Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 76 of 240
Found at i:24326788 original size:6 final size:6
Alignment explanation
Indices: 24326770--24326799 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
24326760 CCAAATGAAT
24326770 CATTTC TCATTTC CATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTT
24326800 TGAGAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:24328579 original size:41 final size:41
Alignment explanation
Indices: 24328498--24328584 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
24328488 ATGTACTATC
**
24328498 CAGGGGTACTGAAGAACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
* * *
24328539 TAGGGGTACTGAAGTACAAACAAGGGCACACATGTTCAATT
1 CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
24328580 CAGGG
1 CAGGG
24328585 TATAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (41 bp):
CAGGGGTACTGAAGAACAAACAAGGGCACACATGTGCAATT
Found at i:24330575 original size:77 final size:77
Alignment explanation
Indices: 24330448--24330601 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
24330438 CTCAAATACA
*
24330448 GAAAAACCACAAGATATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
24330513 CTTAATGGAGAT
66 CTTAATGGAGAT
* *
24330525 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAATAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
*
24330590 CTTGATGGAGAT
66 CTTAATGGAGAT
24330602 CCACTTCCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCAAAAGAAATTAAAAGGAGATCTTCAAT
CTTAATGGAGAT
Found at i:24330810 original size:30 final size:30
Alignment explanation
Indices: 24330776--24330863 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
24330766 CACGGCCTGG
* * *
24330776 CACATGGGCGTGTGTCCGGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
24330806 CACATGGACGTGTGCCCAGCCCATGTGGCT
1 CACATGGACGTGTGCCCAGCCCATGTGGCT
* *
24330836 CACATGGAAGTGTGCCCAGCCCGTGTGG
1 CACATGGACGTGTGCCCAGCCCATGTGG
24330864 AAATGCCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (30 bp):
CACATGGACGTGTGCCCAGCCCATGTGGCT
Found at i:24342561 original size:26 final size:25
Alignment explanation
Indices: 24342513--24342632 Score: 87
Period size: 26 Copynumber: 4.6 Consensus size: 25
24342503 GAGCTGGTGG
* * * *
24342513 TTATTCAGTAGGCTTTGAGCCAACGT
1 TTATTTAGTAGGCCTT-AACCAATGT
24342539 TTATTTAGTAGGCCTTACACCAATGT
1 TTATTTAGTAGGCCTTA-ACCAATGT
* * * * *
24342565 TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTT-AACCAATGT
***
24342591 TTATTTAGTAGGCCTTAAGCTGGTGT
1 TTATTTAGTAGGCCTTAA-CCAATGT
*
24342617 TTATTTAGCAGGCCTT
1 TTATTTAGTAGGCCTT
24342633 GAGTCGGTGG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
25 2 0.03
26 72 0.96
27 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (25 bp):
TTATTTAGTAGGCCTTAACCAATGT
Found at i:24342605 original size:52 final size:52
Alignment explanation
Indices: 24342539--24342650 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
24342529 GAGCCAACGT
24342539 TTATTTAGTAGGCCTTACA-CCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGTAGGCCTTA-AGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
*** * * * *
24342591 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
24342643 TTATTTAG
1 TTATTTAG
24342651 CAGGTCTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (52 bp):
TTATTTAGTAGGCCTTAAGCCAATGTTCATTTAGCAGGCCTTGAGCCGATGA
Found at i:24342641 original size:26 final size:26
Alignment explanation
Indices: 24342562--24342680 Score: 130
Period size: 26 Copynumber: 4.6 Consensus size: 26
24342552 CTTACACCAA
* *
24342562 TGTTCATTTAGCAGGCCTTGAGCCGA
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
24342588 TGATTATTTAGTAGGCCTTAAGCTGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
24342614 TGTTTATTTAGCAGGCCTTGAGTCGG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
* * * *
24342640 TGGTTATTTAGCAGGTCTTGGGCCAG
1 TGTTTATTTAGCAGGCCTTGAGCCGG
*
24342666 TGTATATTTAGCAGG
1 TGTTTATTTAGCAGG
24342681 TACTATGTAG
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCCTTGAGCCGG
Found at i:24342674 original size:52 final size:52
Alignment explanation
Indices: 24342539--24342680 Score: 144
Period size: 52 Copynumber: 2.7 Consensus size: 52
24342529 GAGCCAACGT
* *
24342539 TTATTTAGTAGGCCTTACA-CCAATGT-TCATTTAGCAGGCCTTGAGCCGATGA
1 TTATTTAGCAGGCCTTA-AGCCAGTGTAT-ATTTAGCAGGCCTTGAGCCGATGA
* ** * * * *
24342591 TTATTTAGTAGGCCTTAAGCTGGTGTTTATTTAGCAGGCCTTGAGTCGGTGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
* **
24342643 TTATTTAGCAGGTCTTGGGCCAGTGTATATTTAGCAGG
1 TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGG
24342681 TACTATGTAG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 73 0.97
53 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (52 bp):
TTATTTAGCAGGCCTTAAGCCAGTGTATATTTAGCAGGCCTTGAGCCGATGA
Found at i:24350403 original size:26 final size:26
Alignment explanation
Indices: 24350372--24350456 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
24350362 GAGCCGATGG
24350372 TTATTTAGCAGGACTTAAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
* ****
24350398 TGATTTAGCA-GACCTTAAACCAGTGT
1 TTATTTAGCAGGA-CTTAAGTTGGTGT
* *
24350424 TTA-TTAGCAGGCCTTGAGTTGGTGT
1 TTATTTAGCAGGACTTAAGTTGGTGT
24350449 TTATTTAG
1 TTATTTAG
24350457 TAGGCCTTGA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (26 bp):
TTATTTAGCAGGACTTAAGTTGGTGT
Found at i:24350475 original size:29 final size:28
Alignment explanation
Indices: 24350420--24350496 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
24350410 CCTTAAACCA
*
24350420 GTGTTTA-TTAGCAGGCCTTGAG---TT
1 GTGTTTATTTAGTAGGCCTTGAGCCATT
24350444 GGTGTTTATTTAGTAGGCCTTGAGCCATT
1 -GTGTTTATTTAGTAGGCCTTGAGCCATT
* *
24350473 G-G-TTATTTAGTAAGCTTTGAGCCA
1 GTGTTTATTTAGTAGGCCTTGAGCCA
24350497 GTGTATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.16
26 34 0.76
27 1 0.02
28 1 0.02
29 2 0.04
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.40
Consensus pattern (28 bp):
GTGTTTATTTAGTAGGCCTTGAGCCATT
Found at i:24350479 original size:51 final size:50
Alignment explanation
Indices: 24350352--24350479 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 50
24350342 ATACCAGAAA
*
24350352 AGCAAGCCTTGAGCCGATGGTTATTTAGCAGGACTTAAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCC-ATGGTTA-TTAGCAGGACTTAAGTTGGTGTTGATTT
* * * * * * *
24350404 AGCAGACCTTAAACCAGTGTTTATTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
*
24350455 AGTAGGCCTTGAGCCATTGGTTATT
1 AGCAGGCCTTGAGCCA-TGGTTATT
24350480 TAGTAAGCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
51 45 0.74
52 16 0.26
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
Found at i:24355217 original size:124 final size:124
Alignment explanation
Indices: 24355008--24355250 Score: 364
Period size: 124 Copynumber: 2.0 Consensus size: 124
24354998 ATCGCTTCTA
* * *
24355008 CCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCACTACAGTGG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGG
*
24355073 TCATGTAAGAAATAA-TTTTTTTTGACGTTTTCTGAGCAAAAAGTATTAAATCGCTAATG
66 TCATGTAAGAAATAACTTTTTTTTGACG-TTTCTGAGCAAAAAGTATAAAATCGCTAATG
* * *
24355132 CCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAG-TG
* * *
24355197 GTCATGTAGGAAAT-ACTTTTTTTTGACGTTTCTGAGCAAATAGTGTAAAATCGC
65 GTCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGC
24355251 GCCCTCGTGG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
124 80 0.75
125 27 0.25
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGG
TCATGTAAGAAATAACTTTTTTTTGACGTTTCTGAGCAAAAAGTATAAAATCGCTAATG
Found at i:24358606 original size:58 final size:57
Alignment explanation
Indices: 24358471--24359170 Score: 295
Period size: 52 Copynumber: 13.3 Consensus size: 57
24358461 TTTTACATTA
* * * * * *
24358471 ATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAAT-GATAAATCAGGGTAAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGT---T-AGGGTTAG-GGTTTTC
24358532 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
24358589 ATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTA-GGTTAGAGATTTC
1 AT-TAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * ** * *
24358646 TATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAAATTA-GCTTATGG-TTT-
1 -ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
24358701 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATT---A-A-GTTA-TGTTTGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24358750 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * *
24358802 ATTAAATTA---T---GTTAGGGTTTTTAATTTAATTAAGTTA-GGTTA-GGTTTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
24358850 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
24358902 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATT---A-A-GTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
*
24358951 ATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
24359000 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATT---A-A-GTT-GTGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * * *
24359049 ATTTAATTAAGTTA-GGTTAGGGTTTTTAATT---A-A-GTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24359100 ATTAAATTAGGTTAGGG-T-----TTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
24359152 ATTAATTTATGTTAGGGTT
1 ATTAAATTAGGTTAGGGTT
24359171 TTTAATTTAA
Statistics
Matches: 532, Mismatches: 50, Indels: 122
0.76 0.07 0.17
Matches are distributed among these distances:
46 64 0.12
47 17 0.03
48 13 0.02
49 6 0.01
50 14 0.03
51 131 0.25
52 136 0.26
53 5 0.01
56 3 0.01
57 59 0.11
58 46 0.09
59 1 0.00
61 35 0.07
62 2 0.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
Found at i:24358706 original size:23 final size:23
Alignment explanation
Indices: 24358680--24359336 Score: 593
Period size: 23 Copynumber: 26.7 Consensus size: 23
24358670 TTTTTAATTA
* *
24358680 AATTAAATTAGCTTATGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
24358703 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* * *
24358726 AATTAAGTTATGTTTGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24358749 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
*
24358778 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
*
24358801 AATTAAATTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
*
24358824 AATTTAATTAAGTTAGGTTAGGTTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
* *
24358852 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24358875 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
*
24358904 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
* *
24358927 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24358950 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24358973 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
*
24359002 AATT-AAGTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGGGTTTTT
*
24359025 AATTAAGTT-GTGTTAGGGTTTTT
1 AATTAAATTAG-GTTAGGGTTTTT
24359048 AATTTAATTAAGTTAGGTTAGGGTTTTT
1 AA-TT-A--AA-TTAGGTTAGGGTTTTT
* *
24359076 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24359099 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24359122 AATTAAACTAGGTTAGGGTTAGGGTTTTT
1 AATT-AA--A--TTA-GGTTAGGGTTTTT
* *
24359151 AATTAATTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* *
24359174 AATTTAATTAAGTAAGTTAGGTTTTTT
1 AATTAAATT-AG---GTTAGGGTTTTT
* *
24359201 AATTAAGTTATGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
* * *
24359224 AATTAAGTTATGTTAGGCTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24359247 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24359270 AATTAAATTAGTTAGGGTTAGGGTTTTT
1 AATT-AA--A-TTA-GGTTAGGGTTTTT
* *
24359298 AATTAAGTAAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTTTT
24359321 AATTAAATTAGGTTAG
1 AATTAAATTAGGTTAG
24359337 TGTTAGGGTT
Statistics
Matches: 536, Mismatches: 50, Indels: 96
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.00
23 331 0.62
24 31 0.06
25 5 0.01
26 6 0.01
27 33 0.06
28 63 0.12
29 66 0.12
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGTTTTT
Found at i:24358708 original size:28 final size:27
Alignment explanation
Indices: 24358525--24359357 Score: 477
Period size: 23 Copynumber: 32.5 Consensus size: 27
24358515 CAGGGTAAGA
24358525 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* *
24358554 GATTTTAATTAAAATAGGTTAGGGTTAG
1 GTTTTTAATTAAATTAGGTTA-GGTTAG
* * * *
24358582 GGTTTTCATGTAAAATAGGTTAGGGTTGGG
1 GTTTTTAAT-TAAATTAGGTTA-GGTT-AG
24358612 GTTTTTAATTAAATTAGGTTAGGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
*
24358639 AGATTTCT-ATTAAATTAGGTTAGAGTTAGG
1 -G-TTTTTAATTAAATTAGGTTAG-GTTA-G
** *
24358669 GTTTTTAATTAAATTAAATTAGCTTATG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
24358697 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* * *
24358720 GTTTTTAATTAAGTTA---T-GTTTGG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24358743 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
24358772 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
*
24358795 GTTTTTAATTAAATTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
24358818 GTTTTTAATTTAATTAAGTTAGGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
24358845 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
24358869 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
24358898 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
24358921 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24358944 GTTTTTAATTAAATTAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24358967 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
24358996 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
*
24359019 GTTTTTAATTAAGTT--G-T--GTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
24359042 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
24359070 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24359093 GTTTTTAATTAAATTAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
*
24359116 GTTTTTAATTAAACTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* *
24359145 GTTTTTAATTAATTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* * *
24359168 GTTTTTAATTTAATTAAG-TAAGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
24359194 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
*
24359218 GTTTTTAATT--A--A-GTTATGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24359240 GCTTTTTAATTAAATTAGGTTA-G---G
1 G-TTTTTAATTAAATTAGGTTAGGTTAG
24359264 GTTTTTAATTAAATTA-GTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* *
24359292 GTTTTTAATTAAGTAAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
24359315 GTTTTTAATTAAATTAGGTTAGTGTTAGG
1 GTTTTTAATTAAATTAGGTTAG-GTTA-G
*
24359344 GTTTTTAATCAAAT
1 GTTTTTAATTAAAT
24359358 AATGTCAAAA
Statistics
Matches: 662, Mismatches: 58, Indels: 168
0.75 0.07 0.19
Matches are distributed among these distances:
20 1 0.00
22 15 0.02
23 301 0.45
24 20 0.03
25 19 0.03
26 9 0.01
27 17 0.03
28 121 0.18
29 150 0.23
30 9 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (27 bp):
GTTTTTAATTAAATTAGGTTAGGTTAG
Found at i:24358802 original size:126 final size:125
Alignment explanation
Indices: 24358610--24359336 Score: 834
Period size: 126 Copynumber: 5.8 Consensus size: 125
24358600 GTTAGGGTTG
* * *
24358610 GGGTTTTTAATTAAATTAGGTTA-GGTTAGAGATTTCTATTAAATTAGGTTAGAGTTAGGGTTTT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAG-G-GTT-T-TT-AATTAAG-TAGGGTTAGGGTTTT
* *
24358674 TAATTAAATTAAATTAGCTTATGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGT
60 TAATTAAATTAAGTTAG-TTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGT
*
24358739 TT
124 TA
24358741 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
* *
24358806 AATT-A--T-GTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTA
66 AATTAAGTTAGTTAGGG---TT--TTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
24358867 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
* * * * *
24358932 AGTT-A--T-GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA
66 AATTAAGTTAGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
* * *
24358988 GGGTTAGGGTTT--TT-AATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTGTGTTAGGGTTTTTA
1 GGGTT----TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTA
* * *
24359049 ATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTA
62 ATTAAATTAAGTTA-GTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
* * *
24359114 GGGTTTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTA-TGTTAGGGTTTTTAATT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA-GTAGGGTTAGGGTTTTTAATT
* * *
24359178 TAATTAAGTAAGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
65 AAATTAAGTTAGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
*
24359239 GGCTTTTTAATTAAATTAGGTTAGGGTT----TTTAATTAAATT-AGTTAGGGTTAGGGTTTTTA
1 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATTAAG-TAGGGTTAGGGTTTTTA
* * *
24359299 ATT-AAGTAAG---GTTAGGGTTTTTAATTAAATTAGGTTAG
62 ATTAAATTAAGTTAGTTAGGGTTTTTAATTAAGTTATGTTAG
24359337 TGTTAGGGTT
Statistics
Matches: 536, Mismatches: 35, Indels: 61
0.85 0.06 0.10
Matches are distributed among these distances:
120 25 0.05
121 94 0.18
122 11 0.02
123 16 0.03
124 25 0.05
125 82 0.15
126 241 0.45
127 7 0.01
128 2 0.00
129 1 0.00
130 2 0.00
131 24 0.04
132 6 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (125 bp):
GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTA
AATTAAGTTAGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTA
Found at i:24358833 original size:149 final size:146
Alignment explanation
Indices: 24358658--24359336 Score: 908
Period size: 149 Copynumber: 4.6 Consensus size: 146
24358648 TTAAATTAGG
* * *
24358658 TTAGAGTTAGGGTTTTTAATTAAATTAAATTA-GCTTATGGTTTTTAATTAAGTTATGTTAGGGT
1 TTAG-GTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGT
* *
24358722 TTTTAATTAAGTTATGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-T
65 TTTTAATTAAGTTATGTTAGGGTTTTT--TT-AATTAAGTTA-GGTTAGGGTTTTTAATTAAGTT
*
24358786 AGGGTTAGGGTTTTTAATTAAA
126 A-TGTTAGGGTTTTTAATTAAA
* * *
24358808 TTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGTTTTTTAATTAAGTTATGTTAGGGTT
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTT
* *
24358872 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAGTT
66 TTTAATTAAGTTATGTTAGGGTT----TTTTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTT
24358936 ATGTTAGGGTTTTTAATTAAA
126 ATGTTAGGGTTTTTAATTAAA
* *
24358957 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGT
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTA-TGTTAGGGT
*
24359021 TTTTAATTAAGTTGTGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTA
65 TTTTAATTAAGTTATGTTAGGG-TTTT--TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTA
24359086 TGTTAGGGTTTTTAATTAAA
127 TGTTAGGGTTTTTAATTAAA
* * *
24359106 TTAGGTTAGGGTTTTTAATTAAACTAGGTTAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTT
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTT
*
24359171 TTTAATTTAA-TTAAGTAAGTTA-GG-TTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTT
66 TTTAA-TTAAGTT-A-T--GTTAGGGTTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTT
*
24359233 ATGTTAGGCTTTTTAATTAAA
126 ATGTTAGGGTTTTTAATTAAA
* *
24359254 TTAGGTTAGGGTTTTTAATTAAATT-AGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTT
1 TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTT
* *
24359318 TTTAATTAAATTAGGTTAG
66 TTTAATTAAGTTATGTTAG
24359337 TGTTAGGGTT
Statistics
Matches: 479, Mismatches: 31, Indels: 44
0.86 0.06 0.08
Matches are distributed among these distances:
143 4 0.01
146 5 0.01
147 44 0.09
148 78 0.16
149 266 0.56
150 68 0.14
151 5 0.01
152 2 0.00
153 7 0.01
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (146 bp):
TTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTT
TTTAATTAAGTTATGTTAGGGTTTTTTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTATGTT
AGGGTTTTTAATTAAA
Found at i:24361512 original size:14 final size:15
Alignment explanation
Indices: 24361495--24361528 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24361485 AATAAATATC
24361495 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
24361509 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
24361524 TAAAA
1 TAAAA
24361529 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:24361755 original size:22 final size:22
Alignment explanation
Indices: 24361725--24361766 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24361715 ATTTGGAGAT
*
24361725 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
24361747 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
24361767 TTTGAGAGAA
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:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:24361774 original size:30 final size:30
Alignment explanation
Indices: 24361738--24361796 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24361728 TTGAAGGAAA
*
24361738 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
24361768 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
24361797 AAATTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:24361792 original size:22 final size:21
Alignment explanation
Indices: 24361768--24361859 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 21
24361758 ATTTGAGAGT
*
24361768 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
*
24361789 TTTGAGAGAAATTTTGAAGGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
*
24361812 TTGAGAGAATTTTTTAAAGGAA
1 TTGAGAGAA-TTTTTGAAGGAA
24361834 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
24361856 TTGA
1 TTGA
24361860 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 9 0.15
22 43 0.69
23 10 0.16
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:24361794 original size:52 final size:51
Alignment explanation
Indices: 24361716--24361818 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
24361706 TTAATATGGA
* * *
24361716 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
24361767 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
24361819 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:24365774 original size:40 final size:40
Alignment explanation
Indices: 24365729--24365928 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
24365719 AGATTATTGT
* *
24365729 TTGATTGCACATACGTGCCCCTATTTATACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* *
24365769 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
* * *
24365809 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCAGTACCC
* * *
24365849 CTGATTGCACATACATGCCCCTGTTTATACTTC-GATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAG-TACCC
*
24365889 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
24365929 CGAATGCACA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 130 0.93
41 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCC
Found at i:24365822 original size:80 final size:80
Alignment explanation
Indices: 24365730--24365938 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
24365720 GATTATTGTT
* * * *
24365730 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
*
24365795 GTACTTCAATACCCC
66 ATACTTCAATACCCC
* *
24365810 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTT
* *
24365874 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* *
24365890 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACA
24365939 TTTGTGCCCT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 9 0.08
80 106 0.92
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCAGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:24370512 original size:31 final size:33
Alignment explanation
Indices: 24370477--24370559 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 33
24370467 TTACCCACTA
*
24370477 TTTAAAACTTTTTAAATTTTT-TTAT-ACATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
* *
24370508 TTTAAAACTTTTAAAATTTTTATTTTGAAATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
24370541 TTT-AAACTATTTTATATTT
1 TTTAAAACT-TTTTAAATTT
24370560 AACGCTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 20 0.45
32 8 0.18
33 16 0.36
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (33 bp):
TTTAAAACTTTTTAAATTTTTATTATGAAATTT
Found at i:24383351 original size:10 final size:10
Alignment explanation
Indices: 24383319--24383352 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
24383309 GATTTGAAAT
24383319 TAATTAATAA
1 TAATTAATAA
*
24383329 TATATTAAAAA
1 TA-ATTAATAA
24383340 TAATTAATAA
1 TAATTAATAA
24383350 TAA
1 TAA
24383353 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:24383558 original size:20 final size:19
Alignment explanation
Indices: 24383533--24383570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24383523 ATCAACAATA
*
24383533 TTATTAATTATATAATATAT
1 TTATTAATAAT-TAATATAT
24383553 TTATTAATAATTAATATA
1 TTATTAATAATTAATATA
24383571 AGAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTAATAATTAATATAT
Found at i:24387325 original size:25 final size:24
Alignment explanation
Indices: 24387288--24387341 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
24387278 GCGCACAAAC
24387288 TATATAAATATAAA-TAAATCAATA
1 TATATAAATATAAATTAAAT-AATA
*
24387312 TATATAAAATATAAATTAAATAATT
1 TATAT-AAATATAAATTAAATAATA
24387337 TATAT
1 TATAT
24387342 TTAAATTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATAAATATAAATTAAATAATA
Found at i:24387795 original size:25 final size:25
Alignment explanation
Indices: 24387757--24387807 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24387747 AGGAGCAATT
* *
24387757 AAATTCATTTGATTAAAATCAAATC
1 AAATTCATTGGATTAAAATAAAATC
* *
24387782 AAATTGATTGGATTCAAATAAAATC
1 AAATTCATTGGATTAAAATAAAATC
24387807 A
1 A
24387808 GGATATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (25 bp):
AAATTCATTGGATTAAAATAAAATC
Found at i:24394727 original size:6 final size:6
Alignment explanation
Indices: 24394716--24394774 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
24394706 TTGATGCACT
24394716 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
24394764 TTATTG TTATT
1 TTATTG TTATT
24394775 TCAATTGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
TTATTG
Found at i:24402189 original size:5 final size:5
Alignment explanation
Indices: 24402179--24402205 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24402169 GAGTTGAGCT
24402179 GACCA GACCA GACCA GACCA GACCA GA
1 GACCA GACCA GACCA GACCA GACCA GA
24402206 GCGGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.37, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCA
Found at i:24402642 original size:16 final size:16
Alignment explanation
Indices: 24402621--24402656 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24402611 TTTGGTTCGC
24402621 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24402637 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24402653 TGTA
1 TGTA
24402657 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24403058 original size:39 final size:39
Alignment explanation
Indices: 24403005--24403300 Score: 127
Period size: 39 Copynumber: 7.4 Consensus size: 39
24402995 TAATATCAAT
* *
24403005 AATAAATAATTTAATCATATTTAAATATATTATAATTAA
1 AATATATAATTTAATAATATTTAAATATATTATAATTAA
* *
24403044 AATATATAATTTAATAAAATTCTTAATA-ATTA-ATATT--
1 AATATATAATTTAATAATATT-TAAATATATTATA-ATTAA
** * * * *
24403081 CTTATATGAATTTACTCAA-A-TCATAATATATGATACTGTAA
1 AATATAT-AATTTAAT-AATATTTA-AATATATTATAAT-TAA
*
24403122 AATATA-AATTAACATAATTATTATTAAATATATTATAATTAA
1 AATATATAATTTA-ATAA-TA-T-TTAAATATATTATAATTAA
* *
24403164 AATATATAATTTAATAAAATTCTTAATA-ATTA-ATATT--
1 AATATATAATTTAATAATATT-TAAATATATTATA-ATTAA
** * * *
24403201 CTTATATGAATTTACTTGAATCA--T-AATATATGATACTGTAA
1 AATATAT-AATTTA-AT-AAT-ATTTAAATATATTATAAT-TAA
*
24403242 AATATA-AATTAACATAATTATTATTAAATATATTATAATTAA
1 AATATATAATTTA-ATAA-TA-T-TTAAATATATTATAATTAA
24403284 AATATATAATTTAATAA
1 AATATATAATTTAATAA
24403301 AATTCTTAAT
Statistics
Matches: 188, Mismatches: 34, Indels: 67
0.65 0.12 0.23
Matches are distributed among these distances:
37 19 0.10
38 28 0.15
39 55 0.29
40 14 0.07
41 11 0.06
42 27 0.14
43 32 0.17
44 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (39 bp):
AATATATAATTTAATAATATTTAAATATATTATAATTAA
Found at i:24403177 original size:14 final size:15
Alignment explanation
Indices: 24403128--24403179 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24403118 GTAAAATATA
24403128 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24403143 TATTAAATATATTAT
1 AATTAAATATATTAT
24403158 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24403171 AATTTAATA
1 AATTAAATA
24403180 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24403297 original size:14 final size:15
Alignment explanation
Indices: 24403248--24403299 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24403238 GTAAAATATA
24403248 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24403263 TATTAAATATATTAT
1 AATTAAATATATTAT
24403278 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24403291 AATTTAATA
1 AATTAAATA
24403300 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24403435 original size:120 final size:120
Alignment explanation
Indices: 24403025--24403424 Score: 689
Period size: 120 Copynumber: 3.3 Consensus size: 120
24403015 TTAATCATAT
24403025 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
24403090 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
24403145 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
**
24403210 ATTTACTTGAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
24403265 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
* *
24403330 ATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTTGAA-ATAATTAATA
66 ATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT-AACATAATTATTA
* * *
24403385 TTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATT
24403425 TAAAATAATT
Statistics
Matches: 268, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
119 7 0.03
120 259 0.97
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
Found at i:24403511 original size:24 final size:25
Alignment explanation
Indices: 24403465--24403512 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
24403455 TATGAATTTG
24403465 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
24403491 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
24403513 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:24403516 original size:92 final size:92
Alignment explanation
Indices: 24403420--24403648 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
24403410 TGATTTAATA
* * *
24403420 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
24403482 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
24403512 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
24403577 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
24403602 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
24403649 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:24406691 original size:11 final size:11
Alignment explanation
Indices: 24406675--24406712 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
24406665 GATTTTATCA
24406675 ATTGTTGAGAT
1 ATTGTTGAGAT
24406686 ATTGTTGAGAT
1 ATTGTTGAGAT
*
24406697 ATTGTTCAGAT
1 ATTGTTGAGAT
24406708 ATTGT
1 ATTGT
24406713 CATTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:24406912 original size:97 final size:97
Alignment explanation
Indices: 24406801--24407230 Score: 824
Period size: 97 Copynumber: 4.4 Consensus size: 97
24406791 TTTAATAACA
24406801 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
24406866 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
**
24406898 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTAGGTTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
24406963 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
24406995 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
24407060 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
*
24407092 ATTATATAAGCATTGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
24407157 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
24407189 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
24407231 CATAATTTAA
Statistics
Matches: 326, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 326 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGAAGATTTAATCTTAAATTTGGAT
Found at i:24415003 original size:26 final size:26
Alignment explanation
Indices: 24414967--24415018 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24414957 ATATAGTGCC
24414967 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
24414993 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
24415019 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTCAACTCAATTCAATTTCATTTAA
Found at i:24416499 original size:67 final size:67
Alignment explanation
Indices: 24416391--24416520 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
24416381 AAATATGAAG
*
24416391 AAGATGACTACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
24416456 TT
66 TT
24416458 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
24416521 TCGCCTTAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.45
Consensus pattern (67 bp):
AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
TT
Found at i:24419730 original size:17 final size:19
Alignment explanation
Indices: 24419708--24419743 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
24419698 CTAAAATAGT
24419708 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
24419725 AACAAAAGTTATACAATAA
1 AACAAAAGTTATACAATAA
24419744 TCAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:24419841 original size:21 final size:21
Alignment explanation
Indices: 24419813--24419864 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
24419803 AAAAAACAAG
24419813 AAAATAGCAA-AAAAGGAAAA
1 AAAATAGCAAGAAAAGGAAAA
* *
24419833 AAAACTAGCAAGAACAGTAAAA
1 AAAA-TAGCAAGAAAAGGAAAA
24419855 AAAAGTAGCA
1 AAAA-TAGCA
24419865 GTATTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 17 0.63
ACGTcount: A:0.67, C:0.10, G:0.15, T:0.08
Consensus pattern (21 bp):
AAAATAGCAAGAAAAGGAAAA
Found at i:24430762 original size:13 final size:13
Alignment explanation
Indices: 24430746--24430774 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24430736 ATTAGTGTTT
24430746 TTAGGAAATTGCA
1 TTAGGAAATTGCA
24430759 TTAGGAAATTGCA
1 TTAGGAAATTGCA
24430772 TTA
1 TTA
24430775 AAAGGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (13 bp):
TTAGGAAATTGCA
Found at i:24437596 original size:36 final size:36
Alignment explanation
Indices: 24437541--24437621 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
24437531 ACATAATGGC
* * * *
24437541 AAATTAATACAGTTTGCCATATTAATACAAATCACA
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
* * *
24437577 AAATTAACACAATTCGCCATAATAATAGAATTCACC
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
*
24437613 AAGTTAACA
1 AAATTAACA
24437622 TGGTTCATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (36 bp):
AAATTAACACAATTCGCCATAATAATACAAATCACA
Found at i:24444558 original size:16 final size:18
Alignment explanation
Indices: 24444530--24444563 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24444520 TTAGAATTGC
24444530 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
24444547 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
24444564 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:24452119 original size:6 final size:6
Alignment explanation
Indices: 24452103--24452148 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 6
24452093 AAAGAGGGCG
*
24452103 AGAAAA A-AAAA AGAAAA AGGAAAA ACAAAA AG-AAA AG-AAA AGAAAA
1 AGAAAA AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA
24452149 TCTCTCATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 15 0.43
6 14 0.40
7 6 0.17
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:24453095 original size:153 final size:153
Alignment explanation
Indices: 24452919--24453228 Score: 539
Period size: 153 Copynumber: 2.0 Consensus size: 153
24452909 GGGTTCCATA
* * *
24452919 TTTTCTTCTATTGACATAATTTATCAAGATCTTTTTATTTTCGCTATCTCCATCTTCAGTTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
* *
24452984 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTTATGTCTTAGGTCTCTTTTGAAGCACTTAC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
*
24453049 CTCCACAATATGACCATCTATAT
131 CTCCACAATATGACCATCTATAC
24453072 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
* *
24453137 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
*
24453202 CTCCACTATATGACCATCTATAC
131 CTCCACAATATGACCATCTATAC
24453225 TTTT
1 TTTT
24453229 ATTTTCTTTT
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 148 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (153 bp):
TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTAGGTCTCTTTTGAAGCACTCAC
CTCCACAATATGACCATCTATAC
Found at i:24464166 original size:25 final size:25
Alignment explanation
Indices: 24464137--24464188 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
24464127 CCCTTGATTA
*
24464137 GTTCCAAGCAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
24464162 GTTCCAAGAAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
24464187 GT
1 GT
24464189 AAAAAGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (25 bp):
GTTCCAAGAAATCTTTAACAAGGGT
Found at i:24470969 original size:27 final size:27
Alignment explanation
Indices: 24470931--24471290 Score: 363
Period size: 27 Copynumber: 13.4 Consensus size: 27
24470921 TGTGATTCAT
*
24470931 GGTAAAATGACTGAAATACCTTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
24470958 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
24470985 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
*
24471012 GGTAAAATAACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
24471039 GGTAAAATGACTGAAATACCTTCGAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** * *
24471066 GGTAAAATAACCAAAATACCCTCAAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** * *
24471093 GGTAAAATAACCAAAATACCCTCAAAT
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
24471120 GAT-AAATGACTGAAATACCCCCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** *
24471146 GGTAAAAT-AATCGAAATACCCTTAAAA
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
24471173 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
24471200 GATAAAATGATTGAAATACCC-CCAGAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
* *
24471227 GGTAAAATGA-TCGAAATAACCC-CAAAA
1 GGTAAAATGACT-GAAAT-ACCCTCGAAG
** *
24471254 TATAAAATGACTGAAATACCC-CCATAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
24471281 GGTAAAATGA
1 GGTAAAATGA
24471291 TTGTTATACC
Statistics
Matches: 282, Mismatches: 43, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
26 30 0.11
27 244 0.87
28 8 0.03
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:24471037 original size:81 final size:82
Alignment explanation
Indices: 24470931--24471290 Score: 421
Period size: 81 Copynumber: 4.5 Consensus size: 82
24470921 TGTGATTCAT
* *
24470931 GGTAAAATGACTGAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
* *
24470996 T-GAAATACCCTCGAAG
66 TCGAAATACCCTCAAAA
* * *
24471012 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTTCGAAAGGTAAAATAAC
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
*
24471077 -CAAAATACCCTCAAAA
66 TCGAAATACCCTCAAAA
** * * * * *
24471093 GGTAAAATAACCAAAATACCCTCAAATGAT-AAATGACTGAAATACCCCCGAAGGGTAAAAT-AA
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
*
24471156 TCGAAATACCCTTAAAA
66 TCGAAATACCCTCAAAA
* * * *
24471173 GGTAAAATAACCGAAATACCCTCGAAGGATAAAATGATTGAAATACCC-CCAGAGGGTAAAATGA
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGA-AGGGTAAAATGA
24471237 -TCGAAATAACCC-CAAAA
65 CTCGAAAT-ACCCTCAAAA
** * *
24471254 TATAAAATGACTGAAATACCC-CCATAGGGTAAAATGA
1 GGTAAAATAACTGAAATACCCTCGA-AGGGTAAAATGA
24471291 TTGTTATACC
Statistics
Matches: 241, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 73 0.30
81 162 0.67
82 5 0.02
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (82 bp):
GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
TCGAAATACCCTCAAAA
Found at i:24474283 original size:99 final size:99
Alignment explanation
Indices: 24474171--24474369 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
24474161 TCTATCTTCT
24474171 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
1 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
24474236 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
66 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
24474270 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
1 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
24474335 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
66 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
24474369 C
1 C
24474370 TTATGGCTAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (99 bp):
CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
Found at i:24474956 original size:35 final size:35
Alignment explanation
Indices: 24474889--24474958 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
24474879 CTGATCAGCA
* * *
24474889 TTGGGCACATATTACTTCGGACGTTCCTATGAGTG
1 TTGGGCACACATTACTTCGAACGTTACTATGAGTG
*
24474924 TTGGGCACACATTACTTCGAATG-TACTGATGAGTG
1 TTGGGCACACATTACTTCGAACGTTACT-ATGAGTG
24474959 CTAGGTGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 3 0.10
35 27 0.90
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (35 bp):
TTGGGCACACATTACTTCGAACGTTACTATGAGTG
Found at i:24474992 original size:70 final size:70
Alignment explanation
Indices: 24474896--24475026 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 70
24474886 GCATTGGGCA
* * * * * *
24474896 CATATTACTTCGGACGTTCCTATGAGTGTTGGGCACACATTACTTCGAATGTACTGATGAGTGCT
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
24474961 AGGTG
66 AGGTG
* * *
24474966 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACTCATTACTTTGGATGTACCGATGAG
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAG
24475027 CACTGGGTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (70 bp):
CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
AGGTG
Found at i:24475008 original size:35 final size:34
Alignment explanation
Indices: 24474899--24475010 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 34
24474889 TTGGGCACAT
* * * * *
24474899 ATTACTTCGGACGTTCCTATGAGTGTTGGGCACAC
1 ATTACTTC-GACATTCCGATGAGTGCTGAGCACTC
* *
24474934 ATTACTTCGA-ATGTACTGATGAGTGCTAGGTGCA-T-
1 ATTACTTCGACAT-T-CCGATGAGTGCT--GAGCACTC
24474969 ATTACTTCAGACATTCCGATGAGTGCTGAGCACTC
1 ATTACTTC-GACATTCCGATGAGTGCTGAGCACTC
24475004 ATTACTT
1 ATTACTT
24475011 TGGATGTACC
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
33 5 0.08
34 4 0.07
35 43 0.70
36 3 0.05
37 6 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (34 bp):
ATTACTTCGACATTCCGATGAGTGCTGAGCACTC
Found at i:24488493 original size:17 final size:16
Alignment explanation
Indices: 24488450--24488496 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
24488440 TACTTAACAA
24488450 AAGAGTTCGCCAAACC
1 AAGAGTTCGCCAAACC
*
24488466 ACAGA-TCTCGCCAAAGCT
1 A-AGAGT-TCGCCAAA-CC
24488484 AAGAGTTCGCCAA
1 AAGAGTTCGCCAA
24488497 TTGGCGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (16 bp):
AAGAGTTCGCCAAACC
Found at i:24490991 original size:17 final size:16
Alignment explanation
Indices: 24490965--24490998 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
24490955 ATGAACATTT
24490965 AAAACCATTAAGAAAC
1 AAAACCATTAAGAAAC
24490981 AAAAGCCATTAAGAAAC
1 AAAA-CCATTAAGAAAC
24490998 A
1 A
24490999 GACATTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAACCATTAAGAAAC
Found at i:24495700 original size:30 final size:30
Alignment explanation
Indices: 24495664--24495724 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
24495654 CATCTATTAT
24495664 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
24495694 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
24495724 C
1 C
24495725 CCAATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.13
Consensus pattern (30 bp):
CACAACTCGTAAAATTACGAACAAAAAAAA
Found at i:24497775 original size:19 final size:20
Alignment explanation
Indices: 24497734--24497775 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
24497724 ATTTCTATGC
* *
24497734 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
24497754 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
24497773 CAT
1 CAT
24497776 CACATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:24502870 original size:20 final size:20
Alignment explanation
Indices: 24502845--24502903 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
24502835 TTTTTAAAAT
24502845 AAAATATTAAATTTAAATTA
1 AAAATATTAAATTTAAATTA
**
24502865 AAAATAAAAAATTATAATATTA
1 AAAATATTAAATT-TAA-ATTA
*
24502887 AATAT-TTAAATATTAAA
1 AAAATATTAAAT-TTAAA
24502904 AAAGTATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.39
21 10 0.32
22 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATTAAATTTAAATTA
Found at i:24503215 original size:15 final size:15
Alignment explanation
Indices: 24503195--24503225 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24503185 ATTTTTTAGA
24503195 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
24503210 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
24503225 A
1 A
24503226 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:24503415 original size:26 final size:26
Alignment explanation
Indices: 24503386--24503436 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
24503376 AATAAATTAT
* *
24503386 AATTTTTTCTAGATTATATATATTTA
1 AATTTTTTATACATTATATATATTTA
*
24503412 AATTTTTTATACATTTTATATATTT
1 AATTTTTTATACATTATATATATTT
24503437 TTAATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTTTTTATACATTATATATATTTA
Found at i:24503438 original size:45 final size:43
Alignment explanation
Indices: 24503364--24503457 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 43
24503354 GTGAATTTTT
*
24503364 TTTATAATTTTTAATAAATTATAATTTTTTCTAGAT-TATATATA
1 TTTA-AATTTTTAATAAATTATAATTTTTT-AAGATGTATATATA
* * * *
24503408 TTTAAATTTTTTATACATTTTATATATTTTTAATATGTATATATA
1 TTTAAATTTTTAATAAATTATA-AT-TTTTTAAGATGTATATATA
24503453 TTTAA
1 TTTAA
24503458 TAAAAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 15 0.36
44 9 0.21
45 18 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (43 bp):
TTTAAATTTTTAATAAATTATAATTTTTTAAGATGTATATATA
Found at i:24509479 original size:59 final size:59
Alignment explanation
Indices: 24509407--24509522 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
24509397 TGATAAAAGA
* * *
24509407 ATGTCTCTCACAGGTTACGTCTTTACTATTAGTGGTTGGGCCATAGTTGGAAAGTCGTT
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
*
24509466 ATGTCTCTCACAGGGTACGTCTTTACTACTGGGGGTTGGGCCATAGTTGGAAAGTCG
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCG
24509523 CTTTGCAGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (59 bp):
ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
Found at i:24511050 original size:22 final size:22
Alignment explanation
Indices: 24511024--24511097 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
24511014 TTAGTTTACC
24511024 TATATTTTGTCTTCTTTGCATA
1 TATATTTTGTCTTCTTTGCATA
* * **
24511046 TATATTATT-TTTTATTTGTTTA
1 TATATT-TTGTCTTCTTTGCATA
24511068 CCTATATTTTGTCTTCTTTGCATA
1 --TATATTTTGTCTTCTTTGCATA
24511092 TATATT
1 TATATT
24511098 ATTTTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 21 0.52
23 4 0.10
24 15 0.38
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (22 bp):
TATATTTTGTCTTCTTTGCATA
Found at i:24511084 original size:46 final size:46
Alignment explanation
Indices: 24511017--24511110 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
24511007 TCCTAAGTTA
24511017 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
1 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
24511063 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
1 GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
24511109 GT
1 GT
24511111 CAAGAGACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.63
Consensus pattern (46 bp):
GTTTACCTATATTTTGTCTTCTTTGCATATATATTATTTTTTATTT
Found at i:24511087 original size:24 final size:24
Alignment explanation
Indices: 24511017--24511087 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
24511007 TCCTAAGTTA
24511017 GTTTACCTATATTTTGTCTTCTTT
1 GTTTACCTATATTTTGTCTTCTTT
** * *
24511041 GCATA--TATATTATT-TTTTATTT
1 GTTTACCTATATT-TTGTCTTCTTT
24511063 GTTTACCTATATTTTGTCTTCTTT
1 GTTTACCTATATTTTGTCTTCTTT
24511087 G
1 G
24511088 CATATATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
22 15 0.43
23 4 0.11
24 16 0.46
ACGTcount: A:0.17, C:0.13, G:0.08, T:0.62
Consensus pattern (24 bp):
GTTTACCTATATTTTGTCTTCTTT
Found at i:24511109 original size:22 final size:22
Alignment explanation
Indices: 24511038--24511109 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
24511028 TTTTGTCTTC
24511038 TTTGCATATATATTATTTTTTA
1 TTTGCATATATATTATTTTTTA
** * *
24511060 TTTGTTTACCTATATT-TTGTCTTC
1 TTTGCATA--TATATTATT-TTTTA
24511084 TTTGCATATATATTATTTTTTA
1 TTTGCATATATATTATTTTTTA
24511106 TTTG
1 TTTG
24511110 TCAAGAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 19 0.50
23 4 0.11
24 15 0.39
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTGCATATATATTATTTTTTA
Found at i:24513257 original size:29 final size:29
Alignment explanation
Indices: 24513225--24513280 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
24513215 AAAGCACTTT
24513225 TTTTTCAA-AATTTACCGAAATGGGCCACA
1 TTTTT-AATAATTTACCGAAATGGGCCACA
* *
24513254 TTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTAATAATTTACCGAAATGGGCCA
24513281 TTTCCGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTTTAATAATTTACCGAAATGGGCCACA
Found at i:24523160 original size:28 final size:28
Alignment explanation
Indices: 24523120--24523173 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
24523110 TGAACCTACA
24523120 AACAACTTGTACATTTAACCAAGACCAT
1 AACAACTTGTACATTTAACCAAGACCAT
24523148 AACAACTTGTACATTTAACCAAGACC
1 AACAACTTGTACATTTAACCAAGACC
24523174 TTAAAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (28 bp):
AACAACTTGTACATTTAACCAAGACCAT
Found at i:24527285 original size:20 final size:20
Alignment explanation
Indices: 24527260--24527299 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24527250 TTTCAATGAG
24527260 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
24527280 AAGGTCCACAAATAAATTAA
1 AAGGTCCACAAATAAATTAA
24527300 CTTAACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
AAGGTCCACAAATAAATTAA
Found at i:24530805 original size:46 final size:45
Alignment explanation
Indices: 24530728--24530864 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 45
24530718 ACAATGTTAT
* * *
24530728 AACTCAGTATGATTTTCTTCACTGAAATACCATACCTACT-TTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTA-TGTTCCAA
* * *
24530774 AACTCAATATGGTTTTCATTATTGAAGTACCATACCTATGTTCCAA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTATGTTCCAA
* * *
24530820 AAATCAGTATGGATTTCTTTACTGAATTACCATACCTATGTTCCA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTATGTTCCA
24530865 TACTTTGCCA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.01
46 74 0.96
47 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTATGTTCCAA
Found at i:24535332 original size:43 final size:43
Alignment explanation
Indices: 24535264--24535350 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
24535254 TTCAAAGTAT
*
24535264 GTTAAATCACACCATCTAACGTTCAACCAATATG-CTTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTC-TAACATA
*
24535307 GTTAAATCACACCATTTAACATTCAACCAATATGTCTAACATA
1 GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
24535350 G
1 G
24535351 ACACCTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (43 bp):
GTTAAATCACACCATCTAACATTCAACCAATATGTCTAACATA
Found at i:24535975 original size:37 final size:37
Alignment explanation
Indices: 24535894--24535968 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
24535884 GAAATATACT
* *** *
24535894 AGATGCTCATAAGAGCTAATCCACTTGATAACATGCC
1 AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
*
24535931 AGATGCTCATAAGAGCCAATTCACCCAATAACACGCC
1 AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
24535968 A
1 A
24535969 ATTGCTCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (37 bp):
AGATGCTCATAAGAGCCAATCCACCCAATAACACGCC
Found at i:24538331 original size:26 final size:28
Alignment explanation
Indices: 24538287--24538339 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
24538277 AAAGTTAATT
24538287 CAATTAAACAAATAAATTACATAAAATG
1 CAATTAAACAAATAAATTACATAAAATG
24538315 CAATT-AA-AAATAAATTACATAAAAT
1 CAATTAAACAAATAAATTACATAAAAT
24538340 TAGTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 18 0.72
27 2 0.08
28 5 0.20
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.26
Consensus pattern (28 bp):
CAATTAAACAAATAAATTACATAAAATG
Found at i:24546625 original size:22 final size:22
Alignment explanation
Indices: 24546600--24546642 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24546590 AACTTAATTC
*
24546600 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
24546622 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
24546643 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:24552482 original size:22 final size:22
Alignment explanation
Indices: 24552452--24552494 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24552442 ACACCAAAAC
* *
24552452 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
24552474 AGGCATTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
24552495 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:24552657 original size:43 final size:42
Alignment explanation
Indices: 24552610--24552772 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 42
24552600 AGACCAAAAG
* **
24552610 CTTTAGCGATGCTTTCACC-ACAAAATCCGCTAAAGGTCATGGT
1 CTTTAGCGACGC-TT-ACCAACAAACGCCGCTAAAGGTCATGGT
*
24552653 CTTTAGCGGCGCTTACCATACAAACGCCGCTAAAGGTCATGGT
1 CTTTAGCGACGCTTACCA-ACAAACGCCGCTAAAGGTCATGGT
* *
24552696 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGGA
1 CTTTAGCGACGCTTACC-AACAAACGCCGCTAAAGGTCATGGT
24552739 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAA
1 CTTTAGCGACGCTTACC-AACAAACGCCGCTAAA
24552773 AACCCTGATA
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 105 0.95
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
CTTTAGCGACGCTTACCAACAAACGCCGCTAAAGGTCATGGT
Found at i:24552684 original size:86 final size:85
Alignment explanation
Indices: 24552588--24552772 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 85
24552578 TTATTTCTAA
* *
24552588 AAACGCCGCTAAAGACCAAAAG-CTTTAGCGATGCTTTCACC-ACAAAATCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGACC-AAAGTCTTTAGCGACGC-TT-ACCAACAAAAGCCGCTAAAGGTCATG
* * *
24552651 GTCTTTAGCGGCGCTTACCATAC
63 GACTTTAGCGACGCTTACCAAAC
** ** * *
24552674 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGGA
1 AAACGCCGCTAAAGACCAAAGTCTTTAGCGACGCTTACC-AACAAAAGCCGCTAAAGGTCATGGA
24552739 CTTTAGCGACGCTTACCAAAC
65 CTTTAGCGACGCTTACCAAAC
24552760 AAACGCCGCTAAA
1 AAACGCCGCTAAA
24552773 AACCCTGATA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 3 0.04
85 4 0.05
86 78 0.92
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCAAAGTCTTTAGCGACGCTTACCAACAAAAGCCGCTAAAGGTCATGGAC
TTTAGCGACGCTTACCAAAC
Found at i:24552787 original size:43 final size:43
Alignment explanation
Indices: 24552636--24552795 Score: 223
Period size: 43 Copynumber: 3.7 Consensus size: 43
24552626 ACCACAAAAT
* *
24552636 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCATACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
24552679 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
24552722 CCGCTAAAGGTCATGGA-CTTTAGCGACGCTTACCAAACAAACG
1 CCGCTAAAGGTCAT-GATCTTTAGCGGCGCTTACCAAACAAACG
*** * *
24552765 CCGCTAAAAACCCTGATATTTAGCGGCGCTT
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTT
24552796 CTCTCGAAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 2 0.02
43 103 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (43 bp):
CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
Found at i:24552838 original size:86 final size:86
Alignment explanation
Indices: 24552636--24552864 Score: 196
Period size: 86 Copynumber: 2.7 Consensus size: 86
24552626 ACCACAAAAT
** * * *** * *
24552636 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCATACAAACGCCGCTAAAGGTCATGGTCTTTA
1 CCGCTAAAGACCATGATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTTA
24552701 GCGGCGCTTACCAAACAAACG
66 GCGGCGCTTACCAAACAAACG
** * *
24552722 CCGCTAAAGGTCATGGA-CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAAACCCTGATATTT
1 CCGCTAAAGACCAT-GATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTT
**
24552786 AGCGGCGCTT-CTCTCGA-AAACG
65 AGCGGCGCTTAC-C-AAACAAACG
* * * * * * *
24552808 CCGTTGAAGACCATGATCTTTAGTGGCGCTTTTCC-CACAAACGCCACTAAAGACCAT
1 CCGCTAAAGACCATGATCTTTAGCGGCGC-TTACCAAACAAACGCCGCTAAAAACCAT
24552865 TACCTTTAGT
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
85 3 0.03
86 107 0.92
87 6 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (86 bp):
CCGCTAAAGACCATGATCTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAAACCATGATATTTA
GCGGCGCTTACCAAACAAACG
Found at i:24552850 original size:43 final size:44
Alignment explanation
Indices: 24552588--24552883 Score: 135
Period size: 43 Copynumber: 6.9 Consensus size: 44
24552578 TTATTTCTAA
** * * ** *
24552588 AAACGCCGCTAAAGACCAAAAGCTTTAGCGATGC-TTTCACCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
** ** * * * *
24552631 AAAATCCGCTAAAGGTCATGGTCTTTAGCGGCGC-TTAC-CATAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTC-CAC
** * * * *
24552674 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGC-TTAC-CAAAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTC-CAC
** * * * *
24552717 AAACGCCGCTAAAGGTCATGGA-CTTTAGCGACGC-TTAC-CAAAC
1 AAACGCCGCTAAAGACCAT-GATCTTTAGTGGCGCTTTTCTC-CAC
* * * * * *
24552760 AAACGCCGCTAAAAACCCTGATATTTAGCGGCGCTTCTCTCGA-
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
* *
24552803 AAACGCCGTTGAAGACCATGATCTTTAGTGGCGCTTTTC-CCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
* * * *
24552846 AAACGCCACTAAAGACCATTACCTTTAGTGGCGTTTTT
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTT
24552884 TAAAAATGCC
Statistics
Matches: 207, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.02
43 197 0.95
44 4 0.02
45 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (44 bp):
AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTCTCCAC
Found at i:24553021 original size:10 final size:10
Alignment explanation
Indices: 24552999--24553035 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
24552989 CAATAAATCT
24552999 ATAATATAT-A
1 ATAA-ATATCA
24553009 ATAAATATCA
1 ATAAATATCA
24553019 ATAAATATCA
1 ATAAATATCA
24553029 ATAAATA
1 ATAAATA
24553036 AAATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAATATCA
Found at i:24553044 original size:20 final size:20
Alignment explanation
Indices: 24552999--24553044 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
24552989 CAATAAATCT
* *
24552999 ATAATATATAATAAATATCA
1 ATAAAATATAATAAATATAA
24553019 AT-AAATATCAATAAATA-AA
1 ATAAAATAT-AATAAATATAA
24553038 ATAAAAT
1 ATAAAAT
24553045 TCGTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAATATAATAAATATAA
Found at i:24553339 original size:66 final size:66
Alignment explanation
Indices: 24553226--24553393 Score: 205
Period size: 66 Copynumber: 2.5 Consensus size: 66
24553216 TTCGCTGCAG
* * * *
24553226 CCTCTGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGCTGCTAGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTT-GTTG
24553290 AA
65 AA
* * *
24553292 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCT-GCTAGAGTTCTTCATATCTTTGTTG
24553356 AA
65 AA
* * * *
24553358 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTT
24553394 TTGTAATTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTTGTTGA
A
Found at i:24558876 original size:42 final size:41
Alignment explanation
Indices: 24558829--24558918 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
24558819 TCACTTATAA
* *
24558829 GTATTATTTC-ACTATGTAAGTTATCATATGATATATATTTAT
1 GTATTATGTCGACTATGTAAGTTAT-ATATGATATA-AGTTAT
* * *
24558871 GTATTATGTCGTATTATGTAAGTTATGTATTATATAAGTTAT
1 GTATTATGTCG-ACTATGTAAGTTATATATGATATAAGTTAT
24558913 GTATTA
1 GTATTA
24558919 ATAAGTTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 20 0.49
43 8 0.20
44 13 0.32
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.50
Consensus pattern (41 bp):
GTATTATGTCGACTATGTAAGTTATATATGATATAAGTTAT
Found at i:24558898 original size:9 final size:9
Alignment explanation
Indices: 24558884--24558939 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
24558874 TTATGTCGTA
24558884 TTATGTAAG
1 TTATGTAAG
24558893 TTATGT-A-
1 TTATGTAAG
*
24558900 TTATATAAG
1 TTATGTAAG
24558909 TTATGT-A-
1 TTATGTAAG
*
24558916 TTA-ATAAG
1 TTATGTAAG
24558924 TTATGTAAG
1 TTATGTAAG
24558933 TTATGTA
1 TTATGTA
24558940 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24558924 original size:15 final size:16
Alignment explanation
Indices: 24558881--24558930 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
24558871 GTATTATGTC
*
24558881 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
24558897 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
24558913 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
24558928 GTA
1 GTA
24558931 AGTTATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:24558973 original size:43 final size:40
Alignment explanation
Indices: 24558884--24558990 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 40
24558874 TTATGTCGTA
* * *
24558884 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
*
24558924 TTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
1 TTATGTAAGTTATGTATCA-TAT-AAAT-TATATATTAATAAG
24558967 TTATGTAA-TATATGTAT--TATAAAT
1 TTATGTAAGT-TATGTATCATATAAAT
24558991 GGGTAATTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.07
40 20 0.34
41 2 0.03
42 4 0.07
43 28 0.48
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
Found at i:24558984 original size:24 final size:24
Alignment explanation
Indices: 24558910--24558985 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
24558900 TTATATAAGT
24558910 TATGTATTAATAAGTTATGTAAGT-
1 TATGTATTAATAAGTTATGTAA-TA
* **
24558934 TATGTA-TCAT---TT-TAAAATA
1 TATGTATTAATAAGTTATGTAATA
*
24558953 TATATATTAATAAGTTATGTAATA
1 TATGTATTAATAAGTTATGTAATA
24558977 TATGTATTA
1 TATGTATTA
24558986 TAAATGGGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
18 1 0.03
19 8 0.21
20 5 0.13
23 5 0.13
24 19 0.50
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (24 bp):
TATGTATTAATAAGTTATGTAATA
Found at i:24559610 original size:15 final size:15
Alignment explanation
Indices: 24559585--24559620 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
24559575 TTAATAAAAG
24559585 GAAAA-AGTAGAAAT
1 GAAAACAGTAGAAAT
24559599 GAAAACAGTAGAAAT
1 GAAAACAGTAGAAAT
24559614 GAAAACA
1 GAAAACA
24559621 AATTGGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (15 bp):
GAAAACAGTAGAAAT
Found at i:24564095 original size:41 final size:41
Alignment explanation
Indices: 24564029--24564121 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
24564019 AAACGCCGCT
* *
24564029 AACGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTTTCTAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTT-TAAGA
** *
24564070 TGCGCCGCTAATGCTCAGGTATTTAGCGGTGCTTTTTAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTTTAAGA
24564111 AACGCCGCTAA
1 AACGCCGCTAA
24564122 AAACCGGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (41 bp):
AACGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTTTAAGA
Found at i:24564137 original size:41 final size:40
Alignment explanation
Indices: 24564092--24564285 Score: 219
Period size: 41 Copynumber: 4.7 Consensus size: 40
24564082 GCTCAGGTAT
* *
24564092 TTAGCGGTGCTTTTTAAGAAACGCCGCTAAAAACCGGAGCA
1 TTAGCGGCGCTTTTTAA-AAACGCCGCTAAAGACCGGAGCA
* *
24564133 TTAGCGGCGCTTTCTAATAAACGCCGCTAAAGACCTGAGCA
1 TTAGCGGCGCTTTTTAA-AAACGCCGCTAAAGACCGGAGCA
* * * *
24564174 TTAGCGGCGCATCTTAGAAAATGCCGCTAAAGATCGGAGCA
1 TTAGCGGCGCTTTTTA-AAAACGCCGCTAAAGACCGGAGCA
* * *
24564215 TTAGCGGCGATTATTCAAAAACGCCGCTAAAGACAGGAGCA
1 TTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGACCGGAGCA
*
24564256 TTAGTGGCG-TGTTTTAAAAAGCGCCGCTAA
1 TTAGCGGCGCT-TTTTAAAAA-CGCCGCTAA
24564286 GGGCCCCAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
40 8 0.06
41 118 0.91
42 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGACCGGAGCA
Found at i:24564414 original size:40 final size:40
Alignment explanation
Indices: 24564346--24564445 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
24564336 TTTGAAAACA
* * *
24564346 CCGCTAATGCTTG-TTTTTAGCGGTGTTTTACA-AATAGCG
1 CCGCTAATGCTTGTTTTTTGGCAGCGTTTTACATAAT-GCG
*
24564385 CCGCTAATGCTTGTTTTTTGGCAGCGTTTTACATAATTCG
1 CCGCTAATGCTTGTTTTTTGGCAGCGTTTTACATAATGCG
24564425 CCGCTAATGCTTGATTTTTTG
1 CCGCTAATGCTTG-TTTTTTG
24564446 TGGCGTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 13 0.24
40 31 0.57
41 10 0.19
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (40 bp):
CCGCTAATGCTTGTTTTTTGGCAGCGTTTTACATAATGCG
Found at i:24568809 original size:12 final size:12
Alignment explanation
Indices: 24568778--24568823 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
24568768 CCGTGTCCCA
24568778 GCCCGTGTGTCC
1 GCCCGTGTGTCC
* * *
24568790 TCTCGTGTGTCT
1 GCCCGTGTGTCC
*
24568802 GCCTGTGTGTCC
1 GCCCGTGTGTCC
24568814 GCCCGTGTGT
1 GCCCGTGTGT
24568824 ATATTCGAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.35
Consensus pattern (12 bp):
GCCCGTGTGTCC
Found at i:24569879 original size:33 final size:33
Alignment explanation
Indices: 24569842--24569926 Score: 80
Period size: 35 Copynumber: 2.5 Consensus size: 33
24569832 CGCCTAGTGT
* * **
24569842 TAGTCAGATAACCGAAATAGTTGTGCCCTGCAC
1 TAGTCAGATAACCGAAATAATTGTACCCAACAC
* * *
24569875 TAGTCAAATAATCGACAAATAATTGTACCCAACGC
1 TAGTCAGATAACCG--AAATAATTGTACCCAACAC
*
24569910 TAGTCGGATAACCGAAA
1 TAGTCAGATAACCGAAA
24569927 ATATCAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
33 15 0.38
35 25 0.62
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (33 bp):
TAGTCAGATAACCGAAATAATTGTACCCAACAC
Found at i:24570546 original size:85 final size:83
Alignment explanation
Indices: 24570429--24570654 Score: 278
Period size: 85 Copynumber: 2.7 Consensus size: 83
24570419 ATGTCGCTAA
* *
24570429 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATA
1 CTTTAGCGGCGCTTA-TGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAG-AAA-A
*
24570494 AACGCCGCTAAAGAACGTGA-T
63 AACGCCGCTAAAGAACAT-ATT
* *
24570515 CTTTAGCGGCGCTTATGAAAAAACACCGCTAAAGATCACGTTCTTTAGCGGCGCTTAAGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAAGAAAAAA
*
24570580 CGCCGCTAAAGATCATATT
65 CGCCGCTAAAGAACATATT
* * *
24570599 CTTTAGCGGCGCTT-TGGGATAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCT
1 CTTTAGCGGCGCTTAT--GAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCT
24570655 TGTTCAAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
83 2 0.02
84 34 0.27
85 70 0.56
86 18 0.15
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (83 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAAC
GCCGCTAAAGAACATATT
Found at i:24570560 original size:42 final size:42
Alignment explanation
Indices: 24570429--24570699 Score: 280
Period size: 42 Copynumber: 6.4 Consensus size: 42
24570419 ATGTCGCTAA
* *
24570429 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-TGAAAAAACGCCGCTAAAGATCATGTT
* * * *
24570472 CTTTAGCGGCGC-TAAGAAAATAAACGCCGCTAAAGAACGTGAT
1 CTTTAGCGGCGCTTATG-AAA-AAACGCCGCTAAAGATCATGTT
* *
24570515 CTTTAGCGGCGCTTATGAAAAAACACCGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
* *
24570557 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATATT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
* *
24570599 CTTTAGCGGCGCTT-TGGGATAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT--GAAAAAACGCCGCTAAAGA-TCATGTT
* * ** * *
24570642 CTATAGCGGCGCTTGTTCAAAAACGCTGCTAATAG-TAATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAA-AGATCATGTT
*
24570684 ATTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
24570700 TTCACAAACG
Statistics
Matches: 193, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.01
42 107 0.55
43 80 0.41
44 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:24570664 original size:85 final size:83
Alignment explanation
Indices: 24570429--24570699 Score: 271
Period size: 85 Copynumber: 3.2 Consensus size: 83
24570419 ATGTCGCTAA
* * *
24570429 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATA
1 CTTTAGCGGCGCTTA-TGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TGAAAA-A
* *
24570494 AACGCCGCTAAAGAACGTGA-T
63 AACGCCGCTAAAGATCAT-ATT
* * *
24570515 CTTTAGCGGCGCTTATGAAAAAACACCGCTAAAGATCACGTTCTTTAGCGGCGCTTAAGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA-AAAAAA
24570580 CGCCGCTAAAGATCATATT
65 CGCCGCTAAAGATCATATT
* * * **
24570599 CTTTAGCGGCGCTT-TGGGATAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGTTCAA
1 CTTTAGCGGCGCTTAT--GAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTG-AAAA
* * *
24570662 AAACGCTGCTAATAG-TAATGTT
62 AAACGCCGCTAA-AGATCATATT
*
24570684 ATTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
24570700 TTCACAAACG
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
83 2 0.01
84 34 0.22
85 104 0.66
86 17 0.11
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (83 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAAAAAAAC
GCCGCTAAAGATCATATT
Found at i:24570665 original size:127 final size:127
Alignment explanation
Indices: 24570429--24570698 Score: 323
Period size: 127 Copynumber: 2.1 Consensus size: 127
24570419 ATGTCGCTAA
* *
24570429 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATA
1 CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAATA
* *
24570494 AACGCCGCTAAAGAACGTGATCTTTAGCGGCGCTTATGAAAAAACACCGCTAA-AGATCACGTT
66 AACGCCGCTAAAGAAC-TGATCTATAGCGGCGCTTATGAAAAAACACCGCTAATAG-TAACGTT
** **
24570557 CTTTAGCGGCGCTTA-AGAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTTG-GGATA
1 CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAAT-
* * ** * * *
24570620 AAACGCCGCTAAAAGTAA-TGTTCTATAGCGGCGCTTGTTCAAAAACGCTGCTAATAGTAATGTT
65 AAACGCCGCT-AAAG-AACTGATCTATAGCGGCGCTTATGAAAAAACACCGCTAATAGTAACGTT
*
24570684 ATTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
24570699 TTTCACAAAC
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
126 2 0.02
127 98 0.80
128 20 0.16
129 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (127 bp):
CTTTAGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAATA
AACGCCGCTAAAGAACTGATCTATAGCGGCGCTTATGAAAAAACACCGCTAATAGTAACGTT
Found at i:24571161 original size:21 final size:22
Alignment explanation
Indices: 24571137--24571205 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 22
24571127 GCTTCTATCG
*
24571137 CTGCTTCTCCT-GCTGTGGCCT
1 CTGCTTCTCCTCGCTGTAGCCT
*
24571158 CTGCTTCT-CTCGCTGTAGCAT
1 CTGCTTCTCCTCGCTGTAGCCT
**
24571179 CTGCTTC-CCTCGCTGCCGCCT
1 CTGCTTCTCCTCGCTGTAGCCT
24571200 CTGCTT
1 CTGCTT
24571206 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.95
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.36
Consensus pattern (22 bp):
CTGCTTCTCCTCGCTGTAGCCT
Found at i:24576680 original size:9 final size:9
Alignment explanation
Indices: 24576655--24576793 Score: 107
Period size: 9 Copynumber: 15.9 Consensus size: 9
24576645 GATTTAGGAA
24576655 TAAGTTATG
1 TAAGTTATG
24576664 T-A-TTATG
1 TAAGTTATG
24576671 TAAGTTATG
1 TAAGTTATG
24576680 TAAGTTATG
1 TAAGTTATG
*
24576689 TAAGTTGTG
1 TAAGTTATG
*
24576698 TAAGTTGTG
1 TAAGTTATG
*
24576707 TAAGTTGTG
1 TAAGTTATG
24576716 T-A-TTATG
1 TAAGTTATG
* *
24576723 AAACTTATG
1 TAAGTTATG
*
24576732 TAAATTATG
1 TAAGTTATG
*
24576741 T--CTTATG
1 TAAGTTATG
24576748 TAAGTTATG
1 TAAGTTATG
24576757 TATTA-TTATG
1 TA--AGTTATG
24576767 TAGAG-TATG
1 TA-AGTTATG
24576776 TATTA-TTATG
1 TA--AGTTATG
24576786 TAAGTTAT
1 TAAGTTAT
24576794 TATGTAAGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
7 16 0.15
8 5 0.05
9 73 0.67
10 14 0.13
11 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24576684 original size:25 final size:25
Alignment explanation
Indices: 24576655--24576758 Score: 127
Period size: 25 Copynumber: 4.1 Consensus size: 25
24576645 GATTTAGGAA
24576655 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
24576680 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
24576707 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
24576732 TAAATTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
24576757 TA
1 TA
24576759 TTATTATGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 42 0.65
26 2 0.03
27 21 0.32
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:24576708 original size:27 final size:26
Alignment explanation
Indices: 24576655--24576793 Score: 117
Period size: 25 Copynumber: 5.3 Consensus size: 26
24576645 GATTTAGGAA
24576655 TAAGTTATGT-ATTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
24576680 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAA-TTATGTAAGTTATG
* * *
24576707 TAAGTTGTGT-ATTATGAAACTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
24576732 TAAATTATGT-CTTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
*
24576757 TATTA-TTATGTAGAGTATGTATTA-TTATG
1 TA--AGTTATGTA-ATTATGTA--AGTTATG
24576786 TAAGTTAT
1 TAAGTTAT
24576794 TATGTAAGTT
Statistics
Matches: 91, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
25 42 0.46
26 8 0.09
27 23 0.25
28 10 0.11
29 7 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
TAAGTTATGTAATTATGTAAGTTATG
Found at i:24576745 original size:16 final size:16
Alignment explanation
Indices: 24576726--24576762 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
24576716 TATTATGAAA
24576726 CTTATGTAAATTATGT
1 CTTATGTAAATTATGT
*
24576742 CTTATGTAAGTTATGT
1 CTTATGTAAATTATGT
*
24576758 ATTAT
1 CTTAT
24576763 TATGTAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (16 bp):
CTTATGTAAATTATGT
Found at i:24576767 original size:19 final size:19
Alignment explanation
Indices: 24576743--24576793 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
24576733 AAATTATGTC
24576743 TTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
24576762 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATGTATTA
24576781 TTATGTAAGTTAT
1 TTATGTAAGTTAT
24576794 TATGTAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAAGTTATGTATTA
Found at i:24576795 original size:12 final size:12
Alignment explanation
Indices: 24576778--24576804 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24576768 AGAGTATGTA
24576778 TTATTATGTAAG
1 TTATTATGTAAG
24576790 TTATTATGTAAG
1 TTATTATGTAAG
24576802 TTA
1 TTA
24576805 CACTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:24576875 original size:37 final size:36
Alignment explanation
Indices: 24576829--24576958 Score: 98
Period size: 37 Copynumber: 3.3 Consensus size: 36
24576819 CCTTATTGTG
24576829 TATTATGTAACTTATTTAATTTATGTAGGGTATGCAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATG-AT
* * * * *
24576866 TATTATGTAAGTTATTATGTAAGTTATGTAAGTTTTTGTTTTTGTT
1 TATTATGTAACTTA-T-T-TAATTTATGT-AG-----G-GTATGAT
*
24576912 TATTATGTAACTTATTTAATTTATGTACGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATG-AT
24576949 TATTATGTAA
1 TATTATGTAA
24576959 GTAGGGATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
36 3 0.04
37 25 0.35
38 1 0.01
39 1 0.01
40 9 0.13
41 2 0.03
42 1 0.01
43 9 0.13
44 1 0.01
45 1 0.01
46 15 0.21
47 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.53
Consensus pattern (36 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGAT
Found at i:24576882 original size:12 final size:12
Alignment explanation
Indices: 24576865--24576892 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24576855 AGGGTATGCA
24576865 TTATTATGTAAG
1 TTATTATGTAAG
24576877 TTATTATGTAAG
1 TTATTATGTAAG
24576889 TTAT
1 TTAT
24576893 GTAAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:24576945 original size:83 final size:82
Alignment explanation
Indices: 24576743--24577068 Score: 350
Period size: 95 Copynumber: 3.7 Consensus size: 82
24576733 AAATTATGTC
* * * **
24576743 TTATGTAAGTTATGTATTATTATGTAGAGTATGTATTATTATGTAAGTTATTATGTAAGTTACAC
1 TTATGTAACTTATTTAAT-TTATGTAG-GTATGTATTATTATGTAAGTTATTATGTAAGTTA-TG
* * *
24576808 TATGTTTTTAACCTTATTGTGTA
63 TAAGTTTTT---GTTTTTGTGTA
*
24576831 TTATGTAACTTATTTAATTTATGTAGGGTATGCATTATTATGTAAGTTATTATGTAAGTTATGTA
1 TTATGTAACTTATTTAATTTATGTA-GGTATGTATTATTATGTAAGTTATTATGTAAGTTATGTA
*
24576896 AGTTTTTGTTTTTGTTTA
65 AGTTTTTGTTTTTGTGTA
24576914 TTATGTAACTTATTTAATTTATGTACGGTATGTATTATTATGTAAGTAGGGATGTCGGATATTAT
1 TTATGTAACTTATTTAATTTATGTA-GGTATGTATTATTA--T--GTA---A-GT----TATTAT
24576979 GTAAGTTATGTAAGTTTTTGTTTTTGTGTA
53 GTAAGTTATGTAAGTTTTTGTTTTTGTGTA
*
24577009 TTATGTAACTTATTTAATTTATGTATGTTATGTATTATTATGT-A-TTATTATGTAAGTTAT
1 TTATGTAACTTATTTAATTTATGTA-GGTATGTATTATTATGTAAGTTATTATGTAAGTTAT
24577069 TATGTAGGTT
Statistics
Matches: 210, Mismatches: 15, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
81 15 0.07
83 46 0.22
85 2 0.01
86 8 0.04
87 44 0.21
88 16 0.08
90 1 0.00
91 4 0.02
93 1 0.00
95 73 0.35
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (82 bp):
TTATGTAACTTATTTAATTTATGTAGGTATGTATTATTATGTAAGTTATTATGTAAGTTATGTAA
GTTTTTGTTTTTGTGTA
Found at i:24577043 original size:34 final size:34
Alignment explanation
Indices: 24576973--24577046 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
24576963 GGATGTCGGA
* * * *
24576973 TATTATGTAAGTTATGTAAGTTTTTGTTTTTGTG
1 TATTATGTAACTTATGTAAGTTTATGTTGTTATG
*
24577007 TATTATGTAACTTATTTAA-TTTATGTATGTTATG
1 TATTATGTAACTTATGTAAGTTTATGT-TGTTATG
24577041 TATTAT
1 TATTAT
24577047 TATGTATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (34 bp):
TATTATGTAACTTATGTAAGTTTATGTTGTTATG
Found at i:24577051 original size:10 final size:10
Alignment explanation
Indices: 24577027--24577086 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
24577017 CTTATTTAAT
*
24577027 TTATGTA-TG
1 TTATGTATTA
24577036 TTATGTATTA
1 TTATGTATTA
24577046 TTATGTATTA
1 TTATGTATTA
24577056 TTATGTAAGTTA
1 TTATGT-A-TTA
24577068 TTATGTAGGTTA
1 TTATGTA--TTA
24577080 TTATGTA
1 TTATGTA
24577087 AGTCATTATG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 7 0.15
10 17 0.37
11 2 0.04
12 20 0.43
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (10 bp):
TTATGTATTA
Found at i:24577070 original size:12 final size:12
Alignment explanation
Indices: 24577043--24577097 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
24577033 ATGTTATGTA
24577043 TTATTATGT-A-
1 TTATTATGTAAG
24577053 TTATTATGTAAG
1 TTATTATGTAAG
*
24577065 TTATTATGTAGG
1 TTATTATGTAAG
24577077 TTATTATGTAAG
1 TTATTATGTAAG
*
24577089 TCATTATGT
1 TTATTATGT
24577098 TGGTTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 30 0.75
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:24577085 original size:24 final size:24
Alignment explanation
Indices: 24577036--24577104 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
24577026 TTTATGTATG
24577036 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
24577056 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
24577080 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
24577104 T
1 T
24577105 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:24577106 original size:21 final size:22
Alignment explanation
Indices: 24577056--24577110 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
24577046 TTATGTATTA
*
24577056 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
24577079 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
24577101 TTATGTAAGT
1 TTATGTAAGT
24577111 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:24577316 original size:9 final size:9
Alignment explanation
Indices: 24577302--24577382 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
24577292 TAAATATTAA
24577302 TAAGTTATG
1 TAAGTTATG
24577311 TAAGTTATG
1 TAAGTTATG
* *
24577320 TATTA-TAAATT
1 TA--AGT-TATG
* *
24577331 TAAATTACG
1 TAAGTTATG
24577340 TAAGTTATG
1 TAAGTTATG
24577349 -AA-TTATG
1 TAAGTTATG
*
24577356 TAAGATATG
1 TAAGTTATG
* *
24577365 TAAATTACG
1 TAAGTTATG
24577374 TAAGTTATG
1 TAAGTTATG
24577383 AAATTTGAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.08
9 37 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24577353 original size:29 final size:33
Alignment explanation
Indices: 24577310--24577384 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
24577300 AATAAGTTAT
*
24577310 GTAAGTTATGTATTA-TAA-AT-T-TAAATTAC
1 GTAAGTTATGAATTAGTAAGATATGTAAATTAC
24577339 GTAAGTTATGAATTATGTAAGATATGTAAATTAC
1 GTAAGTTATGAATTA-GTAAGATATGTAAATTAC
24577373 GTAAGTTATGAA
1 GTAAGTTATGAA
24577385 ATTTGAACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 14 0.35
31 3 0.08
32 2 0.05
33 1 0.03
34 20 0.50
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (33 bp):
GTAAGTTATGAATTAGTAAGATATGTAAATTAC
Found at i:24577376 original size:18 final size:17
Alignment explanation
Indices: 24577332--24577387 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
24577322 TTATAAATTT
24577332 AAATTACGTAAGTTATG
1 AAATTACGTAAGTTATG
* *
24577349 -AATTATGTAAGATATG
1 AAATTACGTAAGTTATG
24577365 TAAATTACGTAAGTTATG
1 -AAATTACGTAAGTTATG
24577383 AAATT
1 AAATT
24577388 TGAACTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
18 14 0.42
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (17 bp):
AAATTACGTAAGTTATG
Found at i:24577439 original size:35 final size:35
Alignment explanation
Indices: 24577407--24577487 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
24577397 AAAAAAATTT
* *
24577407 AATATTTAAAAATATTCGTGATTCAA-ATAAAATAA
1 AATATTTAAAAAAATTCATGATT-AATATAAAATAA
24577442 AATATTTAAAAAAATTCATGATTAATATAAAATAA
1 AATATTTAAAAAAATTCATGATTAATATAAAATAA
24577477 AATATTTAAAA
1 AATATTTAAAA
24577488 TATAACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 2 0.05
35 41 0.95
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (35 bp):
AATATTTAAAAAAATTCATGATTAATATAAAATAA
Done.