAACTTTTTTCATACAAA
62549641 CCCCACAATTTCCCTAACAATT
196 CCCCACAATTTCCCTAACAATT
* *
62549663 AAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCCAATAACAAATC
1 AAGACCAAAAGGTTAAACATTTCATACAAA-CCCCAAATTTCCCTAACAATTCAAATAACAAATC
* * * * * *
62549728 AGAAC-TTGGTCTCAATCAAGGCCAAAAGGTTTAAAATTTTTCATACAAACCCTCAATTTCCTTC
65 AGAACTTTGGTCTCAATCAAGGCCAAAAAGCTT-AAATTGTTCATACAAACCCACAATTTCCATA
* * *
62549792 ACGATCCAAATAAACAATCAAAATTTGGTTTCAATCAAAGCCAAAGTTTGAACTT
129 ACAATCCAAATAAACAATCAAAACTTGGTTTCAATCAAAGCCAAAGTTTAAACTT
62549847 CTAATACAAC
Statistics
Matches: 161, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
217 51 0.32
218 110 0.68
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (217 bp):
AAGACCAAAAGGTTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTAAATTGTTCATACAAACCCACAATTTCCATAAC
AATCCAAATAAACAATCAAAACTTGGTTTCAATCAAAGCCAAAGTTTAAACTTTTTTCATACAAA
CCCCACAATTTCCCTAACAATT
Found at i:62553744 original size:12 final size:12
Alignment explanation
Indices: 62553724--62553755 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
62553714 GTTATTTAAT
62553724 TAATA-TTTTAG
1 TAATATTTTTAG
62553735 TAATATTTTTAG
1 TAATATTTTTAG
62553747 TAATATTTT
1 TAATATTTT
62553756 ATTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (12 bp):
TAATATTTTTAG
Found at i:62561521 original size:16 final size:16
Alignment explanation
Indices: 62561500--62561542 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
62561490 TTATTAAATT
62561500 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
62561516 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
62561531 AT-TATGTTAATT
1 ATATATTTTAATT
62561543 TATATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:62561562 original size:42 final size:41
Alignment explanation
Indices: 62561481--62561654 Score: 116
Period size: 42 Copynumber: 4.3 Consensus size: 41
62561471 ATATTGATTA
*
62561481 TTAATAATATTATTAAATTATATATTTTAATTATAATATAT
1 TTAATAATATTATTAAATTATATATTTTAAGTATAATATAT
* *
62561522 TTAATAATAATTATGTTAATT-TATA-TTTATAGTATCATATA-
1 TTAATAAT-ATTAT-TAAATTATATATTTTA-AGTATAATATAT
* * * * *
62561563 TT-ATGAT-TTGAGTAAATT-CATA---TAAGAATATTGAT-T
1 TTAATAATATT-ATTAAATTATATATTTTAAGTATAAT-ATAT
* * *
62561599 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATAT
1 -TTAATAATATTATTAAATTATATATTTTAAGTATAATATAT
62561641 TTAATAATAATTAT
1 TTAATAAT-ATTAT
62561655 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
35 5 0.05
36 4 0.04
37 2 0.02
38 20 0.20
39 6 0.06
40 4 0.04
41 23 0.23
42 30 0.30
43 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (41 bp):
TTAATAATATTATTAAATTATATATTTTAAGTATAATATAT
Found at i:62561579 original size:119 final size:119
Alignment explanation
Indices: 62561437--62561657 Score: 424
Period size: 119 Copynumber: 1.9 Consensus size: 119
62561427 GCAATAACAG
*
62561437 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATATTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
62561502 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTA
66 ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTA
*
62561556 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
62561621 ATATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATATTTTAATTATAATATATTTAATAATAATTATGTT
62561658 TAAATATGAT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 100 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (119 bp):
TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATATTATTAAATTAT
ATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTATAGTA
Found at i:62561640 original size:16 final size:16
Alignment explanation
Indices: 62561619--62561660 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62561609 TTATTAAATT
*
62561619 ATATATTTTAATTATA
1 ATATATTTTAATAATA
62561635 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
62561650 AT-TATGTTTAA
1 ATATAT-TTTAA
62561661 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:62561645 original size:15 final size:15
Alignment explanation
Indices: 62561610--62561651 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62561600 TTAAGAATTT
*
62561610 TATTAAATTAT-ATA
1 TATTTAATTATAATA
62561624 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
62561638 TATTTAATAATAAT
1 TATTTAATTATAAT
62561652 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:62561831 original size:39 final size:40
Alignment explanation
Indices: 62561788--62561892 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
62561778 TTCCATTATG
62561788 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
62561827 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
62561872 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
62561893 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:62561886 original size:45 final size:44
Alignment explanation
Indices: 62561786--62561895 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
62561776 TTTTCCATTA
62561786 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
62561825 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
62561870 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
62561896 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:62561895 original size:16 final size:16
Alignment explanation
Indices: 62561874--62561943 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
62561864 TTGATTTGCT
*
62561874 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
62561890 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
62561906 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
62561922 AATACAGCTCTAATCC
1 ATTACACCTCTAATCC
*
62561938 AATACA
1 ATTACA
62561944 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.01, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:62562404 original size:14 final size:14
Alignment explanation
Indices: 62562385--62562414 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62562375 TCATCATTTG
62562385 CCTATAACCAAAAC
1 CCTATAACCAAAAC
62562399 CCTATAACCAAAAC
1 CCTATAACCAAAAC
62562413 CC
1 CC
62562415 ATAGACCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:62563364 original size:4 final size:4
Alignment explanation
Indices: 62563355--62563385 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
62563345 ATGCATATTG
*
62563355 TGTA TGTA TGTA TGTA TTTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
62563386 TTTTTAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (4 bp):
TGTA
Found at i:62565731 original size:37 final size:40
Alignment explanation
Indices: 62565659--62565737 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 40
62565649 AAGTAGGACA
62565659 GCATACATAAATAAACCCAACTAGCTTATACTTATATACAT
1 GCATACATAAATAAACCCAACTAGCTTATA-TTATATACAT
*
62565700 GCATACATAAATAAACCCAACTAGCTTTTATATATATA
1 GCATACATAAATAAACCCAACTAGCTTATAT-TATATA
62565738 TATAATTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.30
Consensus pattern (40 bp):
GCATACATAAATAAACCCAACTAGCTTATATTATATACAT
Found at i:62569614 original size:14 final size:14
Alignment explanation
Indices: 62569594--62569636 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
62569584 AAATCAAATG
62569594 AATTAAATTTCTAAA
1 AATTAAA-TTCTAAA
* * *
62569609 AATAAAAATATAAA
1 AATTAAATTCTAAA
62569623 AATTAAATTCTAAA
1 AATTAAATTCTAAA
62569637 TTCTCAAAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAATTCTAAA
Found at i:62571178 original size:27 final size:28
Alignment explanation
Indices: 62571139--62571191 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
62571129 GTATATTTAA
*
62571139 AATTTAGTCTCCTAT-TTTTATTTCAAGG
1 AATTTAATCTCCTATATTTT-TTTCAAGG
*
62571167 AATTTAAT-TCCTCTATTTTTTTCAA
1 AATTTAATCTCCTATATTTTTTTCAA
62571192 TTTAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (28 bp):
AATTTAATCTCCTATATTTTTTTCAAGG
Found at i:62571990 original size:188 final size:187
Alignment explanation
Indices: 62571658--62572032 Score: 714
Period size: 187 Copynumber: 2.0 Consensus size: 187
62571648 AGGATCTGAA
*
62571658 TGTAGATTTTAAGATTCCAATTCAAGGTCTGCAAAGATTTAATTAATCACAAATATTAAAATTTA
1 TGTAGATTTTAAGATTCCAATTCAAGGTCTACAAAGATTTAATTAATCACAAATATTAAAATTTA
62571723 GAAAAGATTTATTAAAGCATGTGACACAAACACTTTTTTCTCCCCTTTAAATGAGGAAAATATTT
66 GAAAAGATTTATTAAAGCATGTGACACAAACACTTTTTTCTCCCCTTTAAATGAGGAAAATATTT
*
62571788 GGCCACGGTTGCTTCATGCATGCCACTAGATGTAGTGGAAACCACTTAAGTGAATAG
131 GGCCAAGGTTGCTTCATGCATGCCACTAGATGTAGTGGAAACCACTTAAGTGAATAG
*
62571845 TGTAGATTTTAAGATTCCAATTTAAGGTCTACAAAGATTTAATTAATCACAAATATTAAAATTTA
1 TGTAGATTTTAAGATTCCAATTCAAGGTCTACAAAGATTTAATTAATCACAAATATTAAAATTTA
62571910 GAAAAGATTTATTAAAGCATGTGACACAAACACTTTTTTTCTCCCCTTTAAATGAGGAAAATATT
66 GAAAAGATTTATTAAAGCATGTGACACAAACAC-TTTTTTCTCCCCTTTAAATGAGGAAAATATT
62571975 TGGCCAAGGTTGCTTCATGCATGCCACTAGATGTAGTGGAAACCACTTAAGTGAATAG
130 TGGCCAAGGTTGCTTCATGCATGCCACTAGATGTAGTGGAAACCACTTAAGTGAATAG
62572033 AATATGTCGA
Statistics
Matches: 184, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 96 0.52
188 88 0.48
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (187 bp):
TGTAGATTTTAAGATTCCAATTCAAGGTCTACAAAGATTTAATTAATCACAAATATTAAAATTTA
GAAAAGATTTATTAAAGCATGTGACACAAACACTTTTTTCTCCCCTTTAAATGAGGAAAATATTT
GGCCAAGGTTGCTTCATGCATGCCACTAGATGTAGTGGAAACCACTTAAGTGAATAG
Found at i:62574349 original size:3 final size:3
Alignment explanation
Indices: 62574341--62574374 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
62574331 GCCATCAGAA
62574341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
62574375 CAGAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62576353 original size:48 final size:50
Alignment explanation
Indices: 62576270--62576363 Score: 113
Period size: 48 Copynumber: 1.9 Consensus size: 50
62576260 ATTTAATTTG
* * **
62576270 AAATAATTTAAATCTAAAATGATCATTGATAAAAA-TAA-TTAAAACTCA
1 AAATAAATTAAATCTAAAATCATCATCAATAAAAATTAACTTAAAACTCA
*
62576318 AAATAAATTAAATTTAAAATCATC-TCAATACAAAATTAACTTAAAA
1 AAATAAATTAAATCTAAAATCATCATCAATA-AAAATTAACTTAAAA
62576364 ATATTCAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 4 0.11
48 25 0.66
49 3 0.08
50 6 0.16
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (50 bp):
AAATAAATTAAATCTAAAATCATCATCAATAAAAATTAACTTAAAACTCA
Found at i:62588202 original size:4 final size:4
Alignment explanation
Indices: 62588195--62588229 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
62588185 AAACAAACAC
62588195 ACAG ACAG ACAG AC-G TACAG ACAG ACAG ACAG ACA
1 ACAG ACAG ACAG ACAG -ACAG ACAG ACAG ACAG ACA
62588230 AAGGAGATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.03
4 27 0.93
5 1 0.03
ACGTcount: A:0.49, C:0.26, G:0.23, T:0.03
Consensus pattern (4 bp):
ACAG
Found at i:62590610 original size:31 final size:31
Alignment explanation
Indices: 62590543--62590602 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
62590533 TTTAGTATCT
**
62590543 AAGTTTAGCTTCAATGTTCAATTTGGTACTC
1 AAGTTTAGCTTCAACATTCAATTTGGTACTC
*
62590574 AAGTTTGGCTTCAACATTCAATTTGGTAC
1 AAGTTTAGCTTCAACATTCAATTTGGTAC
62590603 CTGAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (31 bp):
AAGTTTAGCTTCAACATTCAATTTGGTACTC
Found at i:62595622 original size:13 final size:13
Alignment explanation
Indices: 62595604--62595638 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
62595594 TTTGATATAG
62595604 AAATGATATGATT
1 AAATGATATGATT
62595617 AAATGATATGATT
1 AAATGATATGATT
62595630 AAATGATAT
1 AAATGATAT
62595639 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (13 bp):
AAATGATATGATT
Found at i:62601185 original size:13 final size:14
Alignment explanation
Indices: 62601167--62601201 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
62601157 ATTCGATATA
62601167 TAAATGATATG-AT
1 TAAATGATATGAAT
62601180 TAAATGATATGAAT
1 TAAATGATATGAAT
62601194 TGAAATGA
1 T-AAATGA
62601202 AAATGATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
14 3 0.15
15 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (14 bp):
TAAATGATATGAAT
Found at i:62611827 original size:41 final size:40
Alignment explanation
Indices: 62611737--62611856 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 40
62611727 TGATTTAATA
* * * * * * *
62611737 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCGAATAATTT
1 CACCGGCATTAAGCCTACTAGAC-AATAGTCTGAATTATAT
*
62611778 CACTGGCATTAAGCCTACTAGACAATGAGTCTGAATTATAT
1 CACCGGCATTAAGCCTACTAGACAAT-AGTCTGAATTATAT
*
62611819 CACCGGCATCAAGCCTACTAGACAATAAGTCTGAATTA
1 CACCGGCATTAAGCCTACTAGACAAT-AGTCTGAATTA
62611857 CATTCGATCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 65 0.97
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTACTAGACAATAGTCTGAATTATAT
Found at i:62625037 original size:14 final size:14
Alignment explanation
Indices: 62625015--62625045 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62625005 GTTTCTGAAA
62625015 ATAAACTATAATTT
1 ATAAACTATAATTT
*
62625029 ATAATCTATAATTT
1 ATAAACTATAATTT
62625043 ATA
1 ATA
62625046 TAACATCTAA
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAACTATAATTT
Done.