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 41 of 240
Found at i:14345299 original size:42 final size:43
Alignment explanation
Indices: 14345105--14345713 Score: 400
Period size: 43 Copynumber: 14.6 Consensus size: 43
14345095 AAGTCATTAA
* * * *
14345105 AGCAGATCTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* * * * *
14345148 AGTAGGTCTTGT-TTCCTATATTGGTAG-GAAGTGGATCGACGAT
1 AGCAGATC-TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* * * * *
14345191 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATC-TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* * *
14345235 AGCAGATCTTTCTTCATGTATTGGCGTGAAGTAGATC-AAGAT
1 AGCAGATCTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* * * * * *
14345277 AGTAGTTCTATCTTCCTATATTGGTAG-GAAGTGGATCGACGAT
1 AGCAGATCTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* * * * * *
14345320 -GCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATC-TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* *
14345364 AGCAGATCTTGTCTTCATGTATTGGC-TGAAGTAGATC-AAGAT
1 AGCAGATC-TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* *
14345406 AGTAGATCTTGTCTTCC-ATA-TGGTG-GAAGTAGATCGAAGA-
1 AGCAGATC-TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
14345446 AGCAGATC--T-TT-CTAT-TT-G-GTGAAGTAGATC---GA-
1 AGCAGATCTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* *
14345478 AGCAGATCTTGTCTTCC-ATATTGGTG-GAAGTAGATCGAAGAA
1 AGCAGATC-TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* *
14345520 AGCAGATTTGTCTTCAT-TATTGGCGTGAAGTAGATC-AA-AT
1 AGCAGATCTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
* * * * *
14345560 A-CAGGTCCGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGCT
1 AGCAGATCTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* * * * *
14345602 A-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATC-TGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAT
* * * *
14345646 AGCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGACGAT
1 AGCAGATC-TGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
14345690 AGCAGATCCTG-CTTCCTATATTGG
1 AGCAGAT-CTGTCTTCCTATATTGG
14345714 TAGGAGTGGA
Statistics
Matches: 445, Mismatches: 84, Indels: 74
0.74 0.14 0.12
Matches are distributed among these distances:
32 10 0.02
34 1 0.00
35 13 0.03
36 9 0.02
37 4 0.01
38 11 0.02
39 12 0.03
40 37 0.08
41 27 0.06
42 87 0.20
43 112 0.25
44 74 0.17
45 48 0.11
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
AGCAGATCTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAT
Found at i:14345334 original size:129 final size:128
Alignment explanation
Indices: 14345103--14345455 Score: 552
Period size: 129 Copynumber: 2.7 Consensus size: 128
14345093 TGAAGTCATT
* * *
14345103 AAAGCAGATCTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTTGTTTCCTATA
1 AAAGCAGATCTTTCTTCATGTATTGGCGTGAAGTAGATC-AAGATAGTAGATCTT-CTTCCTATA
*
14345168 TTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAG
64 TTGGTAGGAAGTGGATCGACGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAG
*
14345233 AAAGCAGATCTTTCTTCATGTATTGGCGTGAAGTAGATCAAGATAGTAGTTCTATCTTCCTATAT
1 AAAGCAGATCTTTCTTCATGTATTGGCGTGAAGTAGATCAAGATAGTAGATCT-TCTTCCTATAT
14345298 TGGTAGGAAGTGGATCGACGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAG
65 TGGTAGGAAGTGGATCGACGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAG
14345362 AAAGCAGATCTTGTCTTCATGTATTGGC-TGAAGTAGATCAAGATAGTAGATCTTGTCTTCC-AT
1 AAAGCAGATCTT-TCTTCATGTATTGGCGTGAAGTAGATCAAGATAGTAGATC-T-TCTTCCTAT
* * *
14345425 A-TGGT-GGAAGTAGATCGAAGAAGCAGATCTT
63 ATTGGTAGGAAGTGGATCGACGATGCAGATCTT
14345456 TCTATTTGGT
Statistics
Matches: 211, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
127 23 0.11
128 4 0.02
129 123 0.58
130 61 0.29
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (128 bp):
AAAGCAGATCTTTCTTCATGTATTGGCGTGAAGTAGATCAAGATAGTAGATCTTCTTCCTATATT
GGTAGGAAGTGGATCGACGATGCAGATCTTATCTTCCCATATTGGTGGCGAAGTAGATCGCAG
Found at i:14347788 original size:22 final size:22
Alignment explanation
Indices: 14347753--14347796 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14347743 ACATATGCAC
* *
14347753 ATACTTACA-TTTTTATTTTATA
1 ATACTTAAAGTTTTT-TTATATA
14347775 ATACTTAAAGTTTTTTTATATA
1 ATACTTAAAGTTTTTTTATATA
14347797 TGTATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
ATACTTAAAGTTTTTTTATATA
Found at i:14352007 original size:16 final size:17
Alignment explanation
Indices: 14351976--14352008 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14351966 TTTAAAAATT
14351976 ATATTATTTTTAATTTA
1 ATATTATTTTTAATTTA
*
14351993 ATATT-TTTTTCATTTA
1 ATATTATTTTTAATTTA
14352009 TTAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATTTTTAATTTA
Found at i:14370064 original size:180 final size:181
Alignment explanation
Indices: 14369741--14370101 Score: 616
Period size: 180 Copynumber: 2.0 Consensus size: 181
14369731 CGGGCAAATG
* * *
14369741 AGAAGAAAATTTACTATGTCGAATTCGAATAATTACAAGAGGAGTAGATTATGTCTATTTATAGG
1 AGAAGAAAATTCACCATGTCGAATTCGAATAATTACAAAAGGAGTAGATTATGTCTATTTATAGG
14369806 CTTGTAAAACCATATTCTAATAGGAATGTAGTAAGATTGAAACACCTTATTCTAATCAATATCAA
66 CTTGTAAAACCATATTCTAATAGGAATGTAGTAAGATTGAAACACCTTATTCTAATCAATATCAA
* * *
14369871 ATAGATAGAGTTTAATAAGGTTTTAAAAACCTTATTTTAAAATAAAATAAA
131 ATAGATAGAGTTTAATAAAGTTTAAAAAACCTTATTCTAAAATAAAATAAA
* *
14369922 AGAA-AAAATTCACCATGTTGAATTCGAATAATTACAAAAGGAGTAGGTTATGTCTATTTATAGG
1 AGAAGAAAATTCACCATGTCGAATTCGAATAATTACAAAAGGAGTAGATTATGTCTATTTATAGG
*
14369986 CTTGTAAAACCATATTCTAATAGGAGTGTAGTAAGATTGAAACACCTTATTCTAATCAATATCAA
66 CTTGTAAAACCATATTCTAATAGGAATGTAGTAAGATTGAAACACCTTATTCTAATCAATATCAA
* *
14370051 ATAGATGGAGTTTAATAAAGTTTAAAAAATCTTATTCTAAAATAAAATAAA
131 ATAGATAGAGTTTAATAAAGTTTAAAAAACCTTATTCTAAAATAAAATAAA
14370102 TGTAGTTCCA
Statistics
Matches: 169, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
180 165 0.98
181 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (181 bp):
AGAAGAAAATTCACCATGTCGAATTCGAATAATTACAAAAGGAGTAGATTATGTCTATTTATAGG
CTTGTAAAACCATATTCTAATAGGAATGTAGTAAGATTGAAACACCTTATTCTAATCAATATCAA
ATAGATAGAGTTTAATAAAGTTTAAAAAACCTTATTCTAAAATAAAATAAA
Found at i:14373973 original size:41 final size:40
Alignment explanation
Indices: 14373926--14374016 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 40
14373916 AACAAGTTTA
* * *
14373926 AAATAAACTTAAGTTAACTATTTATAAATATAGACGATATC
1 AAATAAAATTAAGTTAACTATTTATAAATATAAAC-AAATC
*
14373967 AAATAAAATTGAGTTAACTATTTATAAATATAAACAAATC
1 AAATAAAATTAAGTTAACTATTTATAAATATAAACAAATC
14374007 AAATAAAATT
1 AAATAAAATT
14374017 TGAAACCCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 14 0.30
41 32 0.70
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (40 bp):
AAATAAAATTAAGTTAACTATTTATAAATATAAACAAATC
Found at i:14374188 original size:14 final size:13
Alignment explanation
Indices: 14374157--14374195 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
14374147 TTTAATGTCA
14374157 ATATTTATATGCTTG
1 ATATTTATAT--TTG
14374172 ATATTTGATATTTG
1 ATATTT-ATATTTG
14374186 ATATTTATAT
1 ATATTTATAT
14374196 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.17
14 9 0.39
15 6 0.26
16 4 0.17
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (13 bp):
ATATTTATATTTG
Found at i:14374545 original size:24 final size:20
Alignment explanation
Indices: 14374494--14374545 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
14374484 TATTTTCAAT
14374494 AAAT-AAAATAATTAAATAA
1 AAATAAAAATAATTAAATAA
*
14374513 AACTAAAAATAATTGAACATATA
1 AAATAAAAATAATT-AA-ATA-A
14374536 AAATACAAAA
1 AAATA-AAAA
14374546 AATATCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 2 0.08
22 3 0.12
23 5 0.19
24 4 0.15
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAAAAATAATTAAATAA
Found at i:14374899 original size:150 final size:152
Alignment explanation
Indices: 14374695--14375005 Score: 590
Period size: 150 Copynumber: 2.1 Consensus size: 152
14374685 ATTAGACCCC
14374695 TAAAAAGTATAAATATCAAGATAAGAGAAAAAATGTCAAGTTCAAATGCCAAATATTATATTAAA
1 TAAAAA-TATAAATATCAAGATAAGAGAAAAAATGTCAAGTTCAAATGCCAAATATTATATTAAA
14374760 CCTTTTCATATTTACAAATTTTGCTCCAATATATAAATTTAGATATTTAAATTATTAAATATAAC
65 CCTTTTCATATTTACAAATTTTGCTCCAATATATAAATTTAGATATTTAAATTATTAAATATAAC
14374825 TCTGTAGTCGTATATAAATAAAT
130 TCTGTAGTCGTATATAAATAAAT
*
14374848 TAAAAATATAAATATCAAGAT-A-AGAAAAAATGTCAAGTTCAAATGCTAAATATTATATTAAAC
1 TAAAAATATAAATATCAAGATAAGAGAAAAAATGTCAAGTTCAAATGCCAAATATTATATTAAAC
14374911 CTTTTCATATTTACAAATTTTGCTCCAATATATAAATTTAGATATTTAAATTATTAAATATAACT
66 CTTTTCATATTTACAAATTTTGCTCCAATATATAAATTTAGATATTTAAATTATTAAATATAACT
14374976 CTGTAGTCGTATATAAATAAAT
131 CTGTAGTCGTATATAAATAAAT
14374998 TAAAAATA
1 TAAAAATA
14375006 AGATATATTT
Statistics
Matches: 157, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
150 135 0.86
151 1 0.01
152 15 0.10
153 6 0.04
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.36
Consensus pattern (152 bp):
TAAAAATATAAATATCAAGATAAGAGAAAAAATGTCAAGTTCAAATGCCAAATATTATATTAAAC
CTTTTCATATTTACAAATTTTGCTCCAATATATAAATTTAGATATTTAAATTATTAAATATAACT
CTGTAGTCGTATATAAATAAAT
Found at i:14379770 original size:4 final size:4
Alignment explanation
Indices: 14379761--14379790 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
14379751 GCATAGGTAC
14379761 CCCT CCCT CCCT CCCT CCCT CCCT CCCT CC
1 CCCT CCCT CCCT CCCT CCCT CCCT CCCT CC
14379791 TTAGTCCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (4 bp):
CCCT
Found at i:14397766 original size:3 final size:3
Alignment explanation
Indices: 14397758--14397792 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14397748 AGGGGTTTTC
*
14397758 CTT CTT CTT GTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
14397793 CACTGCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:14401452 original size:17 final size:17
Alignment explanation
Indices: 14401430--14401463 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14401420 TTACATAAAA
14401430 ACATATATTCTTTTATT
1 ACATATATTCTTTTATT
14401447 ACATATATTCTTTTATT
1 ACATATATTCTTTTATT
14401464 GGGAGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
ACATATATTCTTTTATT
Found at i:14408596 original size:18 final size:18
Alignment explanation
Indices: 14408573--14408665 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
14408563 CCCAACTACT
*
14408573 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
14408591 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
14408609 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
14408627 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
14408645 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
14408663 GTA
1 GTA
14408666 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:14413020 original size:30 final size:29
Alignment explanation
Indices: 14412973--14413031 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
14412963 TTTTAGTAAA
14412973 GATAAAATTATATTTTAATCCCTTTAAAAT
1 GATAAAATTATATTTTAAT-CCTTTAAAAT
* *
14413003 GATAAAATT-TTTATTTAATTCTTTAAAAT
1 GATAAAATTATAT-TTTAATCCTTTAAAAT
14413032 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (29 bp):
GATAAAATTATATTTTAATCCTTTAAAAT
Found at i:14413776 original size:3 final size:3
Alignment explanation
Indices: 14413768--14413799 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14413758 TTTGATTTGC
14413768 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
14413800 ACTTCGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:14416088 original size:17 final size:19
Alignment explanation
Indices: 14416066--14416104 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
14416056 ACAAGGGCTT
*
14416066 AAATA-TCATTATAAAC-C
1 AAATATTCATTACAAACAC
14416083 AAATATTCATTACAAACAC
1 AAATATTCATTACAAACAC
14416102 AAA
1 AAA
14416105 CAAGTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATATTCATTACAAACAC
Found at i:14418950 original size:32 final size:32
Alignment explanation
Indices: 14418900--14418962 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
14418890 TGCAATTTTA
*
14418900 GTACCGATTTAAGACTGGAACAGTATGTATTT
1 GTACCGATATAAGACTGGAACAGTATGTATTT
*
14418932 GTACTGATATAAGACTGGAACAGTATGTATT
1 GTACCGATATAAGACTGGAACAGTATGTATT
14418963 AATTTAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (32 bp):
GTACCGATATAAGACTGGAACAGTATGTATTT
Found at i:14420599 original size:22 final size:22
Alignment explanation
Indices: 14420571--14420614 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14420561 GAGATTTCAG
*
14420571 GTTTTCAATGTATAAGTCAACC
1 GTTTTCAATGTATAAGCCAACC
14420593 GTTTTCAATGTATAAGCCAACC
1 GTTTTCAATGTATAAGCCAACC
14420615 TTAAAGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (22 bp):
GTTTTCAATGTATAAGCCAACC
Found at i:14427506 original size:259 final size:260
Alignment explanation
Indices: 14427040--14427538 Score: 750
Period size: 259 Copynumber: 1.9 Consensus size: 260
14427030 ATGGATATGA
* *
14427040 TTACAACTTTAGCCAAGTTATTTGACGTGTCATTTAAAAGGTTTAGTCCGGATGGGTAACCTGAC
1 TTACAACTTTAGCCAAGTTATTTGACGTGTCATTTAAAAGGTTTAGTCCGGACGGGTAACCTCAC
* * *
14427105 ACAAATGGATATGATTAGCTCAAACGAGCATCGGATGTGATTAGTACTAGTGTATTTGAGTTCCT
66 ACAAATGGATATGATTAGCTCAAACGAACATCAGATGTGATTAGTACTAGTGTATTCGAGTTCCT
* * ** * * ** * * *
14427170 TTATGATGTTTCATCGGGTAACTTACAATATGTGAAGTTTGGAAATTATATTGCATGTTATGAAC
131 TTACGATGCTTCATCGAATAACTTACAAGATGTAAAGCGTGGAAACTAGATTGCATGTTATAAAC
*
14427235 TTAATGATCAAATGTGGCAAGTGTGTGACTTAATGACAAGTTTGACGGGTAACTTGATCTGTATT
196 TTAATGATCAAATGTGGCAAGTGTATGACTTAATGACAAGTTTGACGGGTAACTTGATCTGTATT
*
14427300 TTACAGCTTTAGCCAAGTTATTTGACGTGTCA-TTAAAAGGTTTA-TCCCGGACGGGTAACCTCA
1 TTACAACTTTAGCCAAGTTATTTGACGTGTCATTTAAAAGGTTTAGT-CCGGACGGGTAACCTCA
* ** * *
14427363 CACAAATGGATGTGATTAGCTCTGACGAACATCATATGTGATTAGTACTAGTGTATTCGAGTTCT
65 CACAAATGGATATGATTAGCTCAAACGAACATCAGATGTGATTAGTACTAGTGTATTCGAGTTCC
* *
14427428 TTTACGATGCTTCATCGAATATCTTACAAGGTGTAAAGCGTGGAAACTAGATTGCATGTTATAAA
130 TTTACGATGCTTCATCGAATAACTTACAAGATGTAAAGCGTGGAAACTAGATTGCATGTTATAAA
14427493 CTTAATGATCAAATGTGGCAAGTGTATGACTTAATGACAAGTTTGA
195 CTTAATGATCAAATGTGGCAAGTGTATGACTTAATGACAAGTTTGA
14427539 GCAGTGGTGA
Statistics
Matches: 213, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
258 1 0.00
259 181 0.85
260 31 0.15
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (260 bp):
TTACAACTTTAGCCAAGTTATTTGACGTGTCATTTAAAAGGTTTAGTCCGGACGGGTAACCTCAC
ACAAATGGATATGATTAGCTCAAACGAACATCAGATGTGATTAGTACTAGTGTATTCGAGTTCCT
TTACGATGCTTCATCGAATAACTTACAAGATGTAAAGCGTGGAAACTAGATTGCATGTTATAAAC
TTAATGATCAAATGTGGCAAGTGTATGACTTAATGACAAGTTTGACGGGTAACTTGATCTGTATT
Found at i:14442132 original size:14 final size:15
Alignment explanation
Indices: 14442110--14442186 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
14442100 CAATCAAACA
14442110 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
14442124 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
14442139 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
14442159 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
14442173 ACAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
14442187 ACTGGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:14442151 original size:20 final size:20
Alignment explanation
Indices: 14442126--14442165 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14442116 AATATTTTCC
*
14442126 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
14442146 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
14442166 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:14442171 original size:34 final size:35
Alignment explanation
Indices: 14442114--14442180 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
14442104 CAAACACCAG
*
14442114 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
14442149 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
14442181 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14445074 original size:3 final size:3
Alignment explanation
Indices: 14445066--14445098 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14445056 ATCATTGAGA
14445066 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
14445099 CTTTTCTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14455542 original size:10 final size:9
Alignment explanation
Indices: 14455387--14455561 Score: 58
Period size: 9 Copynumber: 19.0 Consensus size: 9
14455377 TTTATAGTCT
14455387 TTTTTATAA
1 TTTTTATAA
*
14455396 TTTTATGTTAA
1 TTTT-T-ATAA
* *
14455407 TTTTAACACA
1 TTTTTATA-A
14455417 TTTTTATAA
1 TTTTTATAA
**
14455426 TATTTTATGG
1 T-TTTTATAA
14455436 TTTTTAT-A
1 TTTTTATAA
14455444 TTTTTATTAAA
1 TTTTTA-T-AA
** *
14455455 AATTTAAATA
1 TTTTTATA-A
*
14455465 TGTTTTGTTAA
1 T-TTTT-ATAA
*
14455476 -TTTTATAT
1 TTTTTATAA
14455484 TTTTTATAA
1 TTTTTATAA
* *
14455493 TTGATTAGAA
1 TT-TTTATAA
14455503 TTTTTA-AA
1 TTTTTATAA
*
14455511 TTTTAAT-A
1 TTTTTATAA
14455519 -TTTTATAA
1 TTTTTATAA
*
14455527 TATTTATAA
1 TTTTTATAA
*
14455536 GTTTT-T-A
1 TTTTTATAA
14455543 TTTTTATAA
1 TTTTTATAA
*
14455552 GTTTATATAA
1 -TTTTTATAA
14455562 CTTAAAATTT
Statistics
Matches: 119, Mismatches: 29, Indels: 35
0.65 0.16 0.19
Matches are distributed among these distances:
7 10 0.08
8 19 0.16
9 42 0.35
10 31 0.26
11 16 0.13
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:14475201 original size:25 final size:25
Alignment explanation
Indices: 14475173--14475226 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14475163 GAAAAAAGAA
*
14475173 GTTAGAATGGAAGAATAAT-GAGTTG
1 GTTA-AATGGAAAAATAATCGAGTTG
* *
14475198 GTTAAGTGGAAAAATGATCGAGTTG
1 GTTAAATGGAAAAATAATCGAGTTG
14475223 GTTA
1 GTTA
14475227 TTGAATTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.37, C:0.02, G:0.31, T:0.30
Consensus pattern (25 bp):
GTTAAATGGAAAAATAATCGAGTTG
Found at i:14476770 original size:25 final size:25
Alignment explanation
Indices: 14476742--14476858 Score: 99
Period size: 25 Copynumber: 4.7 Consensus size: 25
14476732 TCTGAGCAGA
* * *
14476742 ATAATGGGAAGCTTATGTGAGCTAT
1 ATAACGGGAAGCTCATGCGAGCTAT
*
14476767 ATAACGGGAAGCTCATGCGAGCTAA
1 ATAACGGGAAGCTCATGCGAGCTAT
* * * * *
14476792 ATATCCGGAAGTTCATGAGAGCTAA
1 ATAACGGGAAGCTCATGCGAGCTAT
** * * *
14476817 ATATTGTGAAGCTCATGCAAGCTAA
1 ATAACGGGAAGCTCATGCGAGCTAT
*
14476842 ATATCGGGAAGCTCATG
1 ATAACGGGAAGCTCATG
14476859 AGAATGGTGG
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGCGAGCTAT
Found at i:14476802 original size:50 final size:51
Alignment explanation
Indices: 14476748--14476861 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 51
14476738 CAGAATAATG
* * *
14476748 GGAAGCTT-ATGTGAGCTATATAACGGGAAGCTCATGCGAGCTAAATATCC
1 GGAAGCTTCATGAGAGCTAAATAACGGGAAGCTCATGCAAGCTAAATATCC
** * *
14476798 GGAAG-TTCATGAGAGCTAAATATTGTGAAGCTCATGCAAGCTAAATATCG
1 GGAAGCTTCATGAGAGCTAAATAACGGGAAGCTCATGCAAGCTAAATATCC
14476848 GGAAGC-TCATGAGA
1 GGAAGCTTCATGAGA
14476862 ATGGTGGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (51 bp):
GGAAGCTTCATGAGAGCTAAATAACGGGAAGCTCATGCAAGCTAAATATCC
Found at i:14477387 original size:25 final size:25
Alignment explanation
Indices: 14477359--14477488 Score: 170
Period size: 25 Copynumber: 5.2 Consensus size: 25
14477349 AAGCTCCTCT
*
14477359 GAGCTGAATAACGGGAAGTTCATGC
1 GAGCTGAATAACGGGAAGCTCATGC
14477384 GAGCTGAATAACGGGAAGCTCATGC
1 GAGCTGAATAACGGGAAGCTCATGC
* * * *
14477409 GAGCTGTATAATGGAAATCTCATGC
1 GAGCTGAATAACGGGAAGCTCATGC
*
14477434 GAGCTGTATAACGGGAAGCTCATGC
1 GAGCTGAATAACGGGAAGCTCATGC
* * *
14477459 GAGCTAAATATCAGGGAAGCTCATGA
1 GAGCTGAATAAC-GGGAAGCTCATGC
14477485 GAGC
1 GAGC
14477489 GGTGGTGTGT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 76 0.83
26 16 0.17
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (25 bp):
GAGCTGAATAACGGGAAGCTCATGC
Found at i:14481767 original size:16 final size:16
Alignment explanation
Indices: 14481746--14481777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14481736 TATCCAGATC
14481746 TAAATTAACAAAATAA
1 TAAATTAACAAAATAA
*
14481762 TAAATTAGCAAAATAA
1 TAAATTAACAAAATAA
14481778 ACTTCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (16 bp):
TAAATTAACAAAATAA
Found at i:14483073 original size:11 final size:10
Alignment explanation
Indices: 14483015--14483106 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 10
14483005 ATTTTCACAA
14483015 TTTATAATTAT
1 TTTATAATT-T
*
14483026 CTTT-TAAGTT
1 -TTTATAATTT
*
14483036 TTTGTAATTT
1 TTTATAATTT
14483046 GTTTATAA--T
1 -TTTATAATTT
14483055 TTTA-AATTCT
1 TTTATAATT-T
14483065 TTTATAATTT
1 TTTATAATTT
*
14483075 TTTATACAATTA
1 TTTAT--AATTT
*
14483087 TTT-TGATTT
1 TTTATAATTT
14483096 TTTATAATTT
1 TTTATAATTT
14483106 T
1 T
14483107 ATAATTTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 4 0.06
9 10 0.16
10 23 0.36
11 15 0.23
12 10 0.16
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:14484466 original size:36 final size:36
Alignment explanation
Indices: 14484419--14484491 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
14484409 CAGAATTTGG
14484419 AATTTACTTAAATCATCAAAGCAATATCAATCTTTA
1 AATTTACTTAAATCATCAAAGCAATATCAATCTTTA
14484455 AATTTACTTAAATCATCAAAGCAATATCAATCTTTA
1 AATTTACTTAAATCATCAAAGCAATATCAATCTTTA
14484491 A
1 A
14484492 CTGATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (36 bp):
AATTTACTTAAATCATCAAAGCAATATCAATCTTTA
Found at i:14484612 original size:4 final size:4
Alignment explanation
Indices: 14484603--14484627 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14484593 TGGTGTTTTG
14484603 CCAC CCAC CCAC CCAC CCAC CCAC C
1 CCAC CCAC CCAC CCAC CCAC CCAC C
14484628 AAATCTCGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.76, G:0.00, T:0.00
Consensus pattern (4 bp):
CCAC
Found at i:14493992 original size:46 final size:44
Alignment explanation
Indices: 14493925--14494195 Score: 225
Period size: 46 Copynumber: 6.6 Consensus size: 44
14493915 TTTGAGTACT
* *
14493925 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
*
14493971 TCTGATCAAGTGACAAAGTGAT-A-----AG-T-GCTACATTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
*
14494007 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
*
14494053 TCTGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
* *
14494089 TCTGATCAAGTGA-AAA---A-AAGTGATAAG-T-GCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGT-AGCTAGCTACACTTA
*
14494127 TCAGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TAGCTACACTTA
*
14494172 TCT-ATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
14494196 ACCATACGTA
Statistics
Matches: 185, Mismatches: 13, Indels: 58
0.72 0.05 0.23
Matches are distributed among these distances:
31 2 0.01
32 1 0.01
34 1 0.01
35 4 0.02
36 50 0.27
37 2 0.01
38 18 0.10
39 3 0.02
40 4 0.02
42 16 0.09
43 16 0.09
44 4 0.02
45 13 0.07
46 51 0.28
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
Found at i:14494002 original size:36 final size:36
Alignment explanation
Indices: 14493961--14494153 Score: 215
Period size: 36 Copynumber: 5.0 Consensus size: 36
14493951 GGTAGCTTTA
14493961 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
14493997 GCTACATTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
*
14494042 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
14494079 GCTATACTTATCTGATCAAGTGAAAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTG--ACAAAGTGATAAGT
* *
14494117 GCTATACTTATCAGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
14494153 G
1 G
14494154 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 24
0.81 0.05 0.14
Matches are distributed among these distances:
36 65 0.47
37 2 0.01
38 35 0.26
40 2 0.01
42 2 0.01
45 2 0.01
46 29 0.21
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:14494062 original size:82 final size:81
Alignment explanation
Indices: 14493925--14494153 Score: 312
Period size: 82 Copynumber: 2.9 Consensus size: 81
14493915 TTTGAGTACT
14493925 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
14493990 GATAAGTGCTACATTTA
65 GATAAGTGCTACACTTA
*
14494007 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGA-AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
14494072 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * * *
14494089 TCTGATCAAGTGAAAA---A-AAGTGATAAG---T-GCTATACTTATCAGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAGTGATAAGTGGT-AGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
14494146 GATAAGTG
65 GATAAGTG
14494154 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
74 34 0.25
75 1 0.01
77 6 0.04
78 3 0.02
81 3 0.02
82 90 0.66
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGCTACACTTA
Found at i:14494116 original size:120 final size:114
Alignment explanation
Indices: 14493961--14494195 Score: 344
Period size: 120 Copynumber: 2.0 Consensus size: 114
14493951 GGTAGCTTTA
* * *
14493961 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACATTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCAGATCAAGAGACAAAGT
*
14494026 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGC-TTAGCTACACTTATCT-ATC-AGGGAAAAA-TGATAAGT
* * *
14494079 GCTATACTTATCTGATCAAGTGAAAAAAAGTGATAAGTGCTATACTTATCAGATCAAGTGACAAA
1 GCTACACTTATCTGATCAAGTG--AAAAAGTGATAAGTGCTACACTTATCAGATCAAGAGACAAA
*
14494144 GTGATAAGTGGTAGCTTAGCTACACTTATCTATCAGGGACAAATGATAAGT
64 GTGATAAGTGGTAGCTTAGCTACACTTATCTATCAGGGAAAAATGATAAGT
14494195 G
1 G
14494196 ACCATACGTA
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
116 9 0.08
117 7 0.07
118 24 0.22
119 16 0.15
120 51 0.48
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (114 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCAGATCAAGAGACAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTATCAGGGAAAAATGATAAGT
Found at i:14501095 original size:16 final size:16
Alignment explanation
Indices: 14501049--14501103 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
14501039 AATTAATTTT
14501049 TTAAAAATAA--AAAA
1 TTAAAAATAATTAAAA
* *
14501063 TTAAAAAAAATTTAAA
1 TTAAAAATAATTAAAA
*
14501079 TTAAAAATCATTAAAA
1 TTAAAAATAATTAAAA
*
14501095 TTATAAATA
1 TTAAAAATA
14501104 TATATTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 9 0.28
16 23 0.72
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAATAATTAAAA
Found at i:14503861 original size:21 final size:22
Alignment explanation
Indices: 14503837--14503878 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14503827 TTTTTTTACT
*
14503837 AATTTTATGT-TTTTTAATTTA
1 AATTTTATATGTTTTTAATTTA
14503858 AATTTTATATGTTTTTAATTT
1 AATTTTATATGTTTTTAATTT
14503879 TTAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
AATTTTATATGTTTTTAATTTA
Found at i:14503884 original size:23 final size:21
Alignment explanation
Indices: 14503836--14503885 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
14503826 TTTTTTTTAC
*
14503836 TAATTTTATGTTTTTTAATTT
1 TAATTTTATATTTTTTAATTT
*
14503857 AAATTTTATATGTTTTTAATTTT
1 TAATTTTATAT-TTTTTAA-TTT
14503880 TAATTT
1 TAATTT
14503886 AAACTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 7 0.29
23 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TAATTTTATATTTTTTAATTT
Found at i:14503907 original size:29 final size:29
Alignment explanation
Indices: 14503847--14503908 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
14503837 AATTTTATGT
* * **
14503847 TTTTTAATTTAAATTTTATATGTTTTTAA
1 TTTTTAATTTAAACTTTATACGGATTTAA
*
14503876 TTTTTAATTTAAACTTTATACGGATTTCA
1 TTTTTAATTTAAACTTTATACGGATTTAA
14503905 TTTT
1 TTTT
14503909 ATTTTTTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTTTAATTTAAACTTTATACGGATTTAA
Found at i:14505651 original size:28 final size:28
Alignment explanation
Indices: 14505603--14505660 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
14505593 AAAAATGATG
*
14505603 AAAAAATAAAAATTAATTAAAGT-TATA
1 AAAAAATAAAAATTAATTAAAATATATA
*
14505630 AAAAACATAAAATTTTAA-TAAAATATATA
1 AAAAA-ATAAAA-ATTAATTAAAATATATA
14505659 AA
1 AA
14505661 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 11 0.42
29 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAATAAAAATTAATTAAAATATATA
Found at i:14505700 original size:22 final size:21
Alignment explanation
Indices: 14505658--14505710 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
14505648 TAAAATATAT
14505658 AAATTATTAAAAATTAGAAAA
1 AAATTATTAAAAATTAGAAAA
14505679 CAAATTA-TAAAAATCGTA-AAAA
1 -AAATTATTAAAAAT--TAGAAAA
14505701 AAA-TATTAAA
1 AAATTATTAAA
14505711 TATATAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.07
21 14 0.50
22 10 0.36
23 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (21 bp):
AAATTATTAAAAATTAGAAAA
Found at i:14505855 original size:29 final size:29
Alignment explanation
Indices: 14505823--14505884 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
14505813 ATTTATTTAC
* *
14505823 ATTTTTATATTTTTCTTATAA-CTTTATAA
1 ATTTTTATAATTTT-TTACAATCTTTATAA
*
14505852 ATTTTTATAATTTTTTACAATTTTTATAA
1 ATTTTTATAATTTTTTACAATCTTTATAA
14505881 ATTT
1 ATTT
14505885 ATTCTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTATAATTTTTTACAATCTTTATAA
Found at i:14505860 original size:10 final size:10
Alignment explanation
Indices: 14505845--14505944 Score: 68
Period size: 10 Copynumber: 10.2 Consensus size: 10
14505835 TTCTTATAAC
14505845 TTTATAAATT
1 TTTATAAATT
14505855 TTTAT-AATT
1 TTTATAAATT
14505864 TTT-TACAATT
1 TTTATA-AATT
14505874 TTTATAAATT
1 TTTATAAATT
*
14505884 TATTCTAAA-T
1 T-TTATAAATT
14505894 TTTA-AATATT
1 TTTATAA-ATT
* *
14505904 TTAATATATT
1 TTTATAAATT
*
14505914 TTTATTAAAAT
1 TTTA-TAAATT
*
14505925 TTAAT-AA-T
1 TTTATAAATT
*
14505933 TTTATAACTT
1 TTTATAAATT
14505943 TT
1 TT
14505945 ATTTATTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
8 8 0.11
9 13 0.19
10 33 0.47
11 16 0.23
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:14505896 original size:29 final size:29
Alignment explanation
Indices: 14505845--14505944 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
14505835 TTCTTATAAC
*
14505845 TTTATAAATTTTTATAATTTTTTACAAT-T
1 TTTATAAATTTTTATAATATTTTA-AATAT
*
14505874 TTTATAAATTTATTCTAA-ATTTTAAATAT
1 TTTATAAATTT-TTATAATATTTTAAATAT
* *
14505903 TTTAATATATTTTTATTAA-AATTT-AATAAT
1 TTT-ATAAATTTTTA-TAATATTTTAAAT-AT
*
14505933 TTTATAACTTTT
1 TTTATAAATTTT
14505945 ATTTATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.05
29 32 0.54
30 24 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTATAAATTTTTATAATATTTTAAATAT
Found at i:14505906 original size:48 final size:48
Alignment explanation
Indices: 14505806--14505916 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
14505796 TTTTTTAGGA
** * *
14505806 ATTTTAT-ATTTATTTACATTTTTATATTTTTCTTATAACTTTATAAAT
1 ATTTTATAATTT-TTTACATTTTTATAAATTTATTATAAATTTATAAAT
*
14505854 -TTTTATAATTTTTTACAATTTTTATAAATTTATTCTAAATTT-TAAAT
1 ATTTTATAATTTTTTAC-ATTTTTATAAATTTATTATAAATTTATAAAT
14505901 ATTTTAATATATTTTT
1 ATTTT-ATA-ATTTTT
14505917 ATTAAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
47 16 0.30
48 28 0.53
49 3 0.06
50 6 0.11
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (48 bp):
ATTTTATAATTTTTTACATTTTTATAAATTTATTATAAATTTATAAAT
Found at i:14511999 original size:23 final size:23
Alignment explanation
Indices: 14511956--14511999 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14511946 TTAAAAGTCT
* *
14511956 ATATGTTAAAAAGATCTTTAAGA
1 ATATGTGAAAAAGATCATTAAGA
14511979 ATATGTGAAAAA-ATCAATTAA
1 ATATGTGAAAAAGATC-ATTAA
14512000 ATGTCTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (23 bp):
ATATGTGAAAAAGATCATTAAGA
Found at i:14512138 original size:9 final size:9
Alignment explanation
Indices: 14512126--14512355 Score: 60
Period size: 10 Copynumber: 23.8 Consensus size: 9
14512116 AAAAATCAGA
14512126 AAAAATTAT
1 AAAAATTAT
*
14512135 AAAAATATCT
1 AAAAAT-TAT
*
14512145 AAAAGGTTTAT
1 AAAA--ATTAT
*
14512156 GAAAATTAT
1 AAAAATTAT
*
14512165 AAAAAAGTACT
1 -AAAAATTA-T
14512176 AAAAACTT-T
1 AAAAA-TTAT
*
14512185 AAATATTAT
1 AAAAATTAT
14512194 CAAAAATCTA-
1 -AAAAAT-TAT
*
14512204 ATAAATCTA-
1 AAAAAT-TAT
* *
14512213 ATAAATTTT
1 AAAAATTAT
14512222 AATAAATTAT
1 AA-AAATTAT
*
14512232 -AAAATTAAC
1 AAAAATT-AT
*
14512241 AATAAATATTT
1 AA-AAAT-TAT
*
14512252 AAAATTTTAT
1 AAAA-ATTAT
*
14512262 AAAAACGTAT
1 AAAAA-TTAT
*
14512272 AAAAATTCTT
1 AAAAATT-AT
14512282 AAAAAATTTAT
1 -AAAAA-TTAT
*
14512293 AAAAAATCAT
1 -AAAAATTAT
14512303 AAAAATTATT
1 AAAAATTA-T
14512313 AAAAA-TAT
1 AAAAATTAT
*
14512321 -TAAATTGAT
1 AAAAATT-AT
*
14512330 ATAAACTTA-
1 A-AAAATTAT
14512339 AAAAATTTAT
1 AAAAA-TTAT
14512349 AAAAATT
1 AAAAATT
14512356 TGAATTGGAC
Statistics
Matches: 164, Mismatches: 30, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
7 3 0.02
8 13 0.08
9 51 0.31
10 61 0.37
11 32 0.20
12 4 0.02
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14512277 original size:21 final size:21
Alignment explanation
Indices: 14512252--14512307 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
14512242 ATAAATATTT
14512252 AAAATT-TTATAAAAACGTATA
1 AAAATTCTTA-AAAAACGTATA
**
14512273 AAAATTCTTAAAAAATTTATA
1 AAAATTCTTAAAAAACGTATA
* *
14512294 AAAAATCATAAAAA
1 AAAATTCTTAAAAA
14512308 TTATTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATTCTTAAAAAACGTATA
Found at i:14512295 original size:31 final size:31
Alignment explanation
Indices: 14512247--14512317 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
14512237 TAACAATAAA
* * *
14512247 TATTTAAAATTTTATAAAAACGT-ATAAAAAT
1 TATTAAAAAATTTATAAAAA-ATCATAAAAAT
*
14512278 TCTTAAAAAATTTATAAAAAATCATAAAAAT
1 TATTAAAAAATTTATAAAAAATCATAAAAAT
14512309 TATTAAAAA
1 TATTAAAAA
14512318 TATTAAATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (31 bp):
TATTAAAAAATTTATAAAAAATCATAAAAAT
Found at i:14512352 original size:10 final size:10
Alignment explanation
Indices: 14512251--14512356 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
14512241 AATAAATATT
*
14512251 TAAAATTTTA
1 TAAAAATTTA
**
14512261 TAAAAACGTA
1 TAAAAATTTA
14512271 TAAAAATTCT-
1 TAAAAATT-TA
14512281 TAAAAAATTTA
1 T-AAAAATTTA
* *
14512292 TAAAAAATCA
1 TAAAAATTTA
14512302 TAAAAA-TTA
1 TAAAAATTTA
14512311 TTAAAAA--TA
1 -TAAAAATTTA
* *
14512320 T-TAAATTGA
1 TAAAAATTTA
* *
14512329 TATAAACTTA
1 TAAAAATTTA
14512339 -AAAAATTTA
1 TAAAAATTTA
14512348 TAAAAATTT
1 TAAAAATTT
14512357 GAATTGGACC
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
7 3 0.04
8 1 0.01
9 13 0.18
10 48 0.65
11 9 0.12
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:14513146 original size:9 final size:9
Alignment explanation
Indices: 14512874--14513119 Score: 67
Period size: 10 Copynumber: 25.7 Consensus size: 9
14512864 TTTTCATGAT
14512874 ATTTTTAATA
1 ATTTTT-ATA
*
14512884 ATTATTATA
1 ATTTTTATA
*
14512893 ACTTTATATCA
1 A-TTTTTAT-A
*
14512904 ATTTTAAT-
1 ATTTTTATA
14512912 ATTTTTATGA
1 ATTTTTAT-A
*
14512922 TTTTTTATA
1 ATTTTTATA
* * *
14512931 GTTGTTAAGA
1 ATT-TTTATA
*
14512941 ATTTTTTTA
1 ATTTTTATA
*
14512950 CTTTTT-T-
1 ATTTTTATA
*
14512957 A-TTTTAAA
1 ATTTTTATA
14512965 TATGTTTTATTA
1 -AT-TTTTA-TA
*
14512977 A-TTTCATA
1 ATTTTTATA
*
14512985 ATTTATTAAA
1 ATTT-TTATA
*
14512995 ATTTGTTA-G
1 ATTT-TTATA
14513004 ATTTTTAATA
1 ATTTTT-ATA
*
14513014 ATATTTATA
1 ATTTTTATA
14513023 AGTTTTTATTAA
1 A-TTTTTA-T-A
14513035 ATTTTTTTATA
1 A--TTTTTATA
*
14513046 ATTTTTACA
1 ATTTTTATA
*
14513055 AGTTTATATCA
1 A-TTTTTAT-A
* *
14513066 ATTTTAATT
1 ATTTTTATA
14513075 ATTTTT-TAA
1 ATTTTTAT-A
14513084 ATATTTTA-A
1 AT-TTTTATA
14513093 ATTTTTATAA
1 ATTTTTAT-A
14513103 TGATTTTTATA
1 --ATTTTTATA
14513114 ATTTTT
1 ATTTTT
14513120 TTTTGATTTT
Statistics
Matches: 173, Mismatches: 35, Indels: 57
0.65 0.13 0.22
Matches are distributed among these distances:
6 4 0.02
8 19 0.11
9 55 0.32
10 63 0.36
11 14 0.08
12 12 0.07
13 6 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:14537814 original size:26 final size:26
Alignment explanation
Indices: 14537783--14537855 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
14537773 ACGAATTTTC
14537783 TCAAAATTTTACTAGGGGTAAAATTG
1 TCAAAATTTTACTAGGGGTAAAATTG
*
14537809 TCAAAATTTTA-TCA-AGGTAAAATTG
1 TCAAAATTTTACT-AGGGGTAAAATTG
*
14537834 TCAAAAAATTTACT-GGGGTAAA
1 TC-AAAATTTTACTAGGGGTAAA
14537856 CTTGGGATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 13 0.32
26 26 0.65
27 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATTG
Found at i:14539456 original size:14 final size:14
Alignment explanation
Indices: 14539439--14539484 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
14539429 TAAAAAAATG
14539439 TTATTAAATTATTA
1 TTATTAAATTATTA
*
14539453 TTATTAAATTAGTA
1 TTATTAAATTATTA
14539467 TTATTAAATTATTA
1 TTATTAAATTATTA
14539481 TTAT
1 TTAT
14539485 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:14539620 original size:3 final size:3
Alignment explanation
Indices: 14539614--14539645 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14539604 TATTAAAATA
14539614 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14539646 ATTAGGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14540859 original size:21 final size:21
Alignment explanation
Indices: 14540830--14540894 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
14540820 ATGTATCGTA
*
14540830 TATCTGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
14540851 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
* **
14540872 TTTCAGGCA-CTTATGTGTCG
1 TATCAGGCACCTCGTGTGTCG
14540892 TAT
1 TAT
14540895 ACTGATCAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 11 0.28
21 28 0.72
ACGTcount: A:0.14, C:0.25, G:0.26, T:0.35
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:14544315 original size:42 final size:42
Alignment explanation
Indices: 14544257--14544346 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
14544247 CATCAAGTGT
*
14544257 TTTC-TTCTTGCCTAAAATTGATTGAAGGAGATGACAATCTC
1 TTTCTTTCTTGCCTAAAATTGATTGAAAGAGATGACAATCTC
*
14544298 TTTCTTTCTTTCCTAAAATTGATTGAAAGAGATGACAATCTC
1 TTTCTTTCTTGCCTAAAATTGATTGAAAGAGATGACAATCTC
14544340 TTTCTTT
1 TTTCTTT
14544347 TCACTAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (42 bp):
TTTCTTTCTTGCCTAAAATTGATTGAAAGAGATGACAATCTC
Found at i:14573570 original size:6 final size:7
Alignment explanation
Indices: 14573551--14573579 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14573541 ATCACTCAAG
14573551 ATAAAAA
1 ATAAAAA
14573558 ATAAAAA
1 ATAAAAA
14573565 ATAAAAA
1 ATAAAAA
14573572 ATAAAAA
1 ATAAAAA
14573579 A
1 A
14573580 AGAAGCATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:14575302 original size:24 final size:25
Alignment explanation
Indices: 14575241--14575302 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
14575231 AAAATTCATT
*
14575241 AATATTATGATATATGAAATATATA
1 AATATTATAATATATGAAATATATA
* *
14575266 AAT-TTA-AATTATATTAAGTA-ATA
1 AATATTATAA-TATATGAAATATATA
14575289 AATATTATAATATA
1 AATATTATAATATA
14575303 AGTAATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 7 0.23
24 19 0.61
25 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (25 bp):
AATATTATAATATATGAAATATATA
Found at i:14576311 original size:18 final size:18
Alignment explanation
Indices: 14576288--14576337 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
14576278 TTATAGTCCA
14576288 CCTCCACCACCTTCTTGG
1 CCTCCACCACCTTCTTGG
14576306 CCTCCACCACCTTCTTGG
1 CCTCCACCACCTTCTTGG
*
14576324 CATCCACCACCTTC
1 CCTCCACCACCTTC
14576338 GCCTCCACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.14, C:0.52, G:0.08, T:0.26
Consensus pattern (18 bp):
CCTCCACCACCTTCTTGG
Found at i:14576344 original size:15 final size:16
Alignment explanation
Indices: 14576288--14576346 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 16
14576278 TTATAGTCCA
14576288 CCTCCACCACCTTCTTGG
1 CCTCCACCACCTTC-T-G
14576306 CCTCCACCACCTTCTTGG
1 CCTCCACCACCTTC-T-G
*
14576324 CATCCACCACCTTC-G
1 CCTCCACCACCTTCTG
14576339 CCTCCACC
1 CCTCCACC
14576347 TGTTAGACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 8 0.21
18 31 0.79
ACGTcount: A:0.14, C:0.54, G:0.08, T:0.24
Consensus pattern (16 bp):
CCTCCACCACCTTCTG
Found at i:14576868 original size:135 final size:135
Alignment explanation
Indices: 14576626--14576898 Score: 528
Period size: 135 Copynumber: 2.0 Consensus size: 135
14576616 CACGTCCAAG
*
14576626 ACCGCTAAGGCAGCCAAGTCCAGCTTTAGCGGCACGACCTTTCTTAACATGTACATCACAATCTC
1 ACCGCTAAGGCAGCCAAGTCCAGCTTTAGCAGCACGACCTTTCTTAACATGTACATCACAATCTC
14576691 AAGGGATGGCTGAATCATCAGTGGCACTGGAACTAAACCCTTCTGGTTCTGCGACGCCTTCACAT
66 AAGGGATGGCTGAATCATCAGTGGCACTGGAACTAAACCCTTCTGGTTCTGCGACGCCTTCACAT
14576756 GCAAA
131 GCAAA
*
14576761 ACCGCTAAGGCAGCCAAGTCCAGCTTTAGCAGCACGACCTTTCTTAACATGTATATCACAATCTC
1 ACCGCTAAGGCAGCCAAGTCCAGCTTTAGCAGCACGACCTTTCTTAACATGTACATCACAATCTC
14576826 AAGGGATGGCTGAATCATCAGTGGCACTGGAACTAAACCCTTCTGGTTCTGCGACGCCTTCACAT
66 AAGGGATGGCTGAATCATCAGTGGCACTGGAACTAAACCCTTCTGGTTCTGCGACGCCTTCACAT
14576891 GCAAA
131 GCAAA
14576896 ACC
1 ACC
14576899 TGGTTTGACT
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (135 bp):
ACCGCTAAGGCAGCCAAGTCCAGCTTTAGCAGCACGACCTTTCTTAACATGTACATCACAATCTC
AAGGGATGGCTGAATCATCAGTGGCACTGGAACTAAACCCTTCTGGTTCTGCGACGCCTTCACAT
GCAAA
Found at i:14578185 original size:20 final size:21
Alignment explanation
Indices: 14578150--14578189 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14578140 GTGTTTTATT
14578150 TAATTTATAAAAATAAAAATC
1 TAATTTATAAAAATAAAAATC
*
14578171 TAATTT-TATAAATAAAAAT
1 TAATTTATAAAAATAAAAAT
14578190 TCATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTTATAAAAATAAAAATC
Found at i:14580563 original size:2 final size:2
Alignment explanation
Indices: 14580556--14580623 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
14580546 AATTCAAATC
14580556 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* *
14580598 CA CA CA CA CA CA CG CG CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
14580624 TATATTCATA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14580754 original size:48 final size:48
Alignment explanation
Indices: 14580689--14580862 Score: 186
Period size: 48 Copynumber: 3.6 Consensus size: 48
14580679 AAAACAGTTT
* * * * * *
14580689 TCTCAGTGGCCTACACACAGTCCGTACCACCTTTGTGTAATAATAGAC
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* **
14580737 TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* * **
14580785 TATTGGTGGCCTGCACACAGTCCGTACCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* * * * *
14580833 TATTGGTGACCTGCATACAGTCCGTGCCAC
1 TCTCGGTGGCCTGCACACAGTCCGTACCAC
14580863 ATATGCGACC
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
Found at i:14589657 original size:87 final size:87
Alignment explanation
Indices: 14589506--14589782 Score: 518
Period size: 87 Copynumber: 3.2 Consensus size: 87
14589496 ATACTCGATC
* *
14589506 ACCTTCTCGGTCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
1 ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
14589571 GTACATTTCCTCCCTCATGTCA
66 GTACATTTCCTCCCTCATGTCA
*
14589593 ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACATACTCCTTCATATCCACCGCCTC
1 ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
*
14589658 GTACATTTCCTCCCTCAAGTCA
66 GTACATTTCCTCCCTCATGTCA
14589680 ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
1 ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
14589745 GTACATTTCCTCCCTCATGTCA
66 GTACATTTCCTCCCTCATGTCA
14589767 ACCTCCTCGGCCTCCA
1 ACCTCCTCGGCCTCCA
14589783 ACTCCAACGG
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 184 1.00
ACGTcount: A:0.21, C:0.43, G:0.10, T:0.26
Consensus pattern (87 bp):
ACCTCCTCGGCCTCCACCACAAAGTCGTCCACCTATTAGACGTACTCCTTCATATCCACCGCCTC
GTACATTTCCTCCCTCATGTCA
Found at i:14602238 original size:4 final size:4
Alignment explanation
Indices: 14602231--14602489 Score: 113
Period size: 4 Copynumber: 66.8 Consensus size: 4
14602221 CTCTGCAAGA
* * * * * *
14602231 AGAG AGAG AGAG AGAG ACAG AGAG GGAG AGAG GGAG AGAG GGAG GGAC
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * * * *
14602279 A-AG -GAG CGGG AGGG ACAG GGAG GGAG AGAG GGAA AGCG AGAG AGGG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * * *
14602325 AGAG AGAG AGGG AGAG GGAG AGGG AGGG ACAG CA-AG CGGG AGGG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG -AGAG AGAG AGAG AGAG
* * * * *
14602373 AGAG AGGG AGAG AGA- AG-G AGAG AGGG AGGG AGAG AGAG GGAG GGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * * *
14602419 AGCG AGAG AGAG GGGG AGAG AG-G A-AG GGGG AGGG AGAG TGAG -GA-
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
*
14602463 AGAG AGAA AGAG AGAG AGAG AGAG AGA
1 AGAG AGAG AGAG AGAG AGAG AGAG AGA
14602490 AGCAGCGAAT
Statistics
Matches: 190, Mismatches: 55, Indels: 20
0.72 0.21 0.08
Matches are distributed among these distances:
3 14 0.07
4 175 0.92
5 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.57, T:0.00
Consensus pattern (4 bp):
AGAG
Found at i:14602246 original size:10 final size:10
Alignment explanation
Indices: 14602231--14602489 Score: 113
Period size: 10 Copynumber: 26.7 Consensus size: 10
14602221 CTCTGCAAGA
14602231 AGAGAGAGAG
1 AGAGAGAGAG
*
14602241 AGAGAGACAG
1 AGAGAGAGAG
*
14602251 AGAGGGAGAG
1 AGAGAGAGAG
*
14602261 AGGGAGAGAG
1 AGAGAGAGAG
* * *
14602271 GGAGGGACA-
1 AGAGAGAGAG
* *
14602280 AG-GAGCGGG
1 AGAGAGAGAG
* * *
14602289 AGGGACAGGG
1 AGAGAGAGAG
*
14602299 AGGGAGAGAG
1 AGAGAGAGAG
* * *
14602309 GGAAAGCGAG
1 AGAGAGAGAG
*
14602319 AGAGGGAGAG
1 AGAGAGAGAG
*
14602329 AGAGAGGGAG
1 AGAGAGAGAG
* *
14602339 AGGGAGAGGG
1 AGAGAGAGAG
* *
14602349 AGGGACAGCA-
1 AGAGAGAG-AG
* * *
14602359 AGCGGGAGGG
1 AGAGAGAGAG
14602369 AGAGAGAGAG
1 AGAGAGAGAG
*
14602379 GGAGAGAGA-
1 AGAGAGAGAG
14602388 AG-GAGAGAG
1 AGAGAGAGAG
* *
14602397 GGAGGGAGAG
1 AGAGAGAGAG
* *
14602407 AGAGGGAGGG
1 AGAGAGAGAG
*
14602417 AGAGCGAGAG
1 AGAGAGAGAG
* *
14602427 AGAGGGGGAG
1 AGAGAGAGAG
14602437 AGAG-GA-AG
1 AGAGAGAGAG
* * *
14602445 GGGGAGGGAG
1 AGAGAGAGAG
*
14602455 AGTGAG-GA-
1 AGAGAGAGAG
*
14602463 AGAGAGAAAG
1 AGAGAGAGAG
14602473 AGAGAGAGAG
1 AGAGAGAGAG
14602483 AGAGAGA
1 AGAGAGA
14602490 AGCAGCGAAT
Statistics
Matches: 180, Mismatches: 59, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
8 17 0.09
9 10 0.06
10 153 0.85
ACGTcount: A:0.39, C:0.03, G:0.57, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAG
Found at i:14602304 original size:38 final size:38
Alignment explanation
Indices: 14602252--14602420 Score: 131
Period size: 38 Copynumber: 4.5 Consensus size: 38
14602242 GAGAGACAGA
14602252 GAGGGAGA--GAGGGAGAGAGGGAGGGACA-AGGAGCGG
1 GAGGGAGAGGGAGGGAGAGAGGGAGGGACAGA-GAGCGG
* **
14602288 GAGGGACAGGGAGGGAGAGAGGGAAAG-CGAGAGAG-GG
1 GAGGGAGAGGGAGGGAGAGAGGGAGGGAC-AGAGAGCGG
*
14602325 AGAGAGAGAGGGAGAGG-GAGAGGGAGGGACAGCA-AGCGG
1 -GAGGGAGAGGGAG-GGAGAGAGGGAGGGACAG-AGAGCGG
* * * *
14602364 GAGGGAGAGAGAGAGGGAGAGA--GAAGGAGAGAGGGAGG
1 GAGGGAGAG-G-GAGGGAGAGAGGGAGGGACAGAGAGCGG
*
14602402 GAGAGAGAGGGAGGGAGAG
1 GAGGGAGAGGGAGGGAGAG
14602421 CGAGAGAGAG
Statistics
Matches: 107, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
36 16 0.15
37 5 0.05
38 69 0.64
39 10 0.09
40 7 0.07
ACGTcount: A:0.36, C:0.04, G:0.60, T:0.00
Consensus pattern (38 bp):
GAGGGAGAGGGAGGGAGAGAGGGAGGGACAGAGAGCGG
Found at i:14602394 original size:60 final size:61
Alignment explanation
Indices: 14602250--14602456 Score: 169
Period size: 60 Copynumber: 3.4 Consensus size: 61
14602240 GAGAGAGACA
* * * * ** *
14602250 GAGAGGGAGAGAGGGAGAGAGG-GAGGGACAAGGAGCGGGAGGGACAGGGAGGGAGAGAGG
1 GAGAGAGAGAGAGGGAGAGAGGAGAGGGAGAGGGAGAGGGAGGGACAGCAAGCGAGAGAGG
* *
14602310 GAAAGCGAGAGAGGGAGAGA-GAGAGGGAGAGGGAGAGGGAGGGACAGCAAGCG-G-GAGG
1 GAGAGAGAGAGAGGGAGAGAGGAGAGGGAGAGGGAGAGGGAGGGACAGCAAGCGAGAGAGG
* * * * *
14602368 GAGAGAGAGAG-GGAGAGAGAAGGAGAGAGGGAGGGAGAGAGAGGGAGGGAGAGCGAGAGAGAGG
1 GAGAGAGAGAGAGG-GAGAG-A-G-GAGAGGGA--GAGGGAGAGGGAGGGACAGCAAGCGAGAGA
14602432 GG
60 GG
*
14602434 GAGAGAG-GA-AGGGGGAG-GGAGAG
1 GAGAGAGAGAGAGGGAGAGAGGAGAG
14602457 TGAGGAAGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
57 2 0.02
58 18 0.15
59 3 0.03
60 48 0.40
61 1 0.01
62 8 0.07
64 25 0.21
65 5 0.04
66 10 0.08
ACGTcount: A:0.36, C:0.04, G:0.60, T:0.00
Consensus pattern (61 bp):
GAGAGAGAGAGAGGGAGAGAGGAGAGGGAGAGGGAGAGGGAGGGACAGCAAGCGAGAGAGG
Found at i:14604973 original size:36 final size:35
Alignment explanation
Indices: 14604881--14604973 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 35
14604871 ACTCTCTGTT
* **
14604881 TTGGTGTGTTTTGGTTGGACTAGCTCTTTGGAGCCA
1 TTGGTGTGTTTTGGTTGGATTAGCTCTTT-GAAACA
* **
14604917 TTGATGTGTTTTGGAAGGATTAGCTCTTAT-AAACA
1 TTGGTGTGTTTTGGTTGGATTAGCTCTT-TGAAACA
14604952 TCTGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTTGGTTGGATT
14604974 TTCGATGTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 4 0.09
36 41 0.89
37 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.30, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTTGGTTGGATTAGCTCTTTGAAACA
Found at i:14605881 original size:12 final size:12
Alignment explanation
Indices: 14605864--14605893 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14605854 TCAGTGAGTT
14605864 ACACAGCCTGGC
1 ACACAGCCTGGC
*
14605876 ACACAGCTTGGC
1 ACACAGCCTGGC
14605888 ACACAG
1 ACACAG
14605894 ACATGTGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.10
Consensus pattern (12 bp):
ACACAGCCTGGC
Found at i:14607484 original size:52 final size:52
Alignment explanation
Indices: 14607425--14607597 Score: 241
Period size: 52 Copynumber: 3.4 Consensus size: 52
14607415 CTTACGTATG
14607425 ATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
1 ATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
*
14607477 ATCACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCT
1 ATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
* * **
14607523 ATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
*
14607575 ACCACTTATCACTTTGTCACTTG
1 ATCACTTATCACTTT-TCACTTG
14607598 ATCAGAAGTA
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
46 43 0.41
49 1 0.01
52 55 0.52
53 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
ATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
Found at i:14607503 original size:46 final size:46
Alignment explanation
Indices: 14607431--14607603 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
14607421 TATGATCACT
*
14607431 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
14607476 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
14607522 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
14607574 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
14607604 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:14610535 original size:24 final size:24
Alignment explanation
Indices: 14610485--14610536 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14610475 AGTCAATGTC
* *
14610485 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
14610509 AAATATGTTATACTAATAAATATT
1 AAATATATTATACTAATAAATACT
14610533 AAAT
1 AAAT
14610537 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:14611720 original size:14 final size:13
Alignment explanation
Indices: 14611698--14611829 Score: 71
Period size: 12 Copynumber: 10.2 Consensus size: 13
14611688 AAGTGTTTTC
*
14611698 TTTCTTCAAGTATT
1 TTTCATCAAGT-TT
14611712 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
14611726 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
* *
14611738 TTAATTACCAAGTTTTT
1 TT--TCATCAAG--TTT
* *
14611755 TTTTATTAAG-TT
1 TTTCATCAAGTTT
*
14611767 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
14611781 TTT--T-AAG-TT
1 TTTCATCAAGTTT
*
14611790 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
14611803 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
14611815 TTCCATCAAGTTT
1 TTTCATCAAGTTT
14611828 TT
1 TT
14611830 AATCATTATG
Statistics
Matches: 92, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
9 4 0.04
10 1 0.01
11 4 0.04
12 25 0.27
13 24 0.26
14 18 0.20
15 11 0.12
17 5 0.05
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:14611788 original size:23 final size:23
Alignment explanation
Indices: 14611760--14611826 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
14611750 TTTTTTTTTA
*
14611760 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
*
14611783 TTAAGTTTTTCATCAAG-TCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
14611805 TCATAAAGTTTTCCATCAAGTT
1 T--T-AAGTTTTCCATCAAGTT
14611827 TTTAATCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 6 0.16
23 16 0.42
24 1 0.03
25 14 0.37
26 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (23 bp):
TTAAGTTTTCCATCAAGTTCTTT
Found at i:14613541 original size:25 final size:22
Alignment explanation
Indices: 14613487--14613541 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
14613477 TATTATTTTA
* *
14613487 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
14613509 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
14613533 TCGTATATA
1 T-GTATATA
14613542 GCTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:14615712 original size:20 final size:20
Alignment explanation
Indices: 14615679--14615717 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14615669 TTATCAGGGT
*
14615679 AAATTATAATTAAGATTATG
1 AAATTATAAGTAAGATTATG
* *
14615699 AAATTATTAGTAAGTTTAT
1 AAATTATAAGTAAGATTAT
14615718 TTTTAGTCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
AAATTATAAGTAAGATTATG
Found at i:14618924 original size:17 final size:19
Alignment explanation
Indices: 14618889--14618926 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
14618879 AAATTCCAAA
*
14618889 AATAACAAAGTCCATTTAC
1 AATAACAAAGTCCAATTAC
14618908 AATAA-AAA-TCCAATTAC
1 AATAACAAAGTCCAATTAC
14618925 AA
1 AA
14618927 AGAAATAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (19 bp):
AATAACAAAGTCCAATTAC
Found at i:14621897 original size:24 final size:24
Alignment explanation
Indices: 14621869--14621920 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14621859 TTAGTAAGTC
* *
14621869 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14621893 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14621917 AAAT
1 AAAT
14621921 TTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14622810 original size:42 final size:43
Alignment explanation
Indices: 14622724--14622930 Score: 208
Period size: 43 Copynumber: 4.8 Consensus size: 43
14622714 GCGTCGCTAA
* * *
14622724 CTTTAGCGGCGC-TTTTACAACAAGCGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCATTTT-CCACAAACGCCGCTAAAGACCAAGAC
*
14622767 CTTTAGCGGCGC-TTTTCCAACAAACG-CGCTAAAGACCACGAC
1 CTTTAGCGGCGCATTTTCC-ACAAACGCCGCTAAAGACCAAGAC
* *
14622809 CTTTAGCGGCGCATTTTCCACAAATGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCATTTTCCACAAACGCCGCTAAAGACCAAGAC
* * * * * **
14622852 CTATAGCGGCACTTTTTCCACAAACGCCGCTAAAAAAGCATTAC
1 CTTTAGCGGCGCATTTTCCACAAACGCCGCT-AAAGACCAAGAC
* *
14622896 CTTTAGCGACGC-TTTTAGCAC-AACGCCGCTAAAGA
1 CTTTAGCGGCGCATTTT-CCACAAACGCCGCTAAAGA
14622931 ATAAACCCTT
Statistics
Matches: 142, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
42 38 0.27
43 83 0.58
44 21 0.15
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCATTTTCCACAAACGCCGCTAAAGACCAAGAC
Found at i:14622867 original size:85 final size:86
Alignment explanation
Indices: 14622724--14622930 Score: 235
Period size: 85 Copynumber: 2.4 Consensus size: 86
14622714 GCGTCGCTAA
* * * *
14622724 CTTTAGCGGCGCTTTTACAACAAGCGTCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCAAC
1 CTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGACCAAGACCTATAGCGGCACTTTTTCC-AC
14622788 AAACG-CGCTAAAGACCACGAC
65 AAACGCCGCTAAAGACCACGAC
* * *
14622809 CTTTAGCGGCGCATTTT-CCACAAATGCCGCTAAAGACCATGACCTATAGCGGCACTTTTTCCAC
1 CTTTAGCGGCGC-TTTTACAACAAACGCCGCTAAAGACCAAGACCTATAGCGGCACTTTTTCCAC
* * **
14622873 AAACGCCGCTAAAAAAGCATTAC
65 AAACGCCGCT-AAAGACCACGAC
*
14622896 CTTTAGCGACGCTTTTAGC-AC-AACGCCGCTAAAGA
1 CTTTAGCGGCGCTTTTA-CAACAAACGCCGCTAAAGA
14622931 ATAAACCCTT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
85 50 0.49
86 31 0.30
87 21 0.20
88 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGACCAAGACCTATAGCGGCACTTTTTCCACA
AACGCCGCTAAAGACCACGAC
Found at i:14628401 original size:16 final size:17
Alignment explanation
Indices: 14628365--14628406 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
14628355 CACTATAATC
14628365 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
14628383 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
14628399 ATTATTTA
1 ATTATTTA
14628407 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:14628608 original size:7 final size:7
Alignment explanation
Indices: 14628598--14628722 Score: 83
Period size: 7 Copynumber: 17.7 Consensus size: 7
14628588 TCTATAATCT
14628598 TAAACCA
1 TAAACCA
14628605 TAAACCA
1 TAAACCA
* *
14628612 TAACCCC
1 TAAACCA
14628619 TAAATCC-
1 TAAA-CCA
*
14628626 TAAACCT
1 TAAACCA
14628633 TAAACCA
1 TAAACCA
**
14628640 TAAACGG
1 TAAACCA
14628647 TAAACCA
1 TAAACCA
* *
14628654 TAACCCC
1 TAAACCA
14628661 TAAACCCA
1 TAAA-CCA
*
14628669 TAATCCA
1 TAAACCA
*
14628676 TAAACCT
1 TAAACCA
14628683 TAAACTC-
1 TAAAC-CA
*
14628690 TATACCA
1 TAAACCA
* *
14628697 TATACCC
1 TAAACCA
14628704 TAAACCA
1 TAAACCA
* *
14628711 AAAACCT
1 TAAACCA
14628718 TAAAC
1 TAAAC
14628723 TATAGAGATA
Statistics
Matches: 91, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
6 3 0.03
7 80 0.88
8 8 0.09
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:14628622 original size:21 final size:21
Alignment explanation
Indices: 14628598--14628722 Score: 101
Period size: 21 Copynumber: 5.9 Consensus size: 21
14628588 TCTATAATCT
*
14628598 TAAACCATAAACCATAACCCC
1 TAAACCATAAACCATAAACCC
* *
14628619 TAAATCC-TAAACCTTAAACCA
1 TAAA-CCATAAACCATAAACCC
** *
14628640 TAAACGGTAAACCATAACCCC
1 TAAACCATAAACCATAAACCC
* *
14628661 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCC
* *
14628683 TAAACTC-TATACCATATACCC
1 TAAAC-CATAAACCATAAACCC
* *
14628704 TAAACCAAAAACCTTAAAC
1 TAAACCATAAACCATAAAC
14628723 TATAGAGATA
Statistics
Matches: 79, Mismatches: 20, Indels: 10
0.72 0.18 0.09
Matches are distributed among these distances:
20 2 0.03
21 58 0.73
22 19 0.24
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCC
Found at i:14628643 original size:14 final size:14
Alignment explanation
Indices: 14628598--14628722 Score: 99
Period size: 14 Copynumber: 8.9 Consensus size: 14
14628588 TCTATAATCT
*
14628598 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
14628612 TAACCCCTAAATCC-
1 TAAACCCTAAA-CCA
*
14628626 TAAACCTTAAACCA
1 TAAACCCTAAACCA
**
14628640 TAAACGGTAAACCA
1 TAAACCCTAAACCA
*
14628654 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
14628669 TAATCCATAAACCT
1 TAAACCCTAAACCA
* *
14628683 TAAACTCTATACCA
1 TAAACCCTAAACCA
*
14628697 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
14628711 AAAACCTTAAAC
1 TAAACCCTAAAC
14628723 TATAGAGATA
Statistics
Matches: 85, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
13 2 0.02
14 69 0.81
15 14 0.16
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:14628663 original size:35 final size:36
Alignment explanation
Indices: 14628596--14628722 Score: 98
Period size: 35 Copynumber: 3.6 Consensus size: 36
14628586 AATCTATAAT
* * *
14628596 CTTAAACCATAAACCATAACCCCTAAATCCTAAA-C
1 CTTAAACCATAAACCATAAACCATAAACCCTAAACC
** *
14628631 CTTAAACCATAAACGGTAAACCATAACCCCTAAACC
1 CTTAAACCATAAACCATAAACCATAAACCCTAAACC
* * * * * *
14628667 CATAATCCATAAACCTTAAACTC-TATACCATATACC
1 CTTAAACCATAAACCATAAAC-CATAAACCCTAAACC
* *
14628703 C-TAAACCAAAAACCTTAAAC
1 CTTAAACCATAAACCATAAAC
14628723 TATAGAGATA
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
35 45 0.61
36 28 0.38
37 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (36 bp):
CTTAAACCATAAACCATAAACCATAAACCCTAAACC
Found at i:14629117 original size:42 final size:41
Alignment explanation
Indices: 14629029--14629262 Score: 337
Period size: 42 Copynumber: 5.7 Consensus size: 41
14629019 AAATGTTTTT
* *
14629029 GCGGCGCTTTTACAAAAACGCCGCTAAA-GCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAACCCCTGAGCATTA
14629069 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAA-CCCCTGAGCATTA
* * * *
14629111 GCGGCGCTTTTCTAAAAACGCCGCTAAAGCGCTGATCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAACCCCTGAGCATTA
*
14629152 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAA-CCCCTGAGCATTA
* *
14629194 GCGGCGCTTTTCCAAAAACG-CGACTAAAGCCCTTAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCG-CTAAACCCCTGAGCATTA
*
14629235 GCGGCGCTTCTCCAAAAACGCCGCTAAA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAA
14629263 GGCCTGAAAG
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
40 27 0.16
41 73 0.42
42 74 0.43
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAACCCCTGAGCATTA
Found at i:14629169 original size:41 final size:41
Alignment explanation
Indices: 14629029--14629269 Score: 360
Period size: 41 Copynumber: 5.9 Consensus size: 41
14629019 AAATGTTTTT
*
14629029 GCGGCGCTTTTACAAAAACGCCGCTAAAG-CCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
14629069 GCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAA-GCCCTGAGCATTA
* * *
14629111 GCGGCGCTTTTCTAAAAACGCCGCTAAAGCGCTGATCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
14629152 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG-CCCTGAGCATTA
*
14629194 GCGGCGCTTTTCCAAAAACG-CGACTAAAGCCCTTAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCG-CTAAAGCCCTGAGCATTA
* *
14629235 GCGGCGCTTCTCCAAAAACGCCGCTAAAGGCCTGA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGA
14629270 AAGGTCAAAA
Statistics
Matches: 181, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
40 27 0.15
41 79 0.44
42 75 0.41
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:14629175 original size:83 final size:81
Alignment explanation
Indices: 14629029--14629263 Score: 373
Period size: 83 Copynumber: 2.8 Consensus size: 81
14629019 AAATGTTTTT
*
14629029 GCGGCGCTTTTACAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCT
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCT
*
14629094 AAATCCCCTGAGCATTA
65 AAAGCCCCTGAGCATTA
*
14629111 GCGGCGCTTTTCTAAAAACGCCGCTAAAGCGCTGATCATTAGCGGCGCTTCTCCAAAAACGCCGC
1 GCGGCGCTTTTC-AAAAACGCCGCTAAAGC-CTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGC
14629176 TAAAGCCCCTGAGCATTA
64 TAAAGCCCCTGAGCATTA
*
14629194 GCGGCGCTTTTCCAAAAACG-CGACTAAAGCCCTTAGCATTAGCGGCGCTTCTCCAAAAACGCCG
1 GCGGCGCTTTT-CAAAAACGCCG-CTAAAG-CCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCG
14629258 CTAAAG
63 CTAAAG
14629264 GCCTGAAAGG
Statistics
Matches: 143, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
81 1 0.01
82 30 0.21
83 110 0.77
84 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (81 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTA
AAGCCCCTGAGCATTA
Found at i:14629365 original size:40 final size:40
Alignment explanation
Indices: 14629308--14629437 Score: 208
Period size: 40 Copynumber: 3.2 Consensus size: 40
14629298 AGGTTTTTTT
*
14629308 GCGGCGTTTTCCT-TAAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCGTTTT-ATATAAAGCGCCGCTAATGCTCGATCTTTA
14629348 GCGGCGTTTTATATAAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCGTTTTATATAAAGCGCCGCTAATGCTCGATCTTTA
* * *
14629388 GCTGCGTTTTATATAAAGCGCCGCTAATGCTCAATTTTTA
1 GCGGCGTTTTATATAAAGCGCCGCTAATGCTCGATCTTTA
14629428 GCGGCGTTTT
1 GCGGCGTTTT
14629438 TTATTCAAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 83 0.99
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (40 bp):
GCGGCGTTTTATATAAAGCGCCGCTAATGCTCGATCTTTA
Found at i:14639430 original size:249 final size:249
Alignment explanation
Indices: 14638859--14639696 Score: 953
Period size: 249 Copynumber: 3.4 Consensus size: 249
14638849 ACCTCCTTGG
* * *
14638859 CGGTGTAGTGGAATAGATTGAAGCTATGATGGCGAATCTTGTTTTCCTGATATTGCAGTTAAATA
1 CGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGATATTGCAGTTAAATA
* * *
14638924 GATTGAAGCTACAACGGCGAGTCTTACCTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTACGAT
66 GATTGAAGCTACAACGGCGAATCTTA-CTTCCTGGCGGTGTAGTGGAACAAATTGAAGCTACGAC
* * * *
14638989 GGCGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCTACAATGGCAAACCTTACCTC
130 GGCGAATCTTGTTTCCCCGACATTGCAGTTAAATATATTGAAGCTACAACGGCAAATCTTACCTC
* ** *
14639054 CCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCCATGA
195 CCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCTGA
** * ** * ** * * ** ** *
14639109 CATTGCAGTTAAATAGATTGAAGCTACAACGGCGAATCTTACTTCTCTGGTGGTGTC-GTGGAAC
1 CGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGATATTG-CAGTTAAAT
* *** * * *
14639173 AGATTGAAGCTACGACAATGAATCTTGCTTCTCTGGCGGTGTAGTGGAACATATTGAAGCTACAA
65 AGATTGAAGCTACAACGGCGAATCTTACTTC-CTGGCGGTGTAGTGGAACAAATTGAAGCTACGA
* *
14639238 CGGCGAATCTTGTTTCCCCAACATTGCAGTTAAATATATTGAAGCTA-GACGGCAAATCTTACCT
129 CGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATATATTGAAGCTACAACGGCAAATCTTACCT
* * *
14639302 CCCTGGCGATGTAGTGGAACAGACTGAAGCTACGACGGTGAATCTTGTTTCCCTGG
194 CCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCTGA
* * *
14639358 TGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTAAATA
1 CGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGATATTGCAGTTAAATA
* * * *
14639423 TATTGAAGCTATAACGGCGAATCTTACTTACCTGGCGGTGTAATGGAACAGATTGAAGCTACGAC
66 GATTGAAGCTACAACGGCGAATCTTACTT-CCTGGCGGTGTAGTGGAACAAATTGAAGCTACGAC
* * * * * *
14639488 AGTGAATCTTGTTTTCCCGACATTGCAGTTAAA-ATATTGAAGCTATAACGGCAAATCTTACTTA
130 GGCGAATCTTGTTTCCCCGACATTGCAGTTAAATATATTGAAGCTACAACGGCAAATCTTACCTC
* *
14639552 CCTGGCGGTGTAGTGGAACAGATTGATGCTACGACGGTGAATCTTGTTTCCCCGA
195 CCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCTGA
*** ** * * * * * * * * ** **
14639607 AATTGTAGTTAAATAAATTGAAACTACAATGACGAATCTTATCTCCCTGAAATTGCAGTGGAGCA
1 CGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGATATTGCAGTTAAATA
*
14639672 GATTGAAGCTACGACGGCGAATCTT
66 GATTGAAGCTACAACGGCGAATCTT
14639697 GTTTCCCCGA
Statistics
Matches: 481, Mismatches: 102, Indels: 11
0.81 0.17 0.02
Matches are distributed among these distances:
248 13 0.03
249 327 0.68
250 140 0.29
251 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (249 bp):
CGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGATATTGCAGTTAAATA
GATTGAAGCTACAACGGCGAATCTTACTTCCTGGCGGTGTAGTGGAACAAATTGAAGCTACGACG
GCGAATCTTGTTTCCCCGACATTGCAGTTAAATATATTGAAGCTACAACGGCAAATCTTACCTCC
CTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCTGA
Found at i:14639725 original size:50 final size:50
Alignment explanation
Indices: 14638709--14639780 Score: 547
Period size: 50 Copynumber: 21.5 Consensus size: 50
14638699 ATCTCTTTGG
* * * ** ***
14638709 CATTACAGTGGAATAAATTGAAGTTATAACGGCGAATCTTACCTCCCT-A
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* * * ** *
14638758 GCAGTGTAGTGGAACAGATTGAAGCTACGACGTTGAATCTTGTTTCCCCGA
1 -CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* * * * * *** * *
14638809 CATTACAG-GTAAATAGATTGAAGTTACAACGGCAAATCTTACCTCCTTGG
1 CATTGCAGTG-GAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * * *
14638859 CGGTGTAGTGGAATAGATTGAAGCTATGATGGCGAATCTTGTTTTCCTGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* ** * * *** *
14638909 TATTGCAGTTAAATAGATTGAAGCTACAACGGCGAGTCTTACCTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * * * *
14638959 CGGTGTAGTGGAACAAATTGAAGCTACGATGGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* ** * * * * *** *
14639009 CATTGTAGTTAAATAGATTGAAGCTACAATGGCAAACCTTACCTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
*** * * * *
14639059 TGGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCCATGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * ** * *
14639109 CATTGCAGTTAAATAGATTGAAGCTACAACGGCGAATCTTACTTCTCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
*** * *** * * *
14639159 TGGTGTC-GTGGAACAGATTGAAGCTACGACAATGAATCTTGCTTCTCTGG
1 CATTG-CAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * * * **
14639209 CGGTGTAGTGGAACATATTGAAGCTACAACGGCGAATCTTGTTTCCCCAA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * *** *
14639259 CATTGCAGTTAAATATATTGAAGCTA-GACGGCAAATCTTACCTCCCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* * * * *
14639308 CGA-TGTAGTGGAACAGACTGAAGCTACGACGGTGAATCTTGTTTCCCTGG
1 C-ATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
*** * *
14639358 TGGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * ** ** * *
14639408 CATTGCAGTTAAATATATTGAAGCTATAACGGCGAATCTTACTTACCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * * * *
14639458 CGGTGTAATGGAACAGATTGAAGCTACGACAGTGAATCTTGTTTTCCC-GA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTG-TTTCCCTGA
* * * ** * ** * *
14639508 CATTGCAGT-TAAAATATTGAAGCTATAACGGCAAATCTTACTTACCTGG
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
** * * * * *
14639557 CGGTGTAGTGGAACAGATTGATGCTACGACGGTGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* * ** * * * * * * *
14639607 AATTGTAGTTAAATAAATTGAAACTACAATGACGAATCTTATCTCCCTGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* ** *
14639657 AATTGCAGTGGAGCAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* ** * * * * * *
14639707 CATTACAGTTAAATAGATTGAAGCTACAATGGCGATTCTTATCTCCCTAA
1 CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
* **
14639757 AATTGCAGTGGAGCAGATTGAAGC
1 CATTGCAGTGGAATAGATTGAAGC
14639781 CACTAATCTT
Statistics
Matches: 725, Mismatches: 286, Indels: 22
0.70 0.28 0.02
Matches are distributed among these distances:
48 4 0.01
49 63 0.09
50 651 0.90
51 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (50 bp):
CATTGCAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTGA
Found at i:14639780 original size:100 final size:100
Alignment explanation
Indices: 14638720--14639754 Score: 1050
Period size: 100 Copynumber: 10.4 Consensus size: 100
14638710 ATTACAGTGG
* * * * *
14638720 AATAAATTGAAGTTATAACGGCGAATCTTACCTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
** * *
14638785 CGACGTTGAATCTTGTTTCCCCGACATTACAGGTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
14638820 AATAGATTGAAGTTACAACGGCAAATCTTACCTCCTTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * * *
14638885 TGATGGCGAATCTTGTTTTCCTGATATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
14638920 AATAGATTGAAGCTACAACGGCGAGTCTTACCTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
14638985 CGATGGCGAATCTTGTTTCCCCGACATTGTAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
14639020 AATAGATTGAAGCTACAATGGCAAACCTTACCTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* **
14639085 CGACGACGAATCTTGTTTCCATGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
14639120 AATAGATTGAAGCTACAACGGCGAATCTTACTTCTCTGGTGGTGTCGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*** * * * * ** * **
14639185 CGACAATGAATCTTGCTTCTCTGGCGGTGTAGTGG
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *** *** ** * ** * *
14639220 AACATATTGAAGCTACAACGGCGAATCTTGTTTCCCCAACATTGCAGTTAAATATATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *** * * * **
14639285 -GACGGCAAATCTTACCTCCCTGGCGA-TGTAGTGG
66 CGACGGCGAATCTTGTTTCCCCGAC-ATTGCAGTTA
* * * * *** * *
14639319 AACAGACTGAAGCTACGACGGTGAATCTTGTTTCCCTGGTGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
14639384 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
14639419 AATATATTGAAGCTATAACGGCGAATCTTACTTACCTGGCGGTGTAATGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
14639484 CGACAGTGAATCTTGTTTTCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
14639519 AA-ATATTGAAGCTATAACGGCAAATCTTACTTACCTGGCGGTGTAGTGGAACAGATTGATGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
14639583 CGACGGTGAATCTTGTTTCCCCGAAATTGTAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * **** * *
14639618 AATAAATTGAAACTACAATGACGAATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
14639683 CGACGGCGAATCTTGTTTCCCCGACATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
14639718 AATAGATTGAAGCTACAATGGCGATTCTTATCTCCCT
1 AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCT
14639755 AAAATTGCAG
Statistics
Matches: 782, Mismatches: 149, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
99 169 0.22
100 613 0.78
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:14639912 original size:45 final size:44
Alignment explanation
Indices: 14639743--14639912 Score: 214
Period size: 44 Copynumber: 3.8 Consensus size: 44
14639733 CAATGGCGAT
* ** *
14639743 TCTTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCACTAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* * *
14639787 TCTTATCCCCCTAAAGTTGCAGTGGGGCAGATTGAAGATACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAA
* *
14639831 TCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAA
* * * *
14639876 TCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
14639913 CTAAATAACA
Statistics
Matches: 107, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 73 0.68
45 34 0.32
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAA
Found at i:14640039 original size:90 final size:93
Alignment explanation
Indices: 14639800--14640040 Score: 202
Period size: 90 Copynumber: 2.7 Consensus size: 93
14639790 TATCCCCCTA
** * * * * *
14639800 AAGTTGCAGTGGGGCAGATTGAAG--ATACAAG-TCTTATCTCCCTAAAGTTGCAGTGGAGCA-A
1 AAGTTGCAGTGGAACAGATTGAAGCTAAATAAGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGA
* * *
14639861 ACTGAAGATAGCAAATCTTATTTCCTTG
66 ACTGAACATAGCAAACCTTATCTCCTTG
* * *
14639889 AAGTTGCAGTGGAACAGATTGAAGCTAAATAACAGATCTTATCTCTCTGGAGTT---GT--AGTA
1 AAGTTGCAGTGGAACAGATTGAAGCTAAAT-A-AGATCCTATCTCCCTGAAGTTGCAGTGGAGTA
* *
14639949 GAAC-GCATCATATCAAACCTTATCTCCTTG
64 GAACTG-AACATAGCAAACCTTATCTCCTTG
* * *
14639979 AAGTTGTAGTGGAACAGGTTGAAGCT-ACT-A-ATCCTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 AAGTTGCAGTGGAACAGATTGAAGCTAAATAAGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGA
14640041 TTAAAACGAT
Statistics
Matches: 121, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
85 16 0.13
86 1 0.01
88 2 0.02
89 28 0.23
90 52 0.43
91 4 0.03
92 1 0.01
93 2 0.02
94 15 0.12
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (93 bp):
AAGTTGCAGTGGAACAGATTGAAGCTAAATAAGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGA
ACTGAACATAGCAAACCTTATCTCCTTG
Found at i:14641515 original size:4 final size:4
Alignment explanation
Indices: 14641500--14641529 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
14641490 TTTTAAATAG
*
14641500 TTAT TAAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
14641530 TATATTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:14646766 original size:40 final size:40
Alignment explanation
Indices: 14646720--14646799 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
14646710 AGTTTTTCTT
14646720 TTCAAGAATTTCTCTTGAGTTTCTTTTA-AGAGAGTTTTAA
1 TTCAAGAATTTCTCTTGAGTTTCTTTTAGA-AGAGTTTTAA
14646760 TTCAAGAATTTCTCTTGAGTTTCTTTTAGAAGAGTTTTAA
1 TTCAAGAATTTCTCTTGAGTTTCTTTTAGAAGAGTTTTAA
14646800 CAATCTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (40 bp):
TTCAAGAATTTCTCTTGAGTTTCTTTTAGAAGAGTTTTAA
Found at i:14647596 original size:4 final size:4
Alignment explanation
Indices: 14647587--14647681 Score: 138
Period size: 4 Copynumber: 23.8 Consensus size: 4
14647577 CACAACAAGG
* * * *
14647587 ACAT ACAT ACGT ACAT ACAT GCA- AGCAT GCAT ACAT ACAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT
14647635 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
14647682 ACAATTCAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
4 81 1.00
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:14648373 original size:22 final size:22
Alignment explanation
Indices: 14648334--14648375 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14648324 AAATCAAATC
*
14648334 TCTAAAATTATAGAATCATACT
1 TCTAAAATTATACAATCATACT
14648356 TCTAAAATT-TACATATCATA
1 TCTAAAATTATACA-ATCATA
14648376 TCTAAGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (22 bp):
TCTAAAATTATACAATCATACT
Found at i:14649304 original size:4 final size:4
Alignment explanation
Indices: 14649295--14649413 Score: 229
Period size: 4 Copynumber: 29.8 Consensus size: 4
14649285 CACAACGAGG
14649295 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
14649343 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
14649391 ATAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACA
14649414 GCAATTCAAA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 113 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:14651506 original size:17 final size:17
Alignment explanation
Indices: 14651468--14651511 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
14651458 CGGCCTATTC
*
14651468 AAATATATAATGTTATA
1 AAATATATTATGTTATA
14651485 AAATATATTATGTTA-A
1 AAATATATTATGTTATA
14651501 ATAATA-ATTAT
1 A-AATATATTAT
14651512 ATATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
AAATATATTATGTTATA
Found at i:14656458 original size:20 final size:19
Alignment explanation
Indices: 14656432--14656480 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
14656422 TTACAAAAAT
14656432 ATTCAAAATAAATTTCAAA
1 ATTCAAAATAAATTTCAAA
* *
14656451 AGTTCAAAACAAATTTTAAA
1 A-TTCAAAATAAATTTCAAA
14656471 ATTCAAAATA
1 ATTCAAAATA
14656481 TTTATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATTCAAAATAAATTTCAAA
Found at i:14656490 original size:19 final size:17
Alignment explanation
Indices: 14656461--14656503 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14656451 AGTTCAAAAC
*
14656461 AAATTT-TAAAATTCAAA
1 AAATTTATAAAAAT-AAA
*
14656478 ATATTTATAAAAATAAA
1 AAATTTATAAAAATAAA
14656495 AAATTTATA
1 AAATTTATA
14656504 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTTATAAAAATAAA
Found at i:14662692 original size:33 final size:33
Alignment explanation
Indices: 14662650--14662716 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
14662640 CGTAAATATT
*
14662650 AGGGTTGGATAAATAACTAAATTAAAGAA-TCTA
1 AGGGTTGGATAAATAACCAAATTAAA-AATTCTA
14662683 AGGGTTGGATAAATAACCAAATTAAAAATTCTA
1 AGGGTTGGATAAATAACCAAATTAAAAATTCTA
14662716 A
1 A
14662717 TCTTAATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (33 bp):
AGGGTTGGATAAATAACCAAATTAAAAATTCTA
Found at i:14669835 original size:34 final size:35
Alignment explanation
Indices: 14669791--14669857 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14669781 CAGTAAAATG
14669791 TTTTCCGTAAAATGATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
14669825 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
14669858 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:14671021 original size:30 final size:30
Alignment explanation
Indices: 14670985--14671042 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
14670975 GACCATGCCA
*
14670985 GTCATAGCAAATTGGTACTTATGGTCTTAT
1 GTCATAGCAAATTGGTAATTATGGTCTTAT
*
14671015 GTCATAGCAAATTTGTAATTATGGTCTT
1 GTCATAGCAAATTGGTAATTATGGTCTT
14671043 GTACAAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (30 bp):
GTCATAGCAAATTGGTAATTATGGTCTTAT
Found at i:14683918 original size:57 final size:58
Alignment explanation
Indices: 14683825--14683947 Score: 185
Period size: 57 Copynumber: 2.1 Consensus size: 58
14683815 ATAGAAATTG
* *
14683825 TGAAAATGGATAAATGAAAAACATTTAAAAATGAATGTGATTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAAAAACATTTAAAAATGAATGTAATTTTCTCCAAAATAAAAA
* * * *
14683883 TGAAAATGGAGAAATG-GAATCATTTGAAAATGAATGTAATTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAAAAACATTTAAAAATGAATGTAATTTTCTCCAAAATAAAAA
14683940 TGAAAATG
1 TGAAAATG
14683948 ACCTGGAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 44 0.75
58 15 0.25
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAAAAACATTTAAAAATGAATGTAATTTTCTCCAAAATAAAAA
Found at i:14688101 original size:14 final size:14
Alignment explanation
Indices: 14688084--14688118 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
14688074 CTCACATTTC
14688084 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
14688098 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
14688112 TATTTCT
1 T-TTTCT
14688119 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:14688102 original size:19 final size:18
Alignment explanation
Indices: 14688064--14688108 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
14688054 TACGGTACGC
14688064 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
14688081 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
14688100 TTCTTTTCT
1 TTCTTTTCT
14688109 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:14688792 original size:41 final size:41
Alignment explanation
Indices: 14688747--14688839 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
14688737 TACATTGTGA
14688747 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
14688788 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
14688829 ATTTGTAGTAG
1 ATTTGT-GTAG
14688840 GTCGAAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (41 bp):
ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
Found at i:14688857 original size:20 final size:19
Alignment explanation
Indices: 14688834--14688893 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
14688824 TGAGTATTTG
14688834 TAGTAGGTCGA-AGTTGTAAT
1 TAGTAGGT-GACA-TTGTAAT
*
14688854 TAGTAGGTTACATTGTAAT
1 TAGTAGGTGACATTGTAAT
*
14688873 TAGTAGGTTACATTGTGAAT
1 TAGTAGGTGACATTGT-AAT
14688893 T
1 T
14688894 TGTGTAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (19 bp):
TAGTAGGTGACATTGTAAT
Found at i:14688871 original size:19 final size:19
Alignment explanation
Indices: 14688847--14688893 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
14688837 TAGGTCGAAG
14688847 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
14688866 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
14688885 TTGTGAATT
1 TTGT-AATT
14688894 TGTGTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGTAATTAGTAGGTTACA
Found at i:14690679 original size:16 final size:17
Alignment explanation
Indices: 14690660--14690691 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14690650 TTATTAAATC
14690660 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
14690676 ATATATTTAATATTAA
1 ATATATTTAATATTAA
14690692 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:14690755 original size:66 final size:63
Alignment explanation
Indices: 14690684--14690896 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
14690674 AAATATATTT
14690684 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
14690748 AG
62 AG
* * * * * * *
14690750 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
14690810 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
14690870 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
14690897 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:14690770 original size:120 final size:120
Alignment explanation
Indices: 14690646--14690938 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
14690636 AATTATTTTA
* * *
14690646 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
14690709 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
14690766 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
14690831 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14690886 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
14690939 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14690798 original size:18 final size:17
Alignment explanation
Indices: 14690767--14690801 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14690757 ATTATTAAGA
14690767 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
14690784 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
14690802 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:14690915 original size:18 final size:17
Alignment explanation
Indices: 14690887--14690921 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14690877 ATTATTAAGA
*
14690887 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14690904 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14690922 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14691037 original size:147 final size:149
Alignment explanation
Indices: 14690875--14691149 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
14690865 ATAAGAATAT
* *
14690875 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
14690940 AAATATGATTAAATTATTTATTATTAAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
14691003 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
14691022 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
14691087 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAA
14691150 CAATAATCAT
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
147 89 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAAAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTAATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Done.