Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 79 of 133
Found at i:15634670 original size:22 final size:22
Alignment explanation
Indices: 15634645--15634686 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15634635 TTATATATAT
*
15634645 TTAATATATTTATTATTTTTAA
1 TTAATATATATATTATTTTTAA
*
15634667 TTAATTTATATATTATTTTT
1 TTAATATATATATTATTTTT
15634687 TATATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTAATATATATATTATTTTTAA
Found at i:15634689 original size:29 final size:27
Alignment explanation
Indices: 15634643--15634696 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
15634633 ATTTATATAT
*
15634643 ATTTAATATATTTATTATTTTTAATTA
1 ATTTAATATATTTATTATATTTAATTA
*
15634670 ATTTATATATTATTTTTTATATTTAAT
1 ATTTA-ATA-TATTTATTATATTTAAT
15634697 AGCCAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 3 0.13
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTAATATATTTATTATATTTAATTA
Found at i:15641506 original size:13 final size:12
Alignment explanation
Indices: 15641490--15641610 Score: 57
Period size: 13 Copynumber: 9.4 Consensus size: 12
15641480 TTAGGATTGG
15641490 GGTTTACAGTTTA
1 GGTTTA-AGTTTA
*
15641503 GGTTTACATTTTA
1 GGTTTA-AGTTTA
* *
15641516 GGATTTGAGGTTTG
1 GG-TTT-AAGTTTA
* *
15641530 GGTTTAGGGTTAA
1 GGTTTA-AGTTTA
*
15641543 GG-TTACGGTTTA
1 GGTTTA-AGTTTA
*
15641555 GGGTTTTAGTTTA
1 -GGTTTAAGTTTA
*
15641568 GGGTTTAAGGTTA
1 -GGTTTAAGTTTA
15641581 GGTTTAAGGTTTA
1 GGTTTAA-GTTTA
*
15641594 AGTTTAAAGTTT-
1 GGTTT-AAGTTTA
15641606 GGTTT
1 GGTTT
15641611 TATGCTTTAG
Statistics
Matches: 86, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
12 20 0.23
13 53 0.62
14 12 0.14
15 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (12 bp):
GGTTTAAGTTTA
Found at i:15641581 original size:26 final size:26
Alignment explanation
Indices: 15641512--15641628 Score: 78
Period size: 25 Copynumber: 4.5 Consensus size: 26
15641502 AGGTTTACAT
* * * *
15641512 TTTAGGATTTGAGGTTTGGGTTTAGG
1 TTTAGGGTTTAAGGTTAGGTTTTAGG
* * *
15641538 GTTAAGG-TTACGGTTTAGGGTTTTA-G
1 TTTAGGGTTTAAGG-TTA-GGTTTTAGG
*
15641564 TTTAGGGTTTAAGGTTAGGTTTAAGG
1 TTTAGGGTTTAAGGTTAGGTTTTAGG
* * * *
15641590 TTTA-AGTTTAAAGTTTGGTTTTATGC
1 TTTAGGGTTTAAGGTTAGGTTTTA-GG
15641616 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
15641629 AATTGGGATA
Statistics
Matches: 67, Mismatches: 18, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
25 25 0.37
26 25 0.37
27 17 0.25
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.46
Consensus pattern (26 bp):
TTTAGGGTTTAAGGTTAGGTTTTAGG
Found at i:15641594 original size:7 final size:7
Alignment explanation
Indices: 15641530--15641605 Score: 56
Period size: 7 Copynumber: 11.7 Consensus size: 7
15641520 TTGAGGTTTG
15641530 GGTTT-A
1 GGTTTAA
*
15641536 GGGTTAA
1 GGTTTAA
*
15641543 GG-TTAC
1 GGTTTAA
*
15641549 GGTTTAG
1 GGTTTAA
*
15641556 GGTTTTA
1 GGTTTAA
*
15641563 -GTTTAG
1 GGTTTAA
15641569 GGTTTAA
1 GGTTTAA
15641576 GG-TT-A
1 GGTTTAA
15641581 GGTTTAA
1 GGTTTAA
15641588 GGTTTAA
1 GGTTTAA
15641595 -GTTTAA
1 GGTTTAA
*
15641601 AGTTT
1 GGTTT
15641606 GGTTTTATGC
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 23 0.41
7 30 0.54
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:15641595 original size:52 final size:52
Alignment explanation
Indices: 15641512--15641628 Score: 123
Period size: 52 Copynumber: 2.2 Consensus size: 52
15641502 AGGTTTACAT
* * * **
15641512 TTTAGGATTTGAGGTTTGGGTTTAGGGTTAAGGTTACGGTTTAGGGTTTTA-G-
1 TTTAGGGTTTAAGGTTTAGGTTTAGGGTTAAGGTTAAAGTTT--GGTTTTATGC
* *
15641564 TTTAGGGTTTAAGG-TTAGGTTTAAGGTTTAAGTTTAAAGTTTGGTTTTATGC
1 TTTAGGGTTTAAGGTTTAGGTTT-AGGGTTAAGGTTAAAGTTTGGTTTTATGC
15641616 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
15641629 AATTGGGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 7 0.13
51 8 0.15
52 40 0.73
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.46
Consensus pattern (52 bp):
TTTAGGGTTTAAGGTTTAGGTTTAGGGTTAAGGTTAAAGTTTGGTTTTATGC
Found at i:15641696 original size:27 final size:27
Alignment explanation
Indices: 15641654--15641743 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
15641644 TAGATTTGAA
* * *
15641654 TTTAGGGTTTCAAATTAAGGGTTTTAG
1 TTTAAGGTTTCGAATTAAGGGTTTCAG
15641681 TTTAAGGTTTCGAATTAAGGGTTTCA-
1 TTTAAGGTTTCGAATTAAGGGTTTCAG
* * *
15641707 TTTAAGGTTTGGGATTTAA-AGTTTCAG
1 TTTAAGGTTT-CGAATTAAGGGTTTCAG
15641734 TTTAAGGTTT
1 TTTAAGGTTT
15641744 AGATTTGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.29
27 39 0.71
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (27 bp):
TTTAAGGTTTCGAATTAAGGGTTTCAG
Found at i:15641723 original size:14 final size:14
Alignment explanation
Indices: 15641653--15641749 Score: 64
Period size: 13 Copynumber: 7.3 Consensus size: 14
15641643 TTAGATTTGA
*
15641653 ATTTAGGGTTTCA-
1 ATTTAAGGTTTCAG
* *
15641666 AATTAAGGGTTTTAG
1 ATTTAA-GGTTTCAG
15641681 -TTTAAGGTTTC-G
1 ATTTAAGGTTTCAG
*
15641693 AATTAAGGGTTTC--
1 ATTTAA-GGTTTCAG
**
15641706 ATTTAAGGTTTGGG
1 ATTTAAGGTTTCAG
*
15641720 ATTTAAAGTTTCAG
1 ATTTAAGGTTTCAG
15641734 -TTTAAGGTTT-AG
1 ATTTAAGGTTTCAG
15641746 ATTT
1 ATTT
15641750 GGATTTGGGG
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
12 8 0.12
13 30 0.46
14 27 0.42
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (14 bp):
ATTTAAGGTTTCAG
Found at i:15641743 original size:13 final size:13
Alignment explanation
Indices: 15641654--15641743 Score: 58
Period size: 14 Copynumber: 6.8 Consensus size: 13
15641644 TAGATTTGAA
* *
15641654 TTTAGGGTTTCAA
1 TTTAAGGTTTCAG
* *
15641667 ATTAAGGGTTTTAG
1 TTTAA-GGTTTCAG
15641681 TTTAAGGTTTC-G
1 TTTAAGGTTTCAG
*
15641693 AATTAAGGGTTTCA-
1 -TTTAA-GGTTTCAG
**
15641707 TTTAAGGTTTGGG
1 TTTAAGGTTTCAG
*
15641720 ATTTAAAGTTTCAG
1 -TTTAAGGTTTCAG
15641734 TTTAAGGTTT
1 TTTAAGGTTT
15641744 AGATTTGGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
12 6 0.11
13 25 0.44
14 26 0.46
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (13 bp):
TTTAAGGTTTCAG
Found at i:15642759 original size:10 final size:10
Alignment explanation
Indices: 15642746--15642770 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15642736 AAACCATGAA
15642746 AAATGGTATT
1 AAATGGTATT
15642756 AAATGGTATT
1 AAATGGTATT
15642766 AAATG
1 AAATG
15642771 CAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (10 bp):
AAATGGTATT
Found at i:15643070 original size:24 final size:24
Alignment explanation
Indices: 15643043--15643090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15643033 TGGTTCAGAA
15643043 TGCATTTTTAGTGCTACTAGAAAT
1 TGCATTTTTAGTGCTACTAGAAAT
15643067 TGCATTTTTAGTGCTACTAGAAAT
1 TGCATTTTTAGTGCTACTAGAAAT
15643091 AATGTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
TGCATTTTTAGTGCTACTAGAAAT
Found at i:15646816 original size:20 final size:21
Alignment explanation
Indices: 15646760--15646817 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 21
15646750 ATTTATTTGT
15646760 AATAATAATTCTTTTATGTTACC
1 AATAAT-ATT-TTTTATGTTACC
*
15646783 AA-AGATATTATTTATGTTA-C
1 AATA-ATATTTTTTATGTTACC
15646803 AATAATATTTTTTAT
1 AATAATATTTTTTAT
15646818 ACTTGTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 13 0.42
21 10 0.32
22 4 0.13
23 4 0.13
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
AATAATATTTTTTATGTTACC
Found at i:15646905 original size:220 final size:218
Alignment explanation
Indices: 15646495--15646905 Score: 483
Period size: 220 Copynumber: 1.9 Consensus size: 218
15646485 TTTCTCATTG
* *
15646495 TTTTATATTAACTCTTATTTTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTATATTA
1 TTTTATATTAACACTTATTTTTATTTAAAATTATTATTTATTTGTAATAATAATTTTTTATATTA
* * * *
15646560 CCGACTTAATTATTTACATTATAATAATATCTTTTTATATTTGTTGTTACTTTTCATTACGTTTA
66 CCAACATAATTATTTACATTACAATAATATCTTTTTATACTTGTTGTTACTTTTCATTACGTTTA
* * * * ***
15646625 ATATCATCATAACTTTTTCTTAAGGGTGTTACGACACTTCGAACTATTTTATGTCAAATGATATT
131 ATATAATCACAACTTTTTATTAAGGGTGTTACGACACTTCGAACGATTTTACACCAAATGATATT
15646690 AATTTTACTATTATTCTCACCTT
196 AATTTTACTATTATTCTCACCTT
* * * *
15646713 TTTTATATTATCACTTATTTTTTGGTTTAGAATTATTATTTATTTGTAATAATAATTCTTTTATG
1 TTTTATATTAACACTTA-TTTTT-ATTTAAAATTATTATTTATTTGTAATAATAATT-TTTTATA
* ** * *
15646778 TTACCAA-AGATATTATTTATGTTACAATAATAT-TTTTTATACTTGTT-TATACTTTTTATTAT
63 TTACCAACATA-ATTATTTACATTACAATAATATCTTTTTATACTTGTTGT-TACTTTTCATTAC
* * *
15646840 GTTTAGA-ATAATCACAACTTTTTATTAA-GTTGTTATGACACTTCTAATCCGA-TTTACACCAA
126 GTTTA-ATATAATCACAACTTTTTATTAAGGGTGTTACGACACTTCGAA--CGATTTTACACCAA
15646902 ATGA
188 ATGA
15646906 CACCATTTCA
Statistics
Matches: 160, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
218 15 0.09
219 22 0.14
220 89 0.56
221 34 0.21
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (218 bp):
TTTTATATTAACACTTATTTTTATTTAAAATTATTATTTATTTGTAATAATAATTTTTTATATTA
CCAACATAATTATTTACATTACAATAATATCTTTTTATACTTGTTGTTACTTTTCATTACGTTTA
ATATAATCACAACTTTTTATTAAGGGTGTTACGACACTTCGAACGATTTTACACCAAATGATATT
AATTTTACTATTATTCTCACCTT
Found at i:15647699 original size:127 final size:128
Alignment explanation
Indices: 15647437--15647710 Score: 286
Period size: 127 Copynumber: 2.1 Consensus size: 128
15647427 ACATAACTCT
* *
15647437 TAACTTTTTGTTTAAAATTATTTTTGTTTTTAATAATAGTTTTTTTTTTATATTACCAACTTAAT
1 TAACTTTTTGTTTAAAATCATTTTTGTTTTTAATAATAG-ATTTTTTTTATATTACCAACTTAAT
* * **
15647502 TATTTATGTTCTAATAATATCTTTTTATACTTATTATTACCTTTCATTATATTTAGAAGTATTA
65 TATTTATGTTATAATAATATCTTTTTATACTTATTATTACCTTTCATTACATTTAGAAGTACCA
* * **
15647566 TAACTTTTT-TTTAGAATCATTTTT-TATTTATAATAATA-ATTTTTTTTATGTTGTCAACTTAA
1 TAACTTTTTGTTTAAAATCATTTTTGT-TTT-TAATAATAGATTTTTTTTATATTACCAACTTAA
* * * ** * * * *
15647628 TTATTT-TCGTTATAATAATATCTTTTTCTGCTTGTTATTATTTTTTATTACGTTTAGGATTACC
64 TTATTTAT-GTTATAATAATATCTTTTTATACTTATTATTACCTTTCATTACATTTAGAAGTACC
15647692 A
128 A
* * *
15647693 TTACTTTTTCTTAAAAAT
1 TAACTTTTTGTTTAAAAT
15647711 GTTACAACAA
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
126 1 0.01
127 79 0.66
128 22 0.18
129 17 0.14
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.57
Consensus pattern (128 bp):
TAACTTTTTGTTTAAAATCATTTTTGTTTTTAATAATAGATTTTTTTTATATTACCAACTTAATT
ATTTATGTTATAATAATATCTTTTTATACTTATTATTACCTTTCATTACATTTAGAAGTACCA
Found at i:15656487 original size:174 final size:175
Alignment explanation
Indices: 15656150--15656521 Score: 496
Period size: 174 Copynumber: 2.1 Consensus size: 175
15656140 CGTGAATTAG
* *
15656150 AGAATAAAGAGACCGGGATTAAATCATGAATAAAAAAATGACGTTAACTTGGATTAAATCACAAG
1 AGAATAAAGAGATCGGGATTAAATCACGAATAAAAAAATGACGTTAACTTGGATTAAATCACAAG
* * *
15656215 TAAAAAAAATAAGAAGATCGAAAATAAATCACTAGTCAGAGGTTAACAACAACAATCGAGATTAA
66 TAAAAAAAATAAGAAGACCGAAAATAAACCACTAGTCAGAGGTTAACAACAACAATCGACATTAA
*
15656280 ACTACGATTTTAAATCAAAGAGATCGAGATTGAACCGTAAATCGA
131 ACTACGATTTTAAATCAAAGAGATCGAGATTGAACCGCAAATCGA
** * * * *
15656325 AGAATAAAGAGATCGGGATTAAATTGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCACAAG
1 AGAATAAAGAGATCGGGATTAAATCACGAATAAAAAAATGACGTTAACTTGGATTAAATCACAAG
* * * * * *
15656390 T-CAGAAAATAAGAAGACCGAGAATAAACCA-TGAGTCAGGGGTTAACAACGACAATCGACATTC
66 TAAAAAAAATAAGAAGACCGAAAATAAACCACT-AGTCAGAGGTTAACAACAACAATCGACATTA
* * * * *
15656453 AACTGCGGTTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGA
130 AACTACGATTTTAAATCAAAGAGATCGAGATTGAACCGCAAATCGA
* *
15656499 AGAATAAAAAGATCGAGATTAAA
1 AGAATAAAGAGATCGGGATTAAA
15656522 CCATGAGTCA
Statistics
Matches: 171, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
173 1 0.01
174 112 0.65
175 58 0.34
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (175 bp):
AGAATAAAGAGATCGGGATTAAATCACGAATAAAAAAATGACGTTAACTTGGATTAAATCACAAG
TAAAAAAAATAAGAAGACCGAAAATAAACCACTAGTCAGAGGTTAACAACAACAATCGACATTAA
ACTACGATTTTAAATCAAAGAGATCGAGATTGAACCGCAAATCGA
Found at i:15656558 original size:105 final size:105
Alignment explanation
Indices: 15656396--15657164 Score: 924
Period size: 105 Copynumber: 7.4 Consensus size: 105
15656386 CAAGTCAGAA
* * * * * ** * * * * * *
15656396 AATAAGAAGACCGAGAATAAACCATGAGTCAGGGGTTAACAACGACAATCGACATTCAACTGCGG
1 AATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACGA
15656461 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
66 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
* * * * **
15656501 AATAAAAAGATCGAGATTAAACCATGAGTCAGAAGATAACAACAACAATCAAGATTCAACTGTGA
1 AATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACGA
* * *
15656566 TTTTAAATTAAAGAGATCGGGGTTGAACTGCGAATCGAAT
66 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
* * **
15656606 AATTAAAAAGATCGGGATTAAACTACGAATCAGAAGATAACAACAACAATCGAGATTAAACTGTG
1 AA-TAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACG
*** *
15656671 ATTTTAAATTAAAGAGATCGGGATTGAACCATAAATCAAAG
65 ATTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
* * * *
15656712 AATAAAAAAATC-AGGATTAAATCACGAGTCAGAAGATAACAACAACAATCGAGATTAAATTACG
1 AATAAAAAGATCGA-GATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACG
*
15656776 ATTTTAAATTAAAGAGATCGGGATTGAACC-TGAATCGAAG
65 ATTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
* * *
15656816 AATTAAAAAGATCGAGATTAAACCACAAATCAAAAGATAATAACAACAATCGAGATTAAACTACG
1 AA-TAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACG
* * *
15656881 ATTTTAAATTAAAGAGATTGGGATTGAACCACGAATCAAAG
65 ATTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
** * * *
15656922 AATTAAAAAGATTAAAATTAAACCACGAATCAAAAGATAACAACAACAATCGAGATTAAACTATG
1 AA-TAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACG
* *
15656987 ATTTTAAATTAAA-AGATCGGGATTGAATCC-CGAATCAAAA
65 ATTTTAAATTAAAGAGATCGGGATTGAA-CCGCGAATCGAAG
* * * *
15657027 AATAAAAAGATCGGGATTAAATCACGAATCA-AA-A-AATAACAACAATGGAGATTAAACTACGA
1 AATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACGA
* * **
15657089 TTTTAAGTTAAAGAGATCGAGATTGAACCGTAAATCGAAG
66 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
*
15657129 AATAAAAAGATCGAGATTAAACCACGAGTCA-AAGAT
1 AATAAAAAGATCGAGATTAAACCACGAATCAGAAGAT
15657165 TAATGATAAC
Statistics
Matches: 582, Mismatches: 72, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
101 38 0.07
102 50 0.09
103 3 0.01
104 34 0.06
105 282 0.48
106 175 0.30
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (105 bp):
AATAAAAAGATCGAGATTAAACCACGAATCAGAAGATAACAACAACAATCGAGATTAAACTACGA
TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCGAAG
Found at i:15656796 original size:211 final size:209
Alignment explanation
Indices: 15656432--15657164 Score: 960
Period size: 211 Copynumber: 3.5 Consensus size: 209
15656422 AGTCAGGGGT
* * * * * * *
15656432 TAACAACGACAATCGACATTCAACTGCGGTTTTAAATTAAAGAGATCGGGATTGAACCGCGAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCACAAATC
* * * *
15656497 GAAGAATAAAAAGATCGAGATTAAACCATGAGTCAGAAGATAACAACAACAATCAAGATTCAACT
66 AAAGAATAAAAAGATCGAGATTAAACCACGAGTCAGAAGATAACAACAACAATCGAGATTAAACT
* * *
15656562 GTGATTTTAAATTAAAGAGATCGGGGTTGAACTGCGAATCGAATAATTAAAAAGATCGGGATTAA
131 ATGATTTTAAATTAAAGAGATCGGGATTGAACT-CGAATCGAAAAATTAAAAAGATCGGGATTAA
15656627 ACTACGAATCAGAAGA
195 ACTACGAATCA-AAGA
** *
15656643 TAACAACAACAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCGGGATTGAACCATAAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCACAAATC
* * *
15656708 AAAGAATAAAAAAATC-AGGATTAAATCACGAGTCAGAAGATAACAACAACAATCGAGATTAAAT
66 AAAGAATAAAAAGATCGA-GATTAAACCACGAGTCAGAAGATAACAACAACAATCGAGATTAAAC
* * *
15656772 TACGATTTTAAATTAAAGAGATCGGGATTGAAC-CTGAATCGAAGAATTAAAAAGATCGAGATTA
130 TATGATTTTAAATTAAAGAGATCGGGATTGAACTC-GAATCGAAAAATTAAAAAGATCGGGATTA
* *
15656836 AACCACAAATCAAAAGA
194 AACTACGAATC-AAAGA
* * *
15656853 TAATAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATTGGGATTGAACCACGAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCACAAATC
** * * *
15656918 AAAGAATTAAAAAGATTAAAATTAAACCACGAATCAAAAGATAACAACAACAATCGAGATTAAAC
66 AAAGAA-TAAAAAGATCGAGATTAAACCACGAGTCAGAAGATAACAACAACAATCGAGATTAAAC
* *
15656983 TATGATTTTAAATTAAA-AGATCGGGATTGAATCCCGAATC-AAAAAATAAAAAGATCGGGATTA
130 TATGATTTTAAATTAAAGAGATCGGGATTGAA-CTCGAATCGAAAAATTAAAAAGATCGGGATTA
15657046 AA-TCACGAATCAAA-A
194 AACT-ACGAATCAAAGA
* * * * **
15657061 -AATAACAACAATGGAGATTAAACTACGATTTTAAGTTAAAGAGATCGAGATTGAACCGTAAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCACAAATC
*
15657125 GAAGAATAAAAAGATCGAGATTAAACCACGAGTCA-AAGAT
66 AAAGAATAAAAAGATCGAGATTAAACCACGAGTCAGAAGAT
15657165 TAATGATAAC
Statistics
Matches: 461, Mismatches: 53, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
205 5 0.01
206 25 0.05
207 62 0.13
208 1 0.00
209 4 0.01
210 148 0.32
211 214 0.46
212 2 0.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (209 bp):
TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCACAAATC
AAAGAATAAAAAGATCGAGATTAAACCACGAGTCAGAAGATAACAACAACAATCGAGATTAAACT
ATGATTTTAAATTAAAGAGATCGGGATTGAACTCGAATCGAAAAATTAAAAAGATCGGGATTAAA
CTACGAATCAAAGA
Found at i:15656934 original size:35 final size:35
Alignment explanation
Indices: 15656782--15657167 Score: 174
Period size: 34 Copynumber: 11.2 Consensus size: 35
15656772 TACGATTTTA
* * * * *
15656782 AATTAAAGAGATCGGGATTGAACC-TGAATCGAAG
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
*
15656816 AATTAAAAAGATCGAGATTAAACCACAAATCAAAAG
1 AATTAAAAAGATCGAGATTAAACCACGAATC-AAAG
* * ***
15656852 ATAATAACAACA-ATCGAGATTAAACTACG-ATTTTA-
1 A-ATTAA-AA-AGATCGAGATTAAACCACGAATCAAAG
* * * *
15656887 AATTAAAGAGATTGGGATTGAACCACGAATCAAAG
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
** *
15656922 AATTAAAAAGATTAAAATTAAACCACGAATCAAA-
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
* * * * ***
15656956 AGATAACAACAACAATCGAGATTAAACTATG-ATTTTA-
1 A-ATTA-AA-AA-GATCGAGATTAAACCACGAATCAAAG
* *
15656993 AATT-AAAAGATCGGGATTGAATCC-CGAATCAAA-
1 AATTAAAAAGATCGAGATT-AAACCACGAATCAAAG
* * *
15657026 AAATAAAAAGATCGGGATTAAATCACGAATCAAA-
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
* * * * **
15657060 AAATAACAACA-ATGGAGATTAAACTACGATTTTAAG
1 AATTAA-AA-AGATCGAGATTAAACCACGAATCAAAG
* * *** *
15657096 --TTAAAGAGATCGAGATTGAACCGTAAATCGAAG
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
*
15657129 AA-TAAAAAGATCGAGATTAAACCACGAGTCAAAG
1 AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
15657163 -ATTAA
1 AATTAA
15657168 TGATAACTGG
Statistics
Matches: 256, Mismatches: 73, Indels: 46
0.68 0.19 0.12
Matches are distributed among these distances:
32 11 0.04
33 46 0.18
34 91 0.36
35 56 0.22
36 10 0.04
37 12 0.05
38 29 0.11
39 1 0.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.22
Consensus pattern (35 bp):
AATTAAAAAGATCGAGATTAAACCACGAATCAAAG
Found at i:15656952 original size:316 final size:313
Alignment explanation
Indices: 15656432--15657153 Score: 1018
Period size: 316 Copynumber: 2.3 Consensus size: 313
15656422 AGTCAGGGGT
* * * * * *
15656432 TAACAACGACAATCGACATTCAACTGCGGTTTTAAATTAAAGAGATCGGGATTGAACCGCGAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCGTGAATC
** * * *
15656497 GAAGAATAAAAAGATCGAGATTAAACCATGAGTCAGAAGATAACAACAACAATCAAGATTCAACT
66 GAAGAATAAAAAGATCGAGATTAAACCACAAATCAAAAGATAACAACAACAATCAAGATTAAACT
** * ** * * ***
15656562 GTGATTTTAAATTAAAGAGATCGGGGTTGAACTGCGAATCGAATAATTAAAAAGATCGGGATTAA
131 ACGATTTTAAATTAAAGAGATCGGGATTGAACCACGAATCAAAGAATTAAAAAGATCAAAATTAA
* * *
15656627 ACTACGAATCAGAAGATAACAACAACAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCGG
196 ACCACGAATCAAAAGATAACAACAACAATCGAGATTAAACTATGATTTTAAATTAAA-AGATCGG
* * *
15656692 GATTGAA-CCATAAATCAAAGAATAAAAAAATCAGGATTAAATCACGAGTCAGAAGA
260 GATTGAATCC-CAAATCAAAAAATAAAAAAATCAGGATTAAATCACGAATCA-AA-A
*
15656748 TAACAACAACAATCGAGATTAAATTACGATTTTAAATTAAAGAGATCGGGATTGAACC-TGAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCGTGAATC
* *
15656812 GAAGAATTAAAAAGATCGAGATTAAACCACAAATCAAAAGATAATAACAACAATCGAGATTAAAC
66 GAAGAA-TAAAAAGATCGAGATTAAACCACAAATCAAAAGATAACAACAACAATCAAGATTAAAC
* *
15656877 TACGATTTTAAATTAAAGAGATTGGGATTGAACCACGAATCAAAGAATTAAAAAGATTAAAATTA
130 TACGATTTTAAATTAAAGAGATCGGGATTGAACCACGAATCAAAGAATTAAAAAGATCAAAATTA
15656942 AACCACGAATCAAAAGATAACAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAGATCGG
195 AACCACGAATCAAAAGATAACAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAGATCGG
* * *
15657007 GATTGAATCCCGAATCAAAAAATAAAAAGATCGGGATTAAATCACGAATCAAAA
260 GATTGAATCCCAAATCAAAAAATAAAAAAATCAGGATTAAATCACGAATCAAAA
* * * * *
15657061 -AATAACAACAATGGAGATTAAACTACGATTTTAAGTTAAAGAGATCGAGATTGAACCGTAAATC
1 TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCGTGAATC
15657125 GAAGAATAAAAAGATCGAGATTAAACCAC
66 GAAGAATAAAAAGATCGAGATTAAACCAC
15657154 GAGTCAAAGA
Statistics
Matches: 362, Mismatches: 41, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
312 75 0.21
313 12 0.03
314 2 0.01
315 60 0.17
316 213 0.59
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.22
Consensus pattern (313 bp):
TAACAACAACAATCGAGATTAAACTACGATTTTAAATTAAAGAGATCGGGATTGAACCGTGAATC
GAAGAATAAAAAGATCGAGATTAAACCACAAATCAAAAGATAACAACAACAATCAAGATTAAACT
ACGATTTTAAATTAAAGAGATCGGGATTGAACCACGAATCAAAGAATTAAAAAGATCAAAATTAA
ACCACGAATCAAAAGATAACAACAACAATCGAGATTAAACTATGATTTTAAATTAAAAGATCGGG
ATTGAATCCCAAATCAAAAAATAAAAAAATCAGGATTAAATCACGAATCAAAA
Found at i:15657469 original size:109 final size:109
Alignment explanation
Indices: 15657143--15657520 Score: 533
Period size: 109 Copynumber: 3.5 Consensus size: 109
15657133 AAAAGATCGA
* * * *
15657143 GATTAAACCACGAGTCAAAGATTAATGATAACTGGGACTAAACCGCAAGTCAAAGAAATAAAAAC
1 GATTAAACCACGAATCAAAGATTAACGATAACTGGGACTGAACCGCAAGTCAAAGAAATAAAAGC
* * *
15657208 AACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGATCGG
66 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCAG
* * * * *
15657252 GATTAAACCACGAATCAAAGATTAACGATGA-TCAGGATTGAACCGTAAGTCAAAAAAAATAAAA
1 GATTAAACCACGAATCAAAGATTAACGATAACT-GGGACTGAACCGCAAGTC-AAAGAAATAAAA
* *
15657316 GCGACTAGGATTAAATCGTAAGTTGAAAAGCTATAAGAATGATCAG
64 GCGACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCAG
* * *
15657362 GATTAAACCACGAGTCAAAGATTAAAGATAACTGGGACTGAACCGTAAGTCAAAGAAATAAAAGC
1 GATTAAACCACGAATCAAAGATTAACGATAACTGGGACTGAACCGCAAGTCAAAGAAATAAAAGC
*
15657427 GACTAGGATTAAACCATAAGTCGAAAAGCTATAAGAATGATCAG
66 GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCAG
* ** *
15657471 GATTAAACCACGAATCAAATATTAACGACGACCGGGACTGAACCGCAAGT
1 GATTAAACCACGAATCAAAGATTAACGATAACTGGGACTGAACCGCAAGT
15657521 TAGGAAAATA
Statistics
Matches: 236, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
108 1 0.00
109 139 0.59
110 95 0.40
111 1 0.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (109 bp):
GATTAAACCACGAATCAAAGATTAACGATAACTGGGACTGAACCGCAAGTCAAAGAAATAAAAGC
GACTAGGATTAAACCGTAAGTCGAAAAGCTATAAGAATGATCAG
Found at i:15670344 original size:18 final size:19
Alignment explanation
Indices: 15670295--15670346 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
15670285 ATCATGCATA
*
15670295 AATATATAAAGAAAATACTT
1 AATATATAAA-AAAATACAT
15670315 AA-A-ATAACAAAAATA-AT
1 AATATATAA-AAAAATACAT
15670332 AATATATAAAAAAAT
1 AATATATAAAAAAAT
15670347 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 3 0.11
18 17 0.61
19 6 0.21
20 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
AATATATAAAAAAATACAT
Found at i:15671020 original size:21 final size:21
Alignment explanation
Indices: 15670996--15671046 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15670986 TTGGTAAGAT
* *
15670996 CTTTTTTTCTTTTGTATTTGA
1 CTTTTTTTCTTTTGAAATTGA
*
15671017 CTTTTTTTTTTTTGAAATTGA
1 CTTTTTTTCTTTTGAAATTGA
15671038 CTTTGTTTT
1 CTTT-TTTT
15671047 TTTCTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.71
Consensus pattern (21 bp):
CTTTTTTTCTTTTGAAATTGA
Found at i:15671421 original size:16 final size:15
Alignment explanation
Indices: 15671396--15671467 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 15
15671386 CCATCCTCGA
*
15671396 TTTTTCTTTTTTCT-G
1 TTTTT-TTTTTTTTGG
15671411 TTTTTTTTTTTTTGG
1 TTTTTTTTTTTTTGG
*
15671426 -TATTTTTTTTTT-G
1 TTTTTTTTTTTTTGG
15671439 TATTTTGTATTATTTTTGG
1 T-TTTT-T-TT-TTTTTGG
15671458 TATTTTTTTT
1 T-TTTTTTTT
15671468 GTATTTTGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
13 1 0.02
14 18 0.38
15 9 0.19
16 2 0.04
17 4 0.09
18 6 0.13
19 7 0.15
ACGTcount: A:0.07, C:0.03, G:0.10, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTTTTGG
Found at i:15671431 original size:12 final size:11
Alignment explanation
Indices: 15671416--15671474 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 11
15671406 TTCTGTTTTT
15671416 TTTTTTTTGGTA
1 TTTTTTTT-GTA
15671428 TTTTTTTT-T-
1 TTTTTTTTGTA
* *
15671437 TGTATTTTGTA
1 TTTTTTTTGTA
*
15671448 TTATTTTTGGTA
1 TT-TTTTTTGTA
15671460 TTTTTTTTGTA
1 TTTTTTTTGTA
15671471 TTTT
1 TTTT
15671475 GTATTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 6 0.16
10 2 0.05
11 13 0.34
12 17 0.45
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGTA
Found at i:15671431 original size:13 final size:13
Alignment explanation
Indices: 15671415--15671444 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15671405 TTTCTGTTTT
15671415 TTTTTTTTTGGTA
1 TTTTTTTTTGGTA
*
15671428 TTTTTTTTTTGTA
1 TTTTTTTTTGGTA
15671441 TTTT
1 TTTT
15671445 GTATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGGTA
Found at i:15671434 original size:20 final size:19
Alignment explanation
Indices: 15671411--15671474 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 19
15671401 CTTTTTTCTG
*
15671411 TTTTTTTTTTTTTGGTATT
1 TTTTTTTTTTTTTTGTATT
*
15671430 TTTTTTTTGTATTTTGTATT
1 TTTTTTTT-TTTTTTGTATT
15671450 ATTTTTGGTATTTTTTTTGTATT
1 -TTTTT--T-TTTTTTTTGTATT
15671473 TT
1 TT
15671475 GTATTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.22
20 9 0.24
21 5 0.14
22 2 0.05
23 11 0.30
24 2 0.05
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTTTTTGTATT
Found at i:15671468 original size:30 final size:31
Alignment explanation
Indices: 15671419--15671479 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
15671409 TGTTTTTTTT
15671419 TTTTTGGTATTTTTTTTTTGTATTTTGTATTA
1 TTTTTGGTA-TTTTTTTTTGTATTTTGTATTA
15671451 TTTTTGGTA-TTTTTTTTGTATTTTGTATT
1 TTTTTGGTATTTTTTTTTGTATTTTGTATT
15671480 TTATAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 20 0.69
32 9 0.31
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.75
Consensus pattern (31 bp):
TTTTTGGTATTTTTTTTTGTATTTTGTATTA
Found at i:15671489 original size:38 final size:37
Alignment explanation
Indices: 15671434--15671506 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
15671424 GGTATTTTTT
*
15671434 TTTTGTATTTTGTATTATT-TTTGGTATTTTTTTTGTA
1 TTTTGTATTTTATATTATTATTT-GTATTTTTTTTGTA
*
15671471 TTTTGTATTTTATAATTATTATTTTTATTTTTTTTG
1 TTTTGTATTTTAT-ATTATTATTTGTATTTTTTTTG
15671507 AGATAAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 12 0.38
38 17 0.53
39 3 0.09
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (37 bp):
TTTTGTATTTTATATTATTATTTGTATTTTTTTTGTA
Found at i:15671496 original size:30 final size:30
Alignment explanation
Indices: 15671430--15671496 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
15671420 TTTTGGTATT
* **
15671430 TTTTTTTTGTATTTTGTATTATTTTTGGTA
1 TTTTTTTTGTATTTTGTATTATTATAAGTA
*
15671460 TTTTTTTTGTATTTTGTATT-TTATAATTA
1 TTTTTTTTGTATTTTGTATTATTATAAGTA
*
15671489 TTATTTTT
1 TTTTTTTT
15671497 ATTTTTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (30 bp):
TTTTTTTTGTATTTTGTATTATTATAAGTA
Found at i:15675103 original size:2 final size:2
Alignment explanation
Indices: 15675096--15675128 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15675086 CTCAAGCCAG
15675096 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15675129 ACACACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15675133 original size:2 final size:2
Alignment explanation
Indices: 15675128--15675165 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15675118 CTCTCTCTCT
15675128 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15675166 TATAGAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15678078 original size:33 final size:33
Alignment explanation
Indices: 15678034--15678099 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
15678024 TTAACTATCA
* *
15678034 ATGGTTGATTGTACGGCGTATTATTTCATAGAC
1 ATGGTTAATTGTACGGAGTATTATTTCATAGAC
*
15678067 ATGGTTAATTGTATGGAGTATTATTTCATAGAC
1 ATGGTTAATTGTACGGAGTATTATTTCATAGAC
15678100 TTACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (33 bp):
ATGGTTAATTGTACGGAGTATTATTTCATAGAC
Found at i:15681131 original size:253 final size:253
Alignment explanation
Indices: 15680683--15681183 Score: 858
Period size: 253 Copynumber: 2.0 Consensus size: 253
15680673 ATAAAAGTCT
* *
15680683 TAAACAAACGTAAACAATGACAATATTTTGCCCTTTCACACTTATCAATCATGGAAACCAATAAT
1 TAAACAAACATAAACAATAACAATATTTTGCCCTTTCACACTTATCAATCATGGAAACCAATAAT
* **
15680748 CATTTGGATGAGTTTAATATTATGTATTGAAGTTATCCAAACTATTAAAACAAAATAATAACAGC
66 CATTTGGATAAGTTTAATATTATGTATTGAAACTATCCAAACTATTAAAACAAAATAATAACAGC
* *
15680813 AAATTTGTATTTTACCTTTTAATGGCACAAAAAGTCTTAAATAAAGGAAAATAGCAACTTTTTCA
131 AAATTTGTACTTTACCTTTTAACGGCACAAAAAGTCTTAAATAAAGGAAAATAGCAACTTTTTCA
* * * *
15680878 CTCATATTAACTGTGGAAACCAAATTCAATCATTCGAAGACATAAATGACAACAAACG
196 CACATATTAACTGTGAAAACCAAATTAAATCATTCGAAGACATAAACGACAACAAACG
*
15680936 TAAACAAACATAAACAATAACAGTATTTTGCCCTTTCACACTTATCAATCATGGAAACCAATAAT
1 TAAACAAACATAAACAATAACAATATTTTGCCCTTTCACACTTATCAATCATGGAAACCAATAAT
*
15681001 CATTTGGATAAGTTTAATATTATGTATTGAAACTATCCAAAGTATTAAAACAAAATAATAACAGC
66 CATTTGGATAAGTTTAATATTATGTATTGAAACTATCCAAACTATTAAAACAAAATAATAACAGC
15681066 AAATTTGTACTTTACCTTTTAACGGCACAAAAAGTCTTAAATAAAGGAAAATAGCAACTTTTTCA
131 AAATTTGTACTTTACCTTTTAACGGCACAAAAAGTCTTAAATAAAGGAAAATAGCAACTTTTTCA
* * *
15681131 CACATATTAACTGTGAAAATCAAGTTAAATCATTCGAAGACGTAAACGACAAC
196 CACATATTAACTGTGAAAACCAAATTAAATCATTCGAAGACATAAACGACAAC
15681184 TTTTTCACAC
Statistics
Matches: 232, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
253 232 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (253 bp):
TAAACAAACATAAACAATAACAATATTTTGCCCTTTCACACTTATCAATCATGGAAACCAATAAT
CATTTGGATAAGTTTAATATTATGTATTGAAACTATCCAAACTATTAAAACAAAATAATAACAGC
AAATTTGTACTTTACCTTTTAACGGCACAAAAAGTCTTAAATAAAGGAAAATAGCAACTTTTTCA
CACATATTAACTGTGAAAACCAAATTAAATCATTCGAAGACATAAACGACAACAAACG
Found at i:15687210 original size:161 final size:160
Alignment explanation
Indices: 15686644--15687817 Score: 1118
Period size: 161 Copynumber: 7.3 Consensus size: 160
15686634 AGGTGTAACA
* ** * *
15686644 ATATCAACTATGGAAACCAAGTTCGATTATTCA-AACATGTTTAATATCATATATTAAAGCTATC
1 ATATCAACTATAGAAACCAAGTTTAATTATTCAGAA-AAGTTTAATATCATGTATTAAA-CTATC
* * * *
15686708 CAAATTGTTAAAACAAAACAATAATAGCAAATTTGCA-TTTTGCCTTTTAACGGCACAAAAAGTC
64 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTC
* *
15686772 CTACATAGA-GCTAAACAATAACTTTTTCACAC
129 CTAAATAGACG-TAAACAACAACTTTTTCACAC
* *
15686804 ATATCAACTATAGAAACCAAATTTAATCATTCCA-AAAAGTTTAATATCATGTATTGAAACTATC
1 ATATCAACTATAGAAACCAAGTTTAATTATT-CAGAAAAGTTTAATATCATGTATT-AAACTATC
* * * ** * *
15686868 CAAATTGTTAAAATAGAATAATAATAGTAAATTTATATTTTTGTCTTTTAACGGCAAAAAAAGTT
64 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTC
* **
15686933 TTAAATAGACGTAAATGACAACTTTTT--CAC
129 CTAAATAGACGTAAACAACAACTTTTTCACAC
* * * ** * * **
15686963 ATATCAACTGTAGAAACCAAGTTCAATAATTTGGATAAGTTTAATATTATGTATTGAAGTTATCC
1 ATATCAACTATAGAAACCAAGTTTAATTATTCAGAAAAGTTTAATATCATGTATT-AAACTATCC
* * * * * *
15687028 AAACTATTAAAACAAAACAATAATAGCAACTTTGCATTTTTGCCTTTTAAAGGCATAAAAAGTCC
65 AAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTCC
* **** *
15687093 TAAATAGACATAAATGTTAGCTTTTTCACAC
130 TAAATAGACGTAAACAACAACTTTTTCACAC
* * ** *
15687124 ATATCAACTGT-GAAAACCAATTTTAATTATTTTGATAAGTTTAATATCATGTATTAAAGCTATC
1 ATATCAACTATAG-AAACCAAGTTTAATTATTCAGAAAAGTTTAATATCATGTATTAAA-CTATC
* * *
15687188 CAAACTGTTAAAATAGAACAATAAAAGTAAATTTGCA-TTTTGCCTTTTAATGGCAAAAAAAGTC
64 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTC
* *
15687252 CTAAATAGATGTAAACAACAATTTTTTCACAC
129 CTAAATAGACGTAAACAACAACTTTTTCACAC
15687284 ATATCAA-TCATAGAAACCAAGTTTAATTATTCA-AACAAGTTTAATATCATGTATTGAAACTAT
1 ATATCAACT-ATAGAAACCAAGTTTAATTATTCAGAA-AAGTTTAATATCATGTATT-AAACTAT
* * * * * ** *
15687347 CAAAATTGTTAAAATAGAACAATAACTA-TAAATTTGTATTTTTGCCTTTTAATGGCACGAAGAG
63 CCAAACTGTTAAAATAGAACAATAA-TAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAG
* * * * *
15687411 TCCTAAACAGACATAAATAGCAACTTTTTTCACAT
127 TCCTAAATAGACGTAAACAACAAC-TTTTTCACAC
* * * * *
15687446 ATATCAACAATGGAAACCAAGTTCAATCATTC-GAAAAAGTTTAATATCATGTATTGAAACAATC
1 ATATCAACTATAGAAACCAAGTTTAATTATTCAG-AAAAGTTTAATATCATGTATT-AAACTATC
* * * * * * * * *
15687510 AAAACTATTAAAATAGAATAATGATAGCAATTTTGTATTTTTTCCTTTCAACGGTAAAAAAAGTC
64 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTC
* *
15687575 CTAAATAGATGTAAACAATAACTTTTTCACAC
129 CTAAATAGACGTAAACAACAACTTTTTCACAC
* * *
15687607 ATATCAACTGTAGAAACCAAGTTTAATTATTCAGACAAGTTTAATATCATGTATTAAAACTATCA
1 ATATCAACTATAGAAACCAAGTTTAATTATTCAGAAAAGTTTAATATCATGTATT-AAACTATCC
* * * ** ** * *
15687672 AAACCGTTAAAATAGAATAATAACT-GTAAATTTATATTTTTATCTTTTAACAGCACAAAAAGTC
65 AAACTGTTAAAATAGAACAATAA-TAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTC
* * *** * * *
15687736 TTAAACAGACGTAAATTGCAACTTTTTTATAT
129 CTAAATAGACGTAAACAACAACTTTTTCACAC
* * *
15687768 ATATCAACAATGGAAACTAAG-TTAATATATTCA-AATAAGTTTAATATCAT
1 ATATCAACTATAGAAACCAAGTTTAAT-TATTCAGAA-AAGTTTAATATCAT
15687818 AGACTTACTT
Statistics
Matches: 839, Mismatches: 151, Indels: 47
0.81 0.15 0.05
Matches are distributed among these distances:
159 132 0.16
160 217 0.26
161 357 0.43
162 131 0.16
163 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (160 bp):
ATATCAACTATAGAAACCAAGTTTAATTATTCAGAAAAGTTTAATATCATGTATTAAACTATCCA
AACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGGCAAAAAAAGTCCT
AAATAGACGTAAACAACAACTTTTTCACAC
Found at i:15688918 original size:13 final size:13
Alignment explanation
Indices: 15688897--15688932 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
15688887 ATAAAAGTGA
15688897 ATATATAAAAAAC
1 ATATATAAAAAAC
*
15688910 ATATGTAAAAAAC
1 ATATATAAAAAAC
*
15688923 ATAAATAAAA
1 ATATATAAAA
15688933 CATTAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (13 bp):
ATATATAAAAAAC
Found at i:15693203 original size:26 final size:26
Alignment explanation
Indices: 15693174--15693223 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15693164 AGGATATATA
* *
15693174 TCCAGAGAAAAATATTTAATGCTATG
1 TCCAAAGAAAAATATCTAATGCTATG
*
15693200 TCCAAAGAAAATTATCTAATGCTA
1 TCCAAAGAAAAATATCTAATGCTA
15693224 ATATGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (26 bp):
TCCAAAGAAAAATATCTAATGCTATG
Found at i:15693768 original size:18 final size:17
Alignment explanation
Indices: 15693747--15693885 Score: 108
Period size: 18 Copynumber: 8.1 Consensus size: 17
15693737 TATTAAAAAT
*
15693747 TATTTATTATTATAATA
1 TATTTATTAATATAATA
*
15693764 GTATTTATTAATATATTA
1 -TATTTATTAATATAATA
**
15693782 TAATATTATTTCT-TAATA
1 T-AT-TTATTAATATAATA
*
15693800 TTATTTATTAATATATTA
1 -TATTTATTAATATAATA
* *
15693818 TA-TTAATAGTAT-AT-
1 TATTTATTAATATAATA
* *
15693832 TATTTATTCACATAATA
1 TATTTATTAATATAATA
15693849 TTATTTATTAATATAATA
1 -TATTTATTAATATAATA
15693867 TTATTTATTAAT-TAATA
1 -TATTTATTAATATAATA
15693884 TA
1 TA
15693886 ATATTATTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
14 2 0.02
15 7 0.07
16 12 0.12
17 14 0.15
18 54 0.56
19 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (17 bp):
TATTTATTAATATAATA
Found at i:15693800 original size:13 final size:13
Alignment explanation
Indices: 15693751--15693896 Score: 100
Period size: 13 Copynumber: 11.8 Consensus size: 13
15693741 AAAAATTATT
15693751 TATTA-TTA-TAA
1 TATTATTTATTAA
*
15693762 TAGTATTTATTAA
1 TATTATTTATTAA
15693775 TA-TA-TTA-TAA
1 TATTATTTATTAA
*
15693785 TATTATTTCTTAA
1 TATTATTTATTAA
15693798 TATTATTTATTAA
1 TATTATTTATTAA
15693811 TA-TATTATATTAA
1 TATTATT-TATTAA
*
15693824 TAGTA--TATT-A
1 TATTATTTATTAA
* *
15693834 T-TTATTCACATAA
1 TATTATTTA-TTAA
15693847 TATTATTTATTAA
1 TATTATTTATTAA
*
15693860 TATAATATTATT--
1 TATTAT-TTATTAA
*
15693872 TATTAATTAATATAA
1 TATT-ATTTAT-TAA
15693887 TATTATTTAT
1 TATTATTTAT
15693897 AAGTAAAATT
Statistics
Matches: 106, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
9 2 0.02
10 7 0.07
11 14 0.13
12 18 0.17
13 43 0.41
14 18 0.17
15 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (13 bp):
TATTATTTATTAA
Found at i:15693806 original size:36 final size:36
Alignment explanation
Indices: 15693789--15693896 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 36
15693779 TTATAATATT
*
15693789 ATTTCTTAATATTATTTATTAATAT-AT-T-ATATT
1 ATTTATTAATATTATTTATTAATATAATATAATATT
* * * * *
15693822 A-ATAGT-ATATTATTTATTCACATAATATTAT-TT
1 ATTTATTAATATTATTTATTAATATAATATAATATT
*
15693855 ATTAATATAATATTATTTATTAAT-TAATATAATATT
1 ATTTAT-TAATATTATTTATTAATATAATATAATATT
15693891 ATTTAT
1 ATTTAT
15693897 AAGTAAAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
31 15 0.27
32 4 0.07
33 5 0.09
34 3 0.05
35 9 0.16
36 20 0.36
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (36 bp):
ATTTATTAATATTATTTATTAATATAATATAATATT
Found at i:15693907 original size:27 final size:22
Alignment explanation
Indices: 15693795--15693896 Score: 95
Period size: 22 Copynumber: 4.6 Consensus size: 22
15693785 TATTATTTCT
15693795 TAATATTATTTATTAATATATTATA
1 TAATATTATTTATTAAT-TA--ATA
* * * *
15693820 TTAATAGTATATTATTTATTCACA
1 -TAATATTAT-TTATTAATTAATA
15693844 TAATATTA--T-TT-ATTAATA
1 TAATATTATTTATTAATTAATA
15693862 TAATATTATTTATTAATTAATA
1 TAATATTATTTATTAATTAATA
15693884 TAATATTATTTAT
1 TAATATTATTTAT
15693897 AAGTAAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
18 13 0.20
19 2 0.03
20 2 0.03
21 2 0.03
22 20 0.31
23 7 0.11
24 2 0.03
26 9 0.14
27 7 0.11
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
TAATATTATTTATTAATTAATA
Found at i:15694518 original size:20 final size:20
Alignment explanation
Indices: 15694495--15694542 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15694485 TTGAAGTGGA
15694495 GTTGACTTTGCAGATGCGAT
1 GTTGACTTTGCAGATGCGAT
* *
15694515 GTTGACTTTGCATATGTGAT
1 GTTGACTTTGCAGATGCGAT
*
15694535 ATTGACTT
1 GTTGACTT
15694543 GTTGATGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (20 bp):
GTTGACTTTGCAGATGCGAT
Found at i:15698785 original size:13 final size:13
Alignment explanation
Indices: 15698762--15698793 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
15698752 CAATACTTCA
15698762 AAATAAGGAAAAAG
1 AAAT-AGGAAAAAG
15698776 AAATAGGAAAAAG
1 AAATAGGAAAAAG
15698789 AAATA
1 AAATA
15698794 CTCTCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (13 bp):
AAATAGGAAAAAG
Found at i:15710939 original size:199 final size:203
Alignment explanation
Indices: 15710583--15710982 Score: 531
Period size: 199 Copynumber: 2.0 Consensus size: 203
15710573 TGAATCTAAG
* * * * *
15710583 GTGACAATAAAATTAAATGGCACGTTATGCTTTATTTTTTAATGACGTTAGGTTTCGTCAACTAT
1 GTGACAATAAAATCAAATAGCACGTTATACTTTATTTTTTAATGACATTAGGTTTCGCCAACTAT
* * *
15710648 ATATGAAAAAAAAAGTCATTAAATGCCATAATCGTCGCAAAATAAATGATAAAATCTAATATATT
66 ATATG-AAAAAAAAGTCATTAAATGCCATAATCATCACAAAATAAATGATAAAATCTAATATATA
* * * * ** * *
15710713 AGTAAGAAAAGGTAAATAATCATAGTATTGGTGACATAATTAATGTCACTTATGATTGTAAGATA
130 AATAACAAAAGGTAAATAATAATAGTATTGGTGACACAATTAACATCACCTATGATTATAAGATA
15710778 ACGTCAAAC
195 ACGTCAAAC
* * *
15710787 GTGACAATAAAATCAAATATCACTTTATACTTT-TTTTTT-ATGACATTAGGTTTTGCCAACTAT
1 GTGACAATAAAATCAAATAGCACGTTATACTTTATTTTTTAATGACATTAGGTTTCGCCAACTAT
* *
15710850 ATATG-AAAAAAA-TCATTAAATGCTATAATCATCACAAAATAAATGATAAAATCTCATATATAA
66 ATATGAAAAAAAAGTCATTAAATGCCATAATCATCACAAAATAAATGATAAAATCTAATATATAA
** *
15710913 ATAAC-AAAGAGTAAATCTTAATAGTATTGGTGATACAATTAACATCACCTATGATTATAAGATA
131 ATAACAAAAG-GTAAATAATAATAGTATTGGTGACACAATTAACATCACCTATGATTATAAGATA
15710977 ACGTCA
195 ACGTCA
15710983 TAAAAAATTT
Statistics
Matches: 171, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
198 4 0.02
199 100 0.58
200 7 0.04
202 26 0.15
203 6 0.04
204 28 0.16
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (203 bp):
GTGACAATAAAATCAAATAGCACGTTATACTTTATTTTTTAATGACATTAGGTTTCGCCAACTAT
ATATGAAAAAAAAGTCATTAAATGCCATAATCATCACAAAATAAATGATAAAATCTAATATATAA
ATAACAAAAGGTAAATAATAATAGTATTGGTGACACAATTAACATCACCTATGATTATAAGATAA
CGTCAAAC
Found at i:15714840 original size:110 final size:108
Alignment explanation
Indices: 15714691--15714887 Score: 277
Period size: 110 Copynumber: 1.8 Consensus size: 108
15714681 GTCTTTACTT
* * * *
15714691 ATATTAAATTGTATAATGTACCCAGGATTCTTGATTAATTGTACCATGGTATGGTTTTTACGACT
1 ATATAAAATTATATAATGTACCCAGGATCCTTGATTAATTGTACCATGGTATGGCTTTTACGA-T
* *
15714756 TTTGTATTTTTTTATTAGGAATGAAGCCATTTGCTATCTGTATGG
65 ATTAT-TTTTTTTATTAGGAATGAAGCCATTTGCTATCTGTATGG
* * * * *
15714801 ATATAAAATTATATGATGTACTCAGGATCCTTGATTAATTGTACCATGTTTTGGCTTTTATGATA
1 ATATAAAATTATATAATGTACCCAGGATCCTTGATTAATTGTACCATGGTATGGCTTTTACGATA
15714866 TTATTTTTTTTATTAGGAATGA
66 TTATTTTTTTTATTAGGAATGA
15714888 TGAAGCCCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
108 18 0.24
109 4 0.05
110 54 0.71
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (108 bp):
ATATAAAATTATATAATGTACCCAGGATCCTTGATTAATTGTACCATGGTATGGCTTTTACGATA
TTATTTTTTTTATTAGGAATGAAGCCATTTGCTATCTGTATGG
Found at i:15716118 original size:24 final size:24
Alignment explanation
Indices: 15716091--15716145 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
15716081 ATCAAATTTT
15716091 CTTCTTCCCTACAATCTTCAAGTC
1 CTTCTTCCCTACAATCTTCAAGTC
15716115 CTTCTTCCCTACAATCTTCAAGTC
1 CTTCTTCCCTACAATCTTCAAGTC
15716139 CTTCTTC
1 CTTCTTC
15716146 ACCATCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.40
Consensus pattern (24 bp):
CTTCTTCCCTACAATCTTCAAGTC
Found at i:15724250 original size:235 final size:235
Alignment explanation
Indices: 15723826--15724252 Score: 608
Period size: 235 Copynumber: 1.8 Consensus size: 235
15723816 TAACGTGACG
* * * * *
15723826 ATACATTGACATGATAAAATTGCAATGTTATTAATAGTTAACTAAAATGTTCGATTTGTGACAAA
1 ATACATTGACATGATAAAATTGCAAAGTCACTAATAGTTAACTAAAATGTTCAATTTGTGAAAAA
* *
15723891 AATTAATAAAGTCACCTAAAATCTATAAAAAAAATTGGTCACAAATAAAATTTTAAATTGGTGAC
66 AATTAAGAAAGTCACCCAAAATCTATAAAAAAAATTGGTCACAAATAAAATTTTAAATTGGTGAC
* * **
15723956 AAAATTATAATGTCATTTAAAATCCAAAATGTCACAAAAAAATTTCTCACCAAATAAATTTGATG
131 AAAATTATAACGTCACTTAAAATCCAAAACATCACAAAAAAATTTCTCACCAAATAAATTTGATG
15724021 ATAAAAGTTTATAACATTTATGTTATACTCGTATAACACC
196 ATAAAAGTTTATAACATTTATGTTATACTCGTATAACACC
** * *
15724061 ATACATTGATGTGATGAAATTGCAAAGTCACTAATAGTTAACTAAAGTGTTCAATTTGT-AAAAC
1 ATACATTGACATGATAAAATTGCAAAGTCACTAATAGTTAACTAAAATGTTCAATTTGTGAAAA-
* * * * *
15724125 AAATTAAGAACA-TCACCCAAAATCTATTAAAAGAATTTGTCACAGATAAAATTTTTAATTGGTG
65 AAATTAAGAA-AGTCACCCAAAATCTATAAAAAAAATTGGTCACAAATAAAATTTTAAATTGGTG
* *
15724189 ACAAAATTATAACGTCACTTAAAATCCAAAACATCACAAAAAAATTT-TCCACTATATAAATTTG
129 ACAAAATTATAACGTCACTTAAAATCCAAAACATCACAAAAAAATTTCT-CACCAAATAAATTTG
15724253 GCAGTAAAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
234 4 0.02
235 162 0.97
236 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (235 bp):
ATACATTGACATGATAAAATTGCAAAGTCACTAATAGTTAACTAAAATGTTCAATTTGTGAAAAA
AATTAAGAAAGTCACCCAAAATCTATAAAAAAAATTGGTCACAAATAAAATTTTAAATTGGTGAC
AAAATTATAACGTCACTTAAAATCCAAAACATCACAAAAAAATTTCTCACCAAATAAATTTGATG
ATAAAAGTTTATAACATTTATGTTATACTCGTATAACACC
Found at i:15726063 original size:12 final size:12
Alignment explanation
Indices: 15726046--15726086 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
15726036 GTTACATTAC
*
15726046 TTTTGTTACTAT
1 TTTTGTTGCTAT
*
15726058 TTTTGTTGCAAT
1 TTTTGTTGCTAT
15726070 TTTTGCTTGCTAT
1 TTTTG-TTGCTAT
15726083 TTTT
1 TTTT
15726087 AATTCTTAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.66
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:15727903 original size:69 final size:69
Alignment explanation
Indices: 15727787--15727925 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
15727777 ATTGGTCCTA
* *
15727787 ATCAAGAAGACTTTAAGCTTTATAGTTCACCCATGTTATTTCCTCAGTTCTTTGAGATTCCATTG
1 ATCAAGAAAACTTTAAGCCTTATAGTTCACCCATGTTATTTCCTCAGTTCTTTGAGATTCCATTG
15727852 TATG
66 TATG
**
15727856 ATCAAGAAAACTTTAAGCCTTATAGTTCACCCATGTTATTTTTTCAGTTCTTTGAGATTCCATTG
1 ATCAAGAAAACTTTAAGCCTTATAGTTCACCCATGTTATTTCCTCAGTTCTTTGAGATTCCATTG
15727921 TATG
66 TATG
15727925 A
1 A
15727926 CTTGGAAGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (69 bp):
ATCAAGAAAACTTTAAGCCTTATAGTTCACCCATGTTATTTCCTCAGTTCTTTGAGATTCCATTG
TATG
Found at i:15729180 original size:14 final size:14
Alignment explanation
Indices: 15729161--15729207 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
15729151 TATTAGAATG
15729161 GAAAAAAAAAGAAA
1 GAAAAAAAAAGAAA
***
15729175 GAAAAAATTTGAAA
1 GAAAAAAAAAGAAA
*
15729189 -AAAAAAAGAGAAA
1 GAAAAAAAAAGAAA
15729202 GAAAAA
1 GAAAAA
15729208 GTCAAGCTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
GAAAAAAAAAGAAA
Found at i:15737245 original size:16 final size:18
Alignment explanation
Indices: 15737210--15737257 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
15737200 TTTTGGTCAA
15737210 TTTTTTTC-TTCTTTAGT
1 TTTTTTTCGTTCTTTAGT
15737227 TTTTTTTCGTT-TTTA-T
1 TTTTTTTCGTTCTTTAGT
*
15737243 TTTGTTTCGATTCTT
1 TTTTTTTCG-TTCTT
15737258 CTTCTCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.33
17 14 0.52
18 4 0.15
ACGTcount: A:0.06, C:0.10, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTTTTCGTTCTTTAGT
Found at i:15738157 original size:11 final size:11
Alignment explanation
Indices: 15738127--15738157 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15738117 CTGTCATTTC
15738127 ATTTTTTTTAT
1 ATTTTTTTTAT
*
15738138 ATATTTTTTAT
1 ATTTTTTTTAT
15738149 ATTTTTTTT
1 ATTTTTTTT
15738158 GGTTCTGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTAT
Found at i:15738905 original size:32 final size:33
Alignment explanation
Indices: 15738827--15738981 Score: 124
Period size: 32 Copynumber: 4.8 Consensus size: 33
15738817 AAACCTAGAT
* **
15738827 GCCAGCTAAACTAGGCATAAATTTTCA--TCAA
1 GCCAGCTAAACTAGGCTTAAATTTTCATTTGGA
* * *
15738858 TGCGAACTAAACTAGGCTTAAATTTT-A-TTGGTT
1 -GCCAGCTAAACTAGGCTTAAATTTTCATTTGG-A
* *
15738891 GCTAGCTAAGCTAGGCTTAAATTTTCATTTGGA
1 GCCAGCTAAACTAGGCTTAAATTTTCATTTGGA
**
15738924 GCCAGCTAAACTAGGCTTAAAACTTCA-TT-GA
1 GCCAGCTAAACTAGGCTTAAATTTTCATTTGGA
* * *
15738955 TGTCAGCTAGACTAGTCTTAAATTTTC
1 -GCCAGCTAAACTAGGCTTAAATTTTC
15738982 CTTGGGAACT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
31 3 0.03
32 68 0.69
33 24 0.24
34 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (33 bp):
GCCAGCTAAACTAGGCTTAAATTTTCATTTGGA
Found at i:15739261 original size:22 final size:23
Alignment explanation
Indices: 15739216--15739263 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
15739206 ATGGTTTCTC
15739216 AATGCCTACTAATACTAGGCTTA
1 AATGCCTACTAATACTAGGCTTA
*
15739239 AATGCC-AGCTAA-ACTTGGCTTA
1 AATGCCTA-CTAATACTAGGCTTA
15739261 AAT
1 AAT
15739264 TTCATTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (23 bp):
AATGCCTACTAATACTAGGCTTA
Found at i:15739453 original size:32 final size:32
Alignment explanation
Indices: 15739243--15739580 Score: 111
Period size: 32 Copynumber: 10.5 Consensus size: 32
15739233 GGCTTAAATG
* *
15739243 CCAGCTAAACTTGGCTT-AAATTTCATTGGGTG
1 CCAGCTAAACTAGGCTTAAAATTTCATT-GGTA
* * *
15739275 CCAGATAATCTAAGCTT-AAATTTCATTTAGTGT-
1 CCAGCTAAACTAGGCTTAAAATTTCA-TT-G-GTA
* * *
15739308 CC-GATAATCTAGGCTTAAAACTT-ATTTGGT-
1 CCAGCTAAACTAGGCTTAAAATTTCA-TTGGTA
* * * *
15739338 CTTAGCTAATA-TGGGCTTTAAA--CCATTGGGTA
1 C-CAGCTAA-ACTAGGCTTAAAATTTCATT-GGTA
** * * *
15739370 CCAGCTAAGTTAGGCTTAAATTTTCATTAGTG
1 CCAGCTAAACTAGGCTTAAAATTTCATTGGTA
* * ** * * *
15739402 CTAGATAATTTGGGCTTAAATTTTCATTGGTG
1 CCAGCTAAACTAGGCTTAAAATTTCATTGGTA
* *
15739434 CCAGCTAAACTAGGTTTAAAATTTCATAGGATA
1 CCAGCTAAACTAGGCTTAAAATTTCATTGG-TA
*
15739467 CCAGGC-AAACTAGGCTTAAAATTTCATAGGATA
1 CCA-GCTAAACTAGGCTTAAAATTTCATTGG-TA
* ** * * * * *
15739500 ACAAATCAACTGGGCTTAAATTTTCAATGGTG
1 CCAGCTAAACTAGGCTTAAAATTTCATTGGTA
* * * * * * *
15739532 CTAACCAAACTGGGTTTAAAAATTCATTGCTA
1 CCAGCTAAACTAGGCTTAAAATTTCATTGGTA
* *
15739564 CTAGCTAATCTAGGCTT
1 CCAGCTAAACTAGGCTT
15739581 GAATTTTTTT
Statistics
Matches: 230, Mismatches: 61, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
30 5 0.02
31 19 0.08
32 137 0.60
33 65 0.28
34 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (32 bp):
CCAGCTAAACTAGGCTTAAAATTTCATTGGTA
Found at i:15739516 original size:33 final size:33
Alignment explanation
Indices: 15739440--15739525 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
15739430 GGTGCCAGCT
* * *
15739440 AAACTAGGTTTAAAATTTCATAGGATACCAGGC
1 AAACTAGGCTTAAAATTTCATAGGATACAAAGC
*
15739473 AAACTAGGCTTAAAATTTCATAGGATAACAAATC
1 AAACTAGGCTTAAAATTTCATAGGAT-ACAAAGC
* *
15739507 -AACTGGGCTTAAATTTTCA
1 AAACTAGGCTTAAAATTTCA
15739526 ATGGTGCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 42 0.91
34 4 0.09
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
AAACTAGGCTTAAAATTTCATAGGATACAAAGC
Found at i:15740472 original size:13 final size:12
Alignment explanation
Indices: 15740454--15740540 Score: 63
Period size: 13 Copynumber: 6.9 Consensus size: 12
15740444 TCCTTTTTAT
15740454 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
15740467 TTTTCTTTTTTC
1 TTTTCTTTTTTC
* *
15740479 TTTCACTTTATTC
1 TTT-TCTTTTTTC
*
15740492 TTTTCTCTTTATTT
1 TTTTCT-TTT-TTC
15740506 TTATTC-TTTTTC
1 TT-TTCTTTTTTC
15740518 -TTTCTTTTTATTC
1 TTTTC-TTTT-TTC
15740531 TTTT-TTTTTT
1 TTTTCTTTTTT
15740541 GCCTCATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
10 3 0.05
11 3 0.05
12 18 0.30
13 26 0.43
14 7 0.12
15 3 0.05
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:15740474 original size:25 final size:25
Alignment explanation
Indices: 15740430--15740529 Score: 82
Period size: 25 Copynumber: 4.0 Consensus size: 25
15740420 CATTCATTTG
*
15740430 TTTCATTTCTTTC-TTCCTTTTTATT
1 TTTC-TTTCTTTCTTTTCTTTTTATT
15740455 TTTCTTTCTTTCTTTTCTTTTT-TCT
1 TTTCTTTCTTTCTTTTCTTTTTAT-T
* * *
15740480 TTCACTTT-ATTCTTTTCTCTTTATT
1 TT-TCTTTCTTTCTTTTCTTTTTATT
* *
15740505 TTT-ATTCTTTTTCTTTCTTTTTATT
1 TTTCTTTCTTTCT-TTTCTTTTTATT
15740530 CTTTTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.03
24 12 0.20
25 41 0.68
26 5 0.08
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTTTCTTTCTTTTCTTTTTATT
Found at i:15740475 original size:19 final size:18
Alignment explanation
Indices: 15740435--15740535 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 18
15740425 ATTTGTTTCA
*
15740435 TTTCTTTCTTCCTTTTTATT
1 TTTCTTTCTT--TTTTTCTT
15740455 TTTCTTTCTTTCTTTTCTTT
1 TTTCTTTCTTT-TTTTC-TT
* *
15740475 TTTCTTTCACTTTATTCTT
1 TTTCTTTC-TTTTTTTCTT
*
15740494 TTCTCTTTATTTTTATTCTT
1 TT-TCTTTCTTTTT-TTCTT
15740514 TTTCTTTCTTTTTATTCTT
1 TTTCTTTCTTTTT-TTCTT
15740533 TTT
1 TTT
15740536 TTTTTGCCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.01
19 30 0.43
20 36 0.52
21 2 0.03
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTTTTTCTT
Found at i:15740528 original size:39 final size:39
Alignment explanation
Indices: 15740435--15740535 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
15740425 ATTTGTTTCA
* *
15740435 TTTCTTTCTTCCTTT-TTATTTTTCTTTCTTTCTTTTCTTT
1 TTTCTTTCTT--TTTATTCTTTTTCTTTATTTCTTTTCTTT
**
15740475 TTTCTTTCACTTTATTCTTTTCTCTTTATTT-TTATTC-TT
1 TTTCTTTCTTTTTATTCTTTT-TCTTTATTTCTT-TTCTTT
15740514 TTTCTTTCTTTTTATTCTTTTT
1 TTTCTTTCTTTTTATTCTTTTT
15740536 TTTTTGCCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.08
39 29 0.56
40 19 0.37
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (39 bp):
TTTCTTTCTTTTTATTCTTTTTCTTTATTTCTTTTCTTT
Found at i:15740540 original size:25 final size:25
Alignment explanation
Indices: 15740447--15740540 Score: 75
Period size: 30 Copynumber: 3.6 Consensus size: 25
15740437 TCTTTCTTCC
15740447 TTTTTATTTTTCTTTCTTTCTTTTCT-
1 TTTTTATTTTT-TTTCTTTCTTTT-TA
* *
15740473 TTTTTCTTTCACTTTATTCTTTTCTCTTTA
1 TTTTTATTT---TTT-TTC-TTTCTTTTTA
*
15740503 TTTTTATTCTTTTTCTTTCTTTTTA
1 TTTTTATTTTTTTTCTTTCTTTTTA
*
15740528 TTCTT-TTTTTTTT
1 TTTTTATTTTTTTT
15740541 GCCTCATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
24 7 0.13
25 13 0.24
26 11 0.20
27 3 0.05
28 1 0.02
29 6 0.11
30 14 0.25
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTATTTTTTTTCTTTCTTTTTA
Found at i:15744972 original size:25 final size:25
Alignment explanation
Indices: 15744938--15744987 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
15744928 GTACACTATT
15744938 ACCTTAAGCAAAAATTGCATCATAA
1 ACCTTAAGCAAAAATTGCATCATAA
*
15744963 ACCTTAAGCACAAATTGCATCATAA
1 ACCTTAAGCAAAAATTGCATCATAA
15744988 TGCCTCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (25 bp):
ACCTTAAGCAAAAATTGCATCATAA
Found at i:15746960 original size:13 final size:13
Alignment explanation
Indices: 15746920--15746962 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
15746910 GGGTTTCACC
*
15746920 TAGGATTTCATTT
1 TAGGGTTTCATTT
*
15746933 TAGGGCTTT-AGTT
1 TAGGG-TTTCATTT
15746946 TAGGGTTTCATTT
1 TAGGGTTTCATTT
15746959 TAGG
1 TAGG
15746963 ATTTAGGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.49
Consensus pattern (13 bp):
TAGGGTTTCATTT
Found at i:15746969 original size:20 final size:20
Alignment explanation
Indices: 15746944--15747026 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
15746934 AGGGCTTTAG
*
15746944 TTTAGGGTTTCATTTTAGGA
1 TTTAGGGTTTCAATTTAGGA
* * *
15746964 TTTAGGATTT-TATTTAGGG
1 TTTAGGGTTTCAATTTAGGA
*** *
15746983 TTTTCAGTTTTAATTTAGGA
1 TTTAGGGTTTCAATTTAGGA
15747003 TTTAGGGTTTCAATTTAGGA
1 TTTAGGGTTTCAATTTAGGA
15747023 TTTA
1 TTTA
15747027 CAAATCTCCC
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
19 12 0.25
20 36 0.75
ACGTcount: A:0.23, C:0.04, G:0.22, T:0.52
Consensus pattern (20 bp):
TTTAGGGTTTCAATTTAGGA
Found at i:15746981 original size:32 final size:33
Alignment explanation
Indices: 15746939--15747005 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
15746929 ATTTTAGGGC
15746939 TTTAGTTTAGGG-TTTCA-TTTTAGGATTTAGGAT
1 TTTAGTTTAGGGTTTTCAGTTTTA--ATTTAGGAT
15746972 TTTA-TTTAGGGTTTTCAGTTTTAATTTAGGAT
1 TTTAGTTTAGGGTTTTCAGTTTTAATTTAGGAT
15747004 TT
1 TT
15747006 AGGGTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 18 0.56
33 9 0.28
34 5 0.16
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (33 bp):
TTTAGTTTAGGGTTTTCAGTTTTAATTTAGGAT
Found at i:15747025 original size:27 final size:28
Alignment explanation
Indices: 15746962--15747026 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
15746952 TTCATTTTAG
*
15746962 GATTTAGGATTT-TATTTAGGGTTTTCA
1 GATTTAGGATTTAGATTTAGGGTTTTCA
*
15746989 GTTTTA--ATTTAGGATTTAGGG-TTTCA
1 GATTTAGGATTTA-GATTTAGGGTTTTCA
15747015 -ATTTAGGATTTA
1 GATTTAGGATTTA
15747027 CAAATCTCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 8 0.26
26 5 0.16
27 18 0.58
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.51
Consensus pattern (28 bp):
GATTTAGGATTTAGATTTAGGGTTTTCA
Found at i:15749347 original size:8 final size:8
Alignment explanation
Indices: 15749334--15749369 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
15749324 AAGGCTAAGC
15749334 TTTATATT
1 TTTATATT
15749342 TTTATATT
1 TTTATATT
15749350 TTTATATAT
1 TTTATAT-T
*
15749359 TCTATATT
1 TTTATATT
15749367 TTT
1 TTT
15749370 TAACGTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTATATT
Found at i:15749366 original size:17 final size:16
Alignment explanation
Indices: 15749334--15749369 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15749324 AAGGCTAAGC
*
15749334 TTTATATTTTTATATT
1 TTTATATTTCTATATT
15749350 TTTATATATTCTATATT
1 TTTATAT-TTCTATATT
15749367 TTT
1 TTT
15749370 TAACGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATATTTCTATATT
Found at i:15762089 original size:42 final size:42
Alignment explanation
Indices: 15762033--15762119 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
15762023 TCATAATTTC
15762033 TTTAATAATTGGGTTTGGAGTAGGTAGTAAGACGGGCACTCT
1 TTTAATAATTGGGTTTGGAGTAGGTAGTAAGACGGGCACTCT
* *
15762075 TTTAATAATTGGGTTTGGAGTAGGTAGTAAGATGGGCACTTT
1 TTTAATAATTGGGTTTGGAGTAGGTAGTAAGACGGGCACTCT
15762117 TTT
1 TTT
15762120 TTTTTTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (42 bp):
TTTAATAATTGGGTTTGGAGTAGGTAGTAAGACGGGCACTCT
Found at i:15766515 original size:17 final size:17
Alignment explanation
Indices: 15766493--15766546 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
15766483 AAAGCATTAT
15766493 TAAAAATGGAAAGTTTC
1 TAAAAATGGAAAGTTTC
** *
15766510 TAAAAATAAAAAGTTGC
1 TAAAAATGGAAAGTTTC
15766527 TATAAAA-GGAAA-TTTC
1 TA-AAAATGGAAAGTTTC
15766543 TAAA
1 TAAA
15766547 CCTAAAAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 19 0.63
18 4 0.13
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.28
Consensus pattern (17 bp):
TAAAAATGGAAAGTTTC
Found at i:15769701 original size:23 final size:21
Alignment explanation
Indices: 15769666--15769756 Score: 60
Period size: 23 Copynumber: 4.0 Consensus size: 21
15769656 TATTTGCACA
15769666 CTTTTATTCTTTTCTTTTCTTTT
1 CTTTT-TTCTTTTCTTTT-TTTT
15769689 CTTTTTTCATTTT-TTCATTATTTT
1 CTTTTTTC-TTTTCTT--TT-TTTT
*
15769713 C-ATTTTCATTTTCATTTTTTTT
1 CTTTTTTC-TTTTC-TTTTTTTT
** *
15769735 CAGTTTTCTTTTCTCTTTTTT
1 CTTTTTTCTTTTCTTTTTTTT
15769756 C
1 C
15769757 AATATTTCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
21 8 0.14
22 15 0.26
23 26 0.45
24 7 0.12
25 2 0.03
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.74
Consensus pattern (21 bp):
CTTTTTTCTTTTCTTTTTTTT
Found at i:15769712 original size:9 final size:8
Alignment explanation
Indices: 15769685--15769718 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
15769675 TTTTCTTTTC
15769685 TTTTC-TT
1 TTTTCATT
15769692 TTTTCATT
1 TTTTCATT
15769700 TTTTCATT
1 TTTTCATT
15769708 ATTTTCATT
1 -TTTTCATT
15769717 TT
1 TT
15769719 CATTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.20
8 12 0.48
9 8 0.32
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTCATT
Found at i:15769717 original size:6 final size:6
Alignment explanation
Indices: 15769708--15769747 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
15769698 TTTTTTCATT
15769708 ATTTTC ATTTTC ATTTTC ATTTT- -TTTTC AGTTTTC -TTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC A-TTTTC ATTTTC
15769748 TCTTTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 17 0.55
7 5 0.16
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.70
Consensus pattern (6 bp):
ATTTTC
Found at i:15769734 original size:22 final size:22
Alignment explanation
Indices: 15769700--15769757 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
15769690 TTTTTTCATT
*
15769700 TTTTCA-TTATTTTCA-TTTTC
1 TTTTCATTTTTTTTCAGTTTTC
15769720 ATTTTCATTTTTTTTCAGTTTTC
1 -TTTTCATTTTTTTTCAGTTTTC
*
15769743 TTTTC-TCTTTTTTCA
1 TTTTCATTTTTTTTCA
15769758 ATATTTCACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.45
22 13 0.39
23 5 0.15
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTCATTTTTTTTCAGTTTTC
Found at i:15769753 original size:29 final size:28
Alignment explanation
Indices: 15769680--15769753 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
15769670 TATTCTTTTC
*
15769680 TTTTCTTTTCTTTTTTCATTTTTTCATTA
1 TTTTCTTTTCTATTTTCATTTTTT-ATTA
15769709 TTTTCATTTTC-ATTTTCATTTTTT-TTCA
1 TTTTC-TTTTCTATTTTCATTTTTTATT-A
*
15769737 GTTTTCTTTTCTCTTTT
1 -TTTTCTTTTCTATTTT
15769754 TTCAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 26 0.67
30 5 0.13
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTTCTTTTCTATTTTCATTTTTTATTA
Found at i:15776268 original size:5 final size:5
Alignment explanation
Indices: 15776258--15776291 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15776248 TTTTATAATA
* *
15776258 TTATC TTATC TTATT TTATC TTATC ATATC TTAT
1 TTATC TTATC TTATC TTATC TTATC TTATC TTAT
15776292 GTACCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATC
Found at i:15784373 original size:565 final size:565
Alignment explanation
Indices: 15783307--15786129 Score: 4806
Period size: 565 Copynumber: 5.0 Consensus size: 565
15783297 TTCAAAATTT
* * * *
15783307 CTTTTAAGTAAAATTACTTAAATACCTTTCTCACAAATTCTATAACTTTTCGAGAAGTTTTATTA
1 CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
* **
15783372 CTTTTTGAAAAAGAATTTTTGAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
66 CTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
*
15783437 TTTTGTTTAAATTATTTATAAATAAATGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
131 TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
15783502 AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
196 AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
15783567 TATTAAATT--AAA-AAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
261 TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
* *
15783629 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTATATTGAATTTCTTGAAG
326 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
* *
15783694 AAATCTCTTCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
391 AAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
* * *
15783759 TGTAATACTT-AGTAGTATTACTAGTACAATTTTAAAAAATTTAAGCTCTTATATAATGATTAGA
456 TGTAGTA-TTCAGTAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTAGA
* *
15783823 CCAGATAGAGTTTTCATCACCTTTTGTAACATAAAGAAATAAAATA
520 CCAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
* *
15783869 CTTTTAAGTAAAATTACTTGAATACCCTTCTCATAAATTTTATAAC-TGTCTGAGAAGTTTTATG
1 CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTC-GAGAAGTTTTATG
* *
15783933 ACTTTT-GAAAATGAATTTTCAAGTGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGA
65 ACTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGA
* * * *
15783997 ATTTTTTTTTAATTATTTATAAATAAGTGTAATAAAAACTTATTATTAGAAAATCAAAAATTTTA
130 ATTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTA
* *
15784062 AAATTAATAAAAAAATTAGTTTTTACTTTTCTCACCTTAGAAGAAAAATAATATCTTATAAGGCC
195 AAATTAATAAAAAAATTAG-TTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCC
*
15784127 CTTATTAAATTAAAAATAAAATAGTAAGTATAATTTTTTTATAAATTTAAAATTTATAATTTTTT
259 CTTATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTT
15784192 AACAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGG
324 AACAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGG
*
15784257 AGAAGTCTCTCCATTTACTTATCACGATAGGTTTCTCTAATTAACATATTAGATTTTGACAAAAT
389 AGAAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAAT
* *
15784322 TGTGTAGTATTCAATAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTGG
454 TGTGTAGTATTCAGTAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTAG
*
15784387 ACCAGATAGAGTTTTCATCACCCTTCGTAACATAAAAAAATAAAATA
519 ACCAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
*
15784434 CTTTTAAGTAAAATTACTTGAATACCTTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
1 CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
* * *
15784499 TTTTTCGAAAAAGAATTTTCAAGTGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGCGAGAA
66 CTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
*
15784564 TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAAAAAATCACAAATTTTAA
131 TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
* * *
15784629 AATTAATAAAAAAATTAATTTTACTTTTTTCATCTTAGAGGAAAAATAATATCTTATAAGGCCTT
196 AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
15784694 TATTAAATTAAAAATAAAATAGTAAATATAA-TTTTTTATAAATTT-AAATTTATAATTTTTTAA
261 TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
15784757 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
326 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
*
15784822 AAGTCTCTCCATTTACTTATCACGATAGGTTTTTCCAATTAACATATTAGATTTTGACAAAATTG
391 AAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
* * *
15784887 TGTAGTATTCAGTAATATTACTAGTACAGTTTTAAAAAATTAAAGCTCTTATATAATGATTAGAC
456 TGTAGTATTCAGTAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTAGAC
*
15784952 CAGATGGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
521 CAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
*
15784997 CTTTTAAGTAAAATTACTTGAATACCCTTTTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
1 CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
* *
15785062 CTTTTCGAAAAAGAATTTTTAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAAAGAA
66 CTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
* * *
15785127 TTTTGTTTAAATTATTTATAAATAAGAGTAATAAAAAGTTATTATTAAAAAATCATAAATTTTAA
131 TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
* * *
15785192 AATTAATAAAAAAGTTAATTTTACTTTTCTCATCTTAAAGGAAAAATAATATCTTATAAGGCCCT
196 AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
*
15785257 TATTAAATTAAAAATAAAATAATAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
261 TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
*
15785322 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGTAG
326 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
* * *
15785387 AAGTCTCTCTATTTACTTATCACGACAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTA
391 AAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
*
15785452 TGTAGTATTTAGTAGTATTATTAGTACAGTTTTAAAAAATTCT-AGCTCTTATATAATGATTAGA
456 TGTAGTATTCAGTAGTATTATTAGTACAGTTTTAAAAAATT-TAAGCTCTTATATAATGATTAGA
* *
15785516 CCAGATAGAGTTTTCATTATCCTTCGTAACATAAAGAAATAAAATA
520 CCAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
* *
15785562 CTTTTAAGTAAAATTACTTAAATACCCTTCTCACAAATTTTATAACTTTTCAAGAAGTTTTATGA
1 CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
* *
15785627 CTTTTCGAAAATGAAATTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
66 CTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
*
15785692 -TTTGTTTAAATTATTTATAAATAAGAGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
131 TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
* *
15785756 AATTAATAAAAAAATTAGTTTTACTTTCCTCATTTTAGAGGAAAAATAATATCTTATAAGGCCCT
196 AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
*
15785821 TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTATAATTTATAATTTTTTAA
261 TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
* *
15785886 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTGGATTAAATTGAATTTCTTGGAA
326 CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
* *
15785951 AAGTCTCTCCATTTACTTATCACAATAGGTTTCTCCAATTAAAATATTAGATTTTGACAAAATTG
391 AAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
** *
15786016 TGTAGTATTCAGTAGTATTATTAGTACAGTTTT-AAAAATTCCAGCTCTTATATAATGATTAAAC
456 TGTAGTATTCAGTAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTAGAC
* * *
15786080 CAGATAGAATTTTCATCACCCTTCATAACATAAAGAGATAAAATA
521 CAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
15786125 -TTTTA
1 CTTTTA
15786130 TTAAAACCTC
Statistics
Matches: 2134, Mismatches: 115, Indels: 24
0.94 0.05 0.01
Matches are distributed among these distances:
561 136 0.06
562 119 0.06
563 594 0.28
564 372 0.17
565 776 0.36
566 137 0.06
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (565 bp):
CTTTTAAGTAAAATTACTTGAATACCCTTCTCACAAATTTTATAACTTTTCGAGAAGTTTTATGA
CTTTTCGAAAAAGAATTTTCAAGAGTGTTGGAATGAAATTTTATGAAAAATTACAAAAGAGAGAA
TTTTGTTTAAATTATTTATAAATAAGTGTAATAAAAAGTTATTATTAGAAAATCACAAATTTTAA
AATTAATAAAAAAATTAGTTTTACTTTTCTCATCTTAGAGGAAAAATAATATCTTATAAGGCCCT
TATTAAATTAAAAATAAAATAGTAAATATAATTTTTTTATAAATTTAAAATTTATAATTTTTTAA
CAAATATTTATTGTATTGATTATTAAAATTATATAATAGTTTTGATTAAATTGAATTTCTTGGAG
AAGTCTCTCCATTTACTTATCACGATAGGTTTCTCCAATTAACATATTAGATTTTGACAAAATTG
TGTAGTATTCAGTAGTATTATTAGTACAGTTTTAAAAAATTTAAGCTCTTATATAATGATTAGAC
CAGATAGAGTTTTCATCACCCTTCGTAACATAAAGAAATAAAATA
Found at i:15785047 original size:19 final size:20
Alignment explanation
Indices: 15785023--15785069 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15785013 CTTGAATACC
15785023 CTTTTC-ACAAATTTTATAA
1 CTTTTCGACAAATTTTATAA
* * *
15785042 CTTTTCGAGAAGTTTTATGA
1 CTTTTCGACAAATTTTATAA
15785062 CTTTTCGA
1 CTTTTCGA
15785070 AAAAGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (20 bp):
CTTTTCGACAAATTTTATAA
Found at i:15786143 original size:21 final size:21
Alignment explanation
Indices: 15786119--15786178 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 21
15786109 ATAAAGAGAT
15786119 AAAATATTTTATTAAAACCTC
1 AAAATATTTTATTAAAACCTC
15786140 AAAATAAAATATTTAATTAAAACCTC
1 AAAAT---AT-TTT-ATTAAAACCTC
*
15786166 AAAAGATTTTATT
1 AAAATATTTTATT
15786179 GTTTCTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 8 0.24
22 3 0.09
23 2 0.06
24 2 0.06
25 3 0.09
26 15 0.45
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATATTTTATTAAAACCTC
Found at i:15786153 original size:26 final size:26
Alignment explanation
Indices: 15786117--15786169 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
15786107 ACATAAAGAG
*
15786117 ATAAAATATTTTATTAAAACCTCAAA
1 ATAAAATATTTAATTAAAACCTCAAA
15786143 ATAAAATATTTAATTAAAACCTCAAA
1 ATAAAATATTTAATTAAAACCTCAAA
15786169 A
1 A
15786170 GATTTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (26 bp):
ATAAAATATTTAATTAAAACCTCAAA
Found at i:15786615 original size:18 final size:18
Alignment explanation
Indices: 15786577--15786615 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15786567 TTTTAATTTC
* *
15786577 TTTTATTTTTGTTAAATT
1 TTTTATTTTTGTGAAAAT
*
15786595 TTTTGTTTTTGTGAAAAT
1 TTTTATTTTTGTGAAAAT
15786613 TTT
1 TTT
15786616 GAATTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTTATTTTTGTGAAAAT
Found at i:15786675 original size:3 final size:3
Alignment explanation
Indices: 15786669--15786702 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15786659 TAAAAATAAA
15786669 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15786703 GTAAATAAAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:15787421 original size:23 final size:24
Alignment explanation
Indices: 15787371--15787421 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
15787361 TTTTCCCTAT
* * **
15787371 AAAATGGACATATAGTTGACAATG
1 AAAAGGGACATATAGTTGAAAAAA
15787395 AAAAGGGACA-ATAGTTGAAAAAA
1 AAAAGGGACATATAGTTGAAAAAA
15787418 AAAA
1 AAAA
15787422 CCTTGGTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.18
Consensus pattern (24 bp):
AAAAGGGACATATAGTTGAAAAAA
Found at i:15788515 original size:26 final size:26
Alignment explanation
Indices: 15788476--15788526 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15788466 TTTTTATGGT
*
15788476 TTTTATTTATTTATTTATCTATTTTA
1 TTTTATTTATTTATTCATCTATTTTA
*
15788502 TTTTATTT-TATTATTCATTTATTTT
1 TTTTATTTAT-TTATTCATCTATTTT
15788527 TGAGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTATTTATTTATTCATCTATTTTA
Found at i:15792881 original size:22 final size:22
Alignment explanation
Indices: 15792846--15792890 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 22
15792836 TATCCTTTCC
15792846 AAAATGAAAGAATGTAAAAAAAA
1 AAAATGAAAGAATG-AAAAAAAA
15792869 AAAATGAAA-AATGAAAAAAAA
1 AAAATGAAAGAATGAAAAAAAA
15792890 A
1 A
15792891 TGCTTGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAATGAAAGAATGAAAAAAAA
Found at i:15792885 original size:15 final size:16
Alignment explanation
Indices: 15792846--15792887 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
15792836 TATCCTTTCC
*
15792846 AAAATGAAAGAATGTA
1 AAAATGAAAAAATGTA
*
15792862 AAAA-AAAAAAATG-A
1 AAAATGAAAAAATGTA
15792876 AAAATGAAAAAA
1 AAAATGAAAAAA
15792888 AAATGCTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAATGAAAAAATGTA
Found at i:15794386 original size:44 final size:46
Alignment explanation
Indices: 15794296--15794386 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
15794286 ATCCAGGCAT
* *
15794296 AATCTCTAAAGTTTTTTTAATGAGAATTTTTGAAATTTTAGATGTG
1 AATCTCTAAAGTTTTTTCAATGAGAATTTTTGAAATTCTAGATGTG
*
15794342 AATCTCTAAAG-TTTTTCAATGAGAATTTTTG-AATTCTCGATGTG
1 AATCTCTAAAGTTTTTTCAATGAGAATTTTTGAAATTCTAGATGTG
15794386 A
1 A
15794387 GCCTTGAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 12 0.29
45 19 0.45
46 11 0.26
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (46 bp):
AATCTCTAAAGTTTTTTCAATGAGAATTTTTGAAATTCTAGATGTG
Found at i:15794780 original size:33 final size:33
Alignment explanation
Indices: 15794728--15794809 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
15794718 TTAAAAGCTT
* *
15794728 TTACAATTATGAAATTCTTGC-ATATCTGAAAATC
1 TTACAAATAT-AAGTTCTTGCGA-ATCTGAAAATC
* *
15794762 TTACAAATATAAGTTCTTGCGAATTTGAAATTC
1 TTACAAATATAAGTTCTTGCGAATCTGAAAATC
* *
15794795 TTACGAATCTAAGTT
1 TTACAAATATAAGTT
15794810 TTTAAATCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 31 0.76
34 10 0.24
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (33 bp):
TTACAAATATAAGTTCTTGCGAATCTGAAAATC
Found at i:15794840 original size:17 final size:17
Alignment explanation
Indices: 15794737--15794861 Score: 80
Period size: 17 Copynumber: 7.6 Consensus size: 17
15794727 TTTACAATTA
*
15794737 TGAAATTCTTGCATATC
1 TGAAATTCTTGCAAATC
* * *
15794754 TGAAAATCTTACAAATA
1 TGAAATTCTTGCAAATC
* * *
15794771 T-AAGTTCTTGCGAATT
1 TGAAATTCTTGCAAATC
* *
15794787 TGAAATTCTTACGAATC
1 TGAAATTCTTGCAAATC
* *
15794804 T-AAGTT-TT-TAAATC
1 TGAAATTCTTGCAAATC
* *
15794818 TTAAATTCTTGCAAATA
1 TGAAATTCTTGCAAATC
*
15794835 TGAAA-TCTTACAAATC
1 TGAAATTCTTGCAAATC
*
15794851 TAAAATTCTTG
1 TGAAATTCTTG
15794862 TTAATCTTCA
Statistics
Matches: 80, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
14 5 0.06
15 6 0.08
16 30 0.38
17 39 0.49
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (17 bp):
TGAAATTCTTGCAAATC
Found at i:15794983 original size:22 final size:23
Alignment explanation
Indices: 15794921--15794983 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
15794911 TGCAAATCTT
* *
15794921 TGAATTTCAAATTATGAA-CCTT
1 TGAATTTCAAATTACGAATCCTA
** **
15794943 TGAATTTCAAGCTGGGAATCC-A
1 TGAATTTCAAATTACGAATCCTA
15794965 TGAATTTCAAATTACGAAT
1 TGAATTTCAAATTACGAAT
15794984 TTTATTTCAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (23 bp):
TGAATTTCAAATTACGAATCCTA
Found at i:15796829 original size:25 final size:24
Alignment explanation
Indices: 15796801--15796859 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
15796791 GAAGTTATTC
*
15796801 TAAATTATAA-AAAATATTTATAAAA
1 TAAATTATAATAAAA-ATTT-GAAAA
15796826 TAAAACTT-TAATAAAAATTTGAAAA
1 T-AAA-TTATAATAAAAATTTGAAAA
15796851 TAAATTATA
1 TAAATTATA
15796860 TTTATTCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
25 6 0.21
26 10 0.34
27 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAATTATAATAAAAATTTGAAAA
Found at i:15797570 original size:55 final size:56
Alignment explanation
Indices: 15797428--15797577 Score: 189
Period size: 55 Copynumber: 2.7 Consensus size: 56
15797418 TAAATTTTAG
* **
15797428 GAAAGATATTTCTAAATTT-GACCCAAATGGTGAAAAATTTAAAAATTTCTAAGTGA
1 GAAA-ATATTTCTAAATTTAGACCCAAATGGTGGAAAATTTAAAAATCCCTAAGTGA
* * **
15797484 AAAAATATTTTTAAATTTA-ACCCAAATGGTGGAAAATTTTGAAATCCCTAAGTGA
1 GAAAATATTTCTAAATTTAGACCCAAATGGTGGAAAATTTAAAAATCCCTAAGTGA
*
15797539 GAAAATATTTCT-AATTTAGGCCCAAATGGTGGAAGAATT
1 GAAAATATTTCTAAATTTAGACCCAAATGGTGGAA-AATT
15797578 AGATATATTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
54 6 0.07
55 68 0.84
56 7 0.09
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (56 bp):
GAAAATATTTCTAAATTTAGACCCAAATGGTGGAAAATTTAAAAATCCCTAAGTGA
Found at i:15799327 original size:11 final size:12
Alignment explanation
Indices: 15799304--15799340 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
15799294 GAACTTTTTA
15799304 TTTTATTTAAAT
1 TTTTATTTAAAT
15799316 TTTTATTT-AAT
1 TTTTATTTAAAT
15799327 TTTTATTTTAAAT
1 TTTTA-TTTAAAT
15799340 T
1 T
15799341 AAATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 11 0.48
13 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTTAAAT
Found at i:15802164 original size:117 final size:117
Alignment explanation
Indices: 15801948--15802298 Score: 487
Period size: 117 Copynumber: 3.0 Consensus size: 117
15801938 TCTTGGGTGG
* *
15801948 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTTGAAAATT-TTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTAAGGAAAATT
*
15802011 GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTTGATTTCCAA
66 GATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAATTTTGATTTCCAA
15802065 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTT-TAAGGAAAA
* ** **
15802130 TTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTGAAAACTT-ATTTTTAA
64 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTCCAA
* *
15802182 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTCTTTTTTGAAATTTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTTTGAAA-TTTA-TTTTAAGGAA
*
15802246 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTT
62 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAATTTTGATTT
15802299 TTCTTTAAAG
Statistics
Matches: 209, Mismatches: 14, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
116 3 0.01
117 74 0.35
118 66 0.32
119 17 0.08
120 10 0.05
121 39 0.19
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTCCAA
Found at i:15802263 original size:177 final size:176
Alignment explanation
Indices: 15801948--15802292 Score: 588
Period size: 177 Copynumber: 2.0 Consensus size: 176
15801938 TCTTGGGTGG
15801948 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTTTTAAGGAAAATTGA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTTTTAAGGAAAATTGA
** *
15802013 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTTGATTTCCAAGGAAAATTGATAC
66 TACTTTCAACTTTTCCTCAAAAATACCTCTTTTTTGAAATTTTGATTTCCAAGGAAAATTGATAC
15802078 TTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
131 TTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
15802124 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATA-TTTTTTGAAAACTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAATATTTTTTTGAAAA--T-TTTTTAAGGAAAA
**
15802188 TTGATACTTTCAACTTTTCCTCAAAAAT-CCTCTTTTTTGAAATTTT-ATTTTTAAGGAAAATTG
62 TTGATACTTTCAACTTTTCCTCAAAAATACCTCTTTTTTGAAATTTTGATTTCCAAGGAAAATTG
15802251 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
127 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
15802293 TGATTTTTCT
Statistics
Matches: 160, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
176 35 0.22
177 68 0.43
178 16 0.10
179 41 0.26
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (176 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAATACCTCTTTTTTGAAATTTTGATTTCCAAGGAAAATTGATAC
TTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
Found at i:15802293 original size:60 final size:59
Alignment explanation
Indices: 15801948--15802300 Score: 470
Period size: 60 Copynumber: 6.0 Consensus size: 59
15801938 TCTTGGGTGG
* *
15801948 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTTGAAA--AT-TTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTATTTTTAA
**
15802003 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTTTGAAATTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATA--TTTTTTTTGAAATTTT-ATTTTTAA
*
15802065 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAA-TTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTTATTTTTAA
* * **
15802124 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTATTTTTAA
* *
15802182 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCCTCTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTTTGAAATTTTATTTTTAA
15802242 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTT-ATTTTT
15802301 CTTTAAAGAA
Statistics
Matches: 265, Mismatches: 16, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
54 2 0.01
55 31 0.12
57 6 0.02
58 57 0.22
59 46 0.17
60 71 0.27
61 13 0.05
62 36 0.14
63 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTATTTTTAA
Found at i:15802352 original size:16 final size:16
Alignment explanation
Indices: 15802333--15802422 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
15802323 AAAATAAGTG
15802333 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
15802349 AAAATAAGATAAAGAA-A
1 AAAATAA-ATAAA-AATA
*
15802366 AAATATTAAATAAATCTAATCT
1 AAA-A-TAAATAAA---AAT-A
15802388 AAAATAAA-AAAAATA
1 AAAATAAATAAAAATA
15802403 ATAAATAAATAAAAA-A
1 A-AAATAAATAAAAATA
15802419 AAAA
1 AAAA
15802423 ACCTGGAGCG
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
15 4 0.07
16 19 0.31
17 14 0.23
18 8 0.13
19 6 0.10
20 6 0.10
21 1 0.02
22 3 0.05
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:15802365 original size:54 final size:53
Alignment explanation
Indices: 15802304--15802423 Score: 131
Period size: 54 Copynumber: 2.2 Consensus size: 53
15802294 GATTTTTCTT
15802304 TAAAGAAAATAAAAT-AATAAAAATAAGT-GAAAATAAATAAAAATAA-AAATAAGA
1 TAAAGAAAA-AAAATAAATAAAAATAA-TCGAAAATAAA-AAAAATAATAAATAA-A
* ** *
15802358 TAAAGAAAAAATATTAAATAAATCTAATCTAAAATAAAAAAAATAATAAATAAA
1 TAAAGAAAAAA-AATAAATAAAAATAATCGAAAATAAAAAAAATAATAAATAAA
15802412 TAAA-AAAAAAAA
1 TAAAGAAAAAAAA
15802424 CCTGGAGCGG
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
52 1 0.02
53 8 0.14
54 25 0.44
55 23 0.40
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (53 bp):
TAAAGAAAAAAAATAAATAAAAATAATCGAAAATAAAAAAAATAATAAATAAA
Found at i:15802960 original size:25 final size:25
Alignment explanation
Indices: 15802914--15802961 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15802904 AATCTGGAAA
*
15802914 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
15802939 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
15802962 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:15809078 original size:119 final size:116
Alignment explanation
Indices: 15808884--15809207 Score: 439
Period size: 119 Copynumber: 2.8 Consensus size: 116
15808874 CTTTGGGTGG
* *
15808884 GGAAAATTGATACTTTCAAC-TTT-CCAAAAAATA-TTTTTTTGAAAATT-TTT-TAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTATTTCTAAGGAAAAT
15808944 TGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTTG-AAACTT-TGATTCCAA
66 TGATACTTTCAACTTTTCCTCAAAAAATA---TTTTTTGAAAACTTAT--TTCCAA
15808998 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTATTTCTAAGGAAAAT
* **
15809063 TGATACTTTCAACTTTTCC-CCAAAAATATTTTTTGAAAACTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAATATTTTTTGAAAACTTATTTCCAA
* * *
15809113 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTGAAATTTTGATTTCCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAAA--TT-ATTTCTAAGGA
15809178 AAATTGATACTTTCAACTTTTCCTCAAAAA
62 AAATTGATACTTTCAACTTTTCCTCAAAAA
15809208 TCCTCTTTTT
Statistics
Matches: 189, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
114 20 0.11
115 48 0.25
116 27 0.14
117 14 0.07
118 13 0.07
119 62 0.33
120 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAATATTTTTTGAAAACTTATTTCCAA
Found at i:15809860 original size:14 final size:14
Alignment explanation
Indices: 15809841--15809938 Score: 85
Period size: 14 Copynumber: 6.9 Consensus size: 14
15809831 TCAACTCAAC
*
15809841 ATTTTTATTTTTTG
1 ATTTTTGTTTTTTG
*
15809855 ATTTTT-TTTTTTAAA
1 ATTTTTGTTTTTT--G
15809870 ATTTTTGTTTTTTG
1 ATTTTTGTTTTTTG
*
15809884 TTTTTTGTTTTTTGG
1 ATTTTTGTTTTTT-G
*
15809899 TTTTTTGTTTTTTG
1 ATTTTTGTTTTTTG
*
15809913 -TTTTT-TTTGTTTT
1 ATTTTTGTTT-TTTG
*
15809926 TTTTTTGTTTTTT
1 ATTTTTGTTTTTT
15809939 TTTTTTTTGC
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
12 3 0.04
13 14 0.19
14 27 0.37
15 23 0.32
16 6 0.08
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (14 bp):
ATTTTTGTTTTTTG
Found at i:15809875 original size:1 final size:1
Alignment explanation
Indices: 15809871--15809946 Score: 71
Period size: 1 Copynumber: 76.0 Consensus size: 1
15809861 TTTTTTAAAA
* * * ** * * * *
15809871 TTTTTGTTTTTTGTTTTTTGTTTTTTGGTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15809936 TTTTTTTTTTT
1 TTTTTTTTTTT
15809947 GCCGAAGTTC
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:15809881 original size:7 final size:7
Alignment explanation
Indices: 15809871--15809944 Score: 109
Period size: 7 Copynumber: 10.7 Consensus size: 7
15809861 TTTTTTAAAA
15809871 TTTTTGT
1 TTTTTGT
15809878 TTTTTGT
1 TTTTTGT
15809885 TTTTTGT
1 TTTTTGT
15809892 TTTTTGGT
1 TTTTT-GT
15809900 TTTTTGT
1 TTTTTGT
15809907 TTTTTGT
1 TTTTTGT
15809914 TTTTT-T
1 TTTTTGT
15809920 TGTTTT-T
1 T-TTTTGT
15809927 TTTTTGT
1 TTTTTGT
15809934 TTTTT-T
1 TTTTTGT
15809940 TTTTT
1 TTTTT
15809945 TTGCCGAAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.19
7 45 0.70
8 7 0.11
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:15809883 original size:29 final size:28
Alignment explanation
Indices: 15809841--15809946 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 28
15809831 TCAACTCAAC
*
15809841 ATTTTTATTTTTTGATTTTTTTTTTTAAA
1 ATTTTTGTTTTTTG-TTTTTTTTTTTAAA
***
15809870 ATTTTTGTTTTTTGTTTTTTGTTTTTTGG
1 ATTTTTGTTTTTTGTTTTTT-TTTTTAAA
* *
15809899 TTTTTTGTTTTTTGTTTTTTTTGTTT--T
1 ATTTTTGTTTTTTGTTTTTTTT-TTTAAA
*
15809926 TTTTTTGTTTTTT-TTTTTTTT
1 ATTTTTGTTTTTTGTTTTTTTT
15809947 GCCGAAGTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.12
27 13 0.19
28 8 0.12
29 40 0.58
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (28 bp):
ATTTTTGTTTTTTGTTTTTTTTTTTAAA
Found at i:15809896 original size:22 final size:22
Alignment explanation
Indices: 15809871--15809947 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
15809861 TTTTTTAAAA
15809871 TTTTTGTTTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTTTTTTGTT
*
15809893 TTTTGGTTTTTTGTTTTTTGTT
1 TTTTTGTTTTTTGTTTTTTGTT
*
15809915 TTTTT-TGTTTT-TTTTTTGTT
1 TTTTTGTTTTTTGTTTTTTGTT
*
15809935 TTTTTTTTTTTTG
1 TTTTTGTTTTTTG
15809948 CCGAAGTTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.29
21 10 0.20
22 25 0.51
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (22 bp):
TTTTTGTTTTTTGTTTTTTGTT
Found at i:15809947 original size:15 final size:15
Alignment explanation
Indices: 15809871--15809946 Score: 93
Period size: 15 Copynumber: 5.1 Consensus size: 15
15809861 TTTTTTAAAA
*
15809871 TTTTTG-TTTTTTGT
1 TTTTTGTTTTTTTTT
**
15809885 TTTTTGTTTTTTGGT
1 TTTTTGTTTTTTTTT
15809900 TTTTTGTTTTTTGTTT
1 TTTTTGTTTTTT-TTT
15809916 TTTTTGTTTTTTTTT
1 TTTTTGTTTTTTTTT
15809931 TGTTTT-TTTTTTTTT
1 T-TTTTGTTTTTTTTT
15809946 T
1 T
15809947 GCCGAAGTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
14 6 0.11
15 33 0.59
16 17 0.30
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTGTTTTTTTTT
Found at i:15810014 original size:42 final size:42
Alignment explanation
Indices: 15809955--15810781 Score: 1111
Period size: 42 Copynumber: 19.9 Consensus size: 42
15809945 TTGCCGAAGT
*
15809955 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
15809997 TCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
15810038 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * * *
15810079 TCATTTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
15810121 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* *
15810162 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * *
15810204 TCCTTTCAACAGAGGTACCACGACTTTGGAGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTT---GGAAAAGTAAATTGC
*
15810249 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * *
15810291 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* *
15810333 TCCTCTCAACAGAGGTACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * *
15810374 TCCTCTCAACAGAGGTACCACGACTTTGGAAAATTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
15810416 TCCTCTAAACAGAGGCA--ACGGAACTTT-GAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATTGC
*
15810457 TCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
15810499 TCCTCTAAACAGAGGCA--ACGAACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGC
* * * * *
15810539 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGT
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* *
15810581 TCCTCTCAACAGAGGCA--ACGGAACTTT-GAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATTGC
*
15810622 TCCTCTAAACAGAGGCA--ACGAAACTTT-GAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACG--ACTTTGGAAAAGTAAATTGC
*
15810663 TCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* *
15810705 TCCTCTAAACAGAGGCAACA-AACTTTGGAAAA-TAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
15810745 TCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAAT
1 TCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAAT
15810782 ACTCCTAGAC
Statistics
Matches: 722, Mismatches: 39, Indels: 50
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.00
39 5 0.01
40 70 0.10
41 286 0.40
42 315 0.44
43 5 0.01
45 40 0.06
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
Found at i:15810111 original size:83 final size:83
Alignment explanation
Indices: 15809955--15810781 Score: 1103
Period size: 83 Copynumber: 10.0 Consensus size: 83
15809945 TTGCCGAAGT
15809955 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGG-ACCACGA
15810020 CTTT-GAAAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * *
15810038 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCATTTCAACAGAGGTACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGG-ACCACGA
15810102 CTTTGGAAAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
*
15810121 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTCAACAGAGGTACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGG-ACCACGA
15810185 CTTTGGAAAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * *
15810204 TCCTTTCAACAGAGGTACCACGACTTTGGAGGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCA
1 TCCTCTAAACAGAGGCACCACGACTTTGGA--AAAA-TAAATTGCTCCTCTCAACAGAGG-ACCA
15810269 CGACTTTGGAAAAGTAAATTGC
62 CGACTTTGGAAAAGTAAATTGC
* *
15810291 TCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGTACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGG-ACCACGA
15810356 CTTTGG-AAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * * * *
15810374 TCCTCTCAACAGAGGTACCACGACTTTGGAAAATTAAATTGCTCCTCTAAACAGAGG-CAACGGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGACCAC-G-
*
15810438 ACTTT-GAAAAATAAATTGC
64 ACTTTGGAAAAGTAAATTGC
* * * *
15810457 TCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACGAA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGACCACG-A
15810521 CTTTGG-AAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * * * *
15810539 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGTTCCTCTCAACAGAGG-CAACGGA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGACCAC-G-
*
15810603 ACTTT-GAAAAATAAATTGC
64 ACTTTGGAAAAGTAAATTGC
*
15810622 TCCTCTAAACAGAGGCA--ACGAAACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 TCCTCTAAACAGAGGCACCACG--ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGG-ACCAC
*
15810684 GACTTTTGAAAAGTAAATTGC
63 GACTTTGGAAAAGTAAATTGC
* * * *
15810705 TCCTCTAAACAGAGGCAACA-AACTTTGG-AAAATAAATTGCTCCTCTAAACAGAGG-CAACGAA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGACCACG-A
15810767 CTTT-GAAAAGTAAAT
65 CTTTGGAAAAGTAAAT
15810782 ACTCCTAGAC
Statistics
Matches: 684, Mismatches: 39, Indels: 45
0.89 0.05 0.06
Matches are distributed among these distances:
80 15 0.02
81 11 0.02
82 175 0.26
83 357 0.52
84 40 0.06
85 5 0.01
86 3 0.00
87 78 0.11
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (83 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGACCACGAC
TTTGGAAAAGTAAATTGC
Found at i:15812052 original size:20 final size:19
Alignment explanation
Indices: 15812021--15812080 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
15812011 TCTTTTTTTA
15812021 TTTTTTCATTTTCTCTCATTT
1 TTTTTTC-TTTT-TCTCATTT
15812042 TTTCTTT-TTTTT-TC-TTT
1 TTT-TTTCTTTTTCTCATTT
15812059 TTTTTTCTCTTTTCTCATTT
1 TTTTTTCT-TTTTCTCATTT
15812079 TT
1 TT
15812081 CATCCATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 6 0.18
19 3 0.09
20 9 0.26
21 3 0.09
22 3 0.09
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTTTCTCATTT
Found at i:15812053 original size:9 final size:10
Alignment explanation
Indices: 15812039--15812071 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
15812029 TTTTCTCTCA
15812039 TTTTTTCTTT
1 TTTTTTCTTT
15812049 TTTTTTCTTT
1 TTTTTTCTTT
15812059 TTTTTTCTCTT
1 TTTTTTCT-TT
15812070 TT
1 TT
15812072 CTCATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:15812389 original size:1 final size:1
Alignment explanation
Indices: 15812378--15812427 Score: 82
Period size: 1 Copynumber: 50.0 Consensus size: 1
15812368 ATGTGTGGCA
* *
15812378 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15812428 CAAAATTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:15815969 original size:61 final size:58
Alignment explanation
Indices: 15815843--15816247 Score: 534
Period size: 61 Copynumber: 6.9 Consensus size: 58
15815833 TCTTGGGTGG
* *
15815843 GGAAAATTGATACTTTCAACTTTTCCCAAAAA-ATATTTTTTTGAAAATT-TTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
15815898 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTGAAA-TTT-ATTTCTAA
*
15815959 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTTGAAATTTATTTCTAA
* *
15816018 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTTG-AAATTTATTTCTAA
* *
15816075 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTGAAATTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATA-TTTTTTTTTGAAA-TTT-ATTTCTAA
** * *
15816137 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTCTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTGAAA-TTTATTTCTAA
*
15816197 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTTGAAATTT
15816248 TGATTTTTCT
Statistics
Matches: 311, Mismatches: 22, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
55 26 0.08
56 14 0.05
57 56 0.18
58 2 0.01
59 42 0.14
60 61 0.20
61 71 0.23
62 39 0.13
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:15816057 original size:116 final size:116
Alignment explanation
Indices: 15815843--15816247 Score: 586
Period size: 116 Copynumber: 3.4 Consensus size: 116
15815833 TCTTGGGTGG
* *
15815843 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTT-GAAAATT-TTT-TAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
**
15815904 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTGAAACTTT-ATTTTTAA
15815959 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
*
15816024 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAAC-TTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTG-AAACTTTATTTTTAA
* * *
15816075 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTGAAATTTTGATTTCCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAAA-TTT-ATTTCTAAGGA
* *
15816140 AAATTGATACTTTCAACTTTTCCTCAAAAATCCTCTTTTTTGAAATTTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTGAAACTTTATTTTTAA
15816197 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
15816248 TGATTTTTCT
Statistics
Matches: 264, Mismatches: 13, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
116 74 0.28
117 28 0.11
118 13 0.05
119 42 0.16
120 40 0.15
121 15 0.06
122 52 0.20
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTATTTTTAA
Found at i:15816161 original size:178 final size:175
Alignment explanation
Indices: 15815843--15816237 Score: 643
Period size: 178 Copynumber: 2.2 Consensus size: 175
15815833 TCTTGGGTGG
15815843 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTTTTAAGGAAAATTGA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTGAAAATTTTTTAAGGAAAATTGA
15815908 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACT
65 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACT
*
15815973 TTCAACTTTTCC-CTAAAAAT-ATTTTTTTTGGAAA-TTTATTTCTAA
130 TTCAACTTTTCCTC-AAAAATCATCTTTTTT-GAAATTTTATTTCTAA
*
15816018 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTATTTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAA--T-TTTTTAAGGAAAATT
* *
15816083 GATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTGAAATTTTGATTTCCAAGGAAAATTGAT
63 GATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGAT
* *
15816148 ACTTTCAACTTTTCCTCAAAAATCCTCTTTTTTGAAATTTTATTTTTAA
127 ACTTTCAACTTTTCCTCAAAAATCATCTTTTTTGAAATTTTATTTCTAA
*
15816197 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTT
15816238 TTGGAAATTT
Statistics
Matches: 206, Mismatches: 7, Indels: 10
0.92 0.03 0.04
Matches are distributed among these distances:
174 11 0.05
175 34 0.17
176 1 0.00
177 41 0.20
178 61 0.30
179 58 0.28
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (175 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAATTTTTTAAGGAAAATTGAT
ACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACTT
TCAACTTTTCCTCAAAAATCATCTTTTTTGAAATTTTATTTCTAA
Found at i:15816301 original size:10 final size:10
Alignment explanation
Indices: 15816265--15816403 Score: 69
Period size: 10 Copynumber: 13.9 Consensus size: 10
15816255 TCTTTAAAGA
15816265 AAAT-AAAAT
1 AAATAAAAAT
15816274 -AATAAAAA-
1 AAATAAAAAT
*
15816282 AAAGTGAAAAT
1 AAA-TAAAAAT
15816293 AAATAAAAAT
1 AAATAAAAAT
15816303 AAA-AAAAAT
1 AAATAAAAAT
15816312 ---TAAAGAA-
1 AAATAAA-AAT
* *
15816319 AAGTAAAAAA
1 AAATAAAAAT
15816329 AAATAAAAAT
1 AAATAAAAAT
*
15816339 AAGATAAAGAAA
1 AA-ATAAA-AAT
*
15816351 AAATATTAAAT
1 AAATA-AAAAT
* **
15816362 AAATCTAATCT
1 AAAT-AAAAAT
*
15816373 AAAATAAAAAA
1 -AAATAAAAAT
15816384 AAATAATAAAT
1 AAATAA-AAAT
15816395 AAATAAAAA
1 AAATAAAAA
15816404 AAAAACCTAG
Statistics
Matches: 98, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
7 3 0.03
8 5 0.05
9 14 0.14
10 37 0.38
11 30 0.31
12 9 0.09
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:15816306 original size:23 final size:24
Alignment explanation
Indices: 15816263--15816310 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
15816253 TTTCTTTAAA
15816263 GAAAATAAAATAATAAAAAAAAGT
1 GAAAATAAAATAATAAAAAAAAGT
*
15816287 GAAAATAAATAAAAATAAAAAAAA
1 GAAAAT-AA-AATAATAAAAAAAA
15816311 TTAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 2 0.10
26 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (24 bp):
GAAAATAAAATAATAAAAAAAAGT
Found at i:15816329 original size:21 final size:22
Alignment explanation
Indices: 15816303--15816354 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
15816293 AAATAAAAAT
15816303 AAAAAAAATTAAAGAA-AAG-TA
1 AAAAAAAATTAAA-AATAAGATA
15816324 AAAAAAAA-TAAAAATAAGATA
1 AAAAAAAATTAAAAATAAGATA
15816345 AAGAAAAAAT
1 AA-AAAAAAT
15816355 ATTAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 12 0.44
22 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (22 bp):
AAAAAAAATTAAAAATAAGATA
Found at i:15816333 original size:36 final size:35
Alignment explanation
Indices: 15816264--15816407 Score: 103
Period size: 36 Copynumber: 3.9 Consensus size: 35
15816254 TTCTTTAAAG
* * *
15816264 AAAAT-AAAATAATAAAAAAAAGTGAAAATAAATA
1 AAAATAAAAAAAATAAAAAAAAGTAAAAAAAAATA
*
15816298 AAAATAAAAAAAATTAAAGAAAAGTAAAAAAAAATA
1 AAAATAAAAAAAA-TAAAAAAAAGTAAAAAAAAATA
* * * * * * *
15816334 AAAATAAGATAAAGAAAAAATATTAAATAAATCTAATCT
1 AAAATAAAAAAAATAAAAAAAAGTAAA-AAA--AAAT-A
15816373 AAAATAAAAAAAAATAATAAATAAA-TAAAAAAAAA
1 AAAAT-AAAAAAAATAA-AAA-AAAGTAAAAAAAAA
15816408 ACCTAGAGCG
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
34 5 0.06
35 16 0.19
36 33 0.39
38 5 0.06
39 5 0.06
40 11 0.13
41 7 0.08
42 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (35 bp):
AAAATAAAAAAAATAAAAAAAAGTAAAAAAAAATA
Found at i:15816345 original size:11 final size:10
Alignment explanation
Indices: 15816288--15816407 Score: 87
Period size: 10 Copynumber: 11.4 Consensus size: 10
15816278 AAAAAAAGTG
*
15816288 AAAATAAATA
1 AAAATAAAAA
15816298 AAAATAAAAA
1 AAAATAAAAA
* *
15816308 AAATTAAAGA
1 AAAATAAAAA
*
15816318 AAAGTAAAAA
1 AAAATAAAAA
15816328 AAAATAAAAA
1 AAAATAAAAA
*
15816338 TAAGATAAAGAA
1 -AAAATAAA-AA
15816350 AAAATATTAAATA
1 AAAATA--AAA-A
** ***
15816363 AATCTAATCT
1 AAAATAAAAA
15816373 AAAATAAAAA
1 AAAATAAAAA
15816383 AAAATAATAAA
1 AAAATAA-AAA
*
15816394 TAAATAAAAA
1 AAAATAAAAA
15816404 AAAA
1 AAAA
15816408 ACCTAGAGCG
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
10 52 0.62
11 22 0.26
12 3 0.04
13 7 0.08
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:15816946 original size:25 final size:25
Alignment explanation
Indices: 15816900--15816947 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15816890 AATCTGGAAA
*
15816900 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAGAAATTTCCAAAAAAATT
*
15816925 TTTCGCCA-AAATTTCTAAAAAAA
1 TTTC-CCAGAAATTTCCAAAAAAA
15816948 ATTCTCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAAAAAAATT
Found at i:15819316 original size:12 final size:12
Alignment explanation
Indices: 15819299--15819333 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15819289 AAAAAAAGAA
15819299 AATGATGATGAC
1 AATGATGATGAC
* *
15819311 AATGATGATAAT
1 AATGATGATGAC
15819323 AATGATGATGA
1 AATGATGATGA
15819334 AACACATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.29
Consensus pattern (12 bp):
AATGATGATGAC
Done.