Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 118 of 207
Found at i:35554832 original size:27 final size:27
Alignment explanation
Indices: 35554775--35554843 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
35554765 CTGACTTGGT
* ** *
35554775 GAACTATGTTCGCAGATGTGTTTTGGA
1 GAACTATGTTCGCAAATAAGTTATGGA
* *
35554802 GAACTGTGTTCGCAAATAAGTTATGGC
1 GAACTATGTTCGCAAATAAGTTATGGA
* *
35554829 GAACCATGTTAGCAA
1 GAACTATGTTCGCAA
35554844 TTGTATTTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (27 bp):
GAACTATGTTCGCAAATAAGTTATGGA
Found at i:35556228 original size:8 final size:8
Alignment explanation
Indices: 35556215--35556245 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
35556205 GATTGATGAT
35556215 TGAAAAAG
1 TGAAAAAG
35556223 TGAAAAAG
1 TGAAAAAG
35556231 TGAAAAAG
1 TGAAAAAG
35556239 TGAAAAA
1 TGAAAAA
35556246 TGAGCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (8 bp):
TGAAAAAG
Found at i:35569704 original size:27 final size:27
Alignment explanation
Indices: 35569670--35569843 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
35569660 TAAATTGTAC
35569670 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35569697 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35569723 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35569751 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35569779 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35569806 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35569833 AGCACTGAGTG
1 AGCACTAAGTG
35569844 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35569784 original size:82 final size:81
Alignment explanation
Indices: 35569671--35569826 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35569661 AAATTGTACA
* *
35569671 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35569735 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35569752 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35569817 TGCGAGTTGA
65 TGCGAATTGA
35569827 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35577743 original size:27 final size:27
Alignment explanation
Indices: 35577709--35577886 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35577699 TAAATTGTAC
35577709 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35577736 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35577762 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35577790 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35577818 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35577845 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35577872 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35577887 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35577823 original size:82 final size:81
Alignment explanation
Indices: 35577710--35577865 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35577700 AAATTGTACA
* *
35577710 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35577774 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35577791 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35577856 TGCGAGTTGA
65 TGCGAATTGA
35577866 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35577877 original size:82 final size:81
Alignment explanation
Indices: 35577706--35577886 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35577696 GAGTAAATTG
* *
35577706 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35577771 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35577787 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35577851 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35577869 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35577887 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35578663 original size:18 final size:18
Alignment explanation
Indices: 35578640--35578678 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
35578630 AATCACTAAA
35578640 AATAGTAGGAGTGGAATT
1 AATAGTAGGAGTGGAATT
35578658 AATAGTAGGAGTGGAATT
1 AATAGTAGGAGTGGAATT
35578676 AAT
1 AAT
35578679 TGACGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (18 bp):
AATAGTAGGAGTGGAATT
Found at i:35586214 original size:94 final size:95
Alignment explanation
Indices: 35585994--35586184 Score: 269
Period size: 95 Copynumber: 2.0 Consensus size: 95
35585984 ATCGATTGAG
* * * *
35585994 GAACAAACATTATAAGCATGAATCACATAAATATTATTTAGTCAAAATAATCATCCTAGCTTAAA
1 GAACAAATATCATAAGCATAAATGACATAAATATTATTTAGTCAAAATAATCATCCTAGCTTAAA
*** *
35586059 TAAAATTTAAGCTATCATTGTTCGATTGAG
66 TAAAATTTAAGCTATCATTGTTCGAAACAA
* *
35586089 GAACAAATATTATAAGCATGAATGACATAAATATTATTTAGTCAAAATAATCAT-CTAGCTTAAA
1 GAACAAATATCATAAGCATAAATGACATAAATATTATTTAGTCAAAATAATCATCCTAGCTTAAA
35586153 TAAAATTTAAGCTATCATTGTT-GTAAACAA
66 TAAAATTTAAGCTATCATTGTTCG-AAACAA
35586183 GA
1 GA
35586185 GCATAGAACT
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
93 1 0.01
94 36 0.40
95 52 0.58
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (95 bp):
GAACAAATATCATAAGCATAAATGACATAAATATTATTTAGTCAAAATAATCATCCTAGCTTAAA
TAAAATTTAAGCTATCATTGTTCGAAACAA
Found at i:35586441 original size:16 final size:17
Alignment explanation
Indices: 35586414--35586448 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
35586404 AGAGTGTTGA
35586414 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
35586431 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
35586447 GA
1 GA
35586449 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:35588159 original size:28 final size:28
Alignment explanation
Indices: 35588107--35588161 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
35588097 AACGAACCAA
* *
35588107 AGGACGAGGGAGTGACAGACGTCATCAT
1 AGGACCAGGGAGTGACAGAAGTCATCAT
* *
35588135 AGGACCAGGGAGTGACCGAATTCATCA
1 AGGACCAGGGAGTGACAGAAGTCATCA
35588162 CAAGTACCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.15
Consensus pattern (28 bp):
AGGACCAGGGAGTGACAGAAGTCATCAT
Found at i:35598107 original size:23 final size:23
Alignment explanation
Indices: 35598077--35598121 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
35598067 TTAGTACATT
35598077 TATACATGGTTTAAATGAGTTCA
1 TATACATGGTTTAAATGAGTTCA
35598100 TATACATGGTTTAAATGAGTTC
1 TATACATGGTTTAAATGAGTTC
35598122 GTCCATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TATACATGGTTTAAATGAGTTCA
Found at i:35606392 original size:15 final size:16
Alignment explanation
Indices: 35606372--35606401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35606362 TGGTGCCTTA
35606372 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
35606387 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
35606402 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:35613931 original size:18 final size:18
Alignment explanation
Indices: 35613908--35613944 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35613898 ATTGAGAAAT
35613908 ACAAAAAAAAAAACAAAA
1 ACAAAAAAAAAAACAAAA
* *
35613926 ACAAAAAGAAAAAGAAAA
1 ACAAAAAAAAAAACAAAA
35613944 A
1 A
35613945 AGAACAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.00
Consensus pattern (18 bp):
ACAAAAAAAAAAACAAAA
Found at i:35613946 original size:13 final size:12
Alignment explanation
Indices: 35613910--35613948 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35613900 TGAGAAATAC
*
35613910 AAAAAAAAAAAC
1 AAAAAAAAAAAG
*
35613922 AAAAACAAAAAG
1 AAAAAAAAAAAG
35613934 AAAAAGAAAAAAG
1 AAAAA-AAAAAAG
35613947 AA
1 AA
35613949 CAAGAGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:35615306 original size:15 final size:16
Alignment explanation
Indices: 35615288--35615328 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
35615278 AAGAGGAAAT
35615288 TTTAAAATAAATCA-A
1 TTTAAAATAAATCACA
*
35615303 TTTAAGGAT-AATCACA
1 TTTAA-AATAAATCACA
35615319 TTTAAAATAA
1 TTTAAAATAA
35615329 CATATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (16 bp):
TTTAAAATAAATCACA
Found at i:35616993 original size:100 final size:100
Alignment explanation
Indices: 35616832--35617074 Score: 387
Period size: 100 Copynumber: 2.4 Consensus size: 100
35616822 GATTTGTCGT
* ** ** *
35616832 TGTGGCTTTAATATGTTCTGCTGCATTGCCTGAGAGGTAAGATTCGCTGTTGTAGCTTTAATATT
1 TGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATATT
35616897 TTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA
66 TTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA
*
35616932 TGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTT
1 TGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATATT
*
35616997 TTGAACTGCAATGTCGGGGAAGTAAGATTCACCGA
66 TTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* * *
35617032 TGTGGTTTTAATCTGTTCCACTACATCACCTGGGAGGCAAGAT
1 TGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGAT
35617075 ATGTAATTCT
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 132 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (100 bp):
TGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATATT
TTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA
Found at i:35616994 original size:50 final size:49
Alignment explanation
Indices: 35616829--35617074 Score: 168
Period size: 50 Copynumber: 4.9 Consensus size: 49
35616819 TAAGATTTGT
* ** * *
35616829 CGTTGTGGCTTTAATATGTTCTGCTGCATTGCCTGAGAGGTAAGATTCGC
1 CGTTGTGGCTTTAATCTGTTCAACTGCA-TGCCTGGGAGGTAAGATTCAC
* * * * * * * * *
35616879 TGTTGTAGCTTTAATATTTTGAACTGCAATGTCGGGGAAGCAAGATTCAC
1 CGTTGTGGCTTTAATCTGTTCAACTGC-ATGCCTGGGAGGTAAGATTCAC
* * * *
35616929 CGATGTGGCTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGATTCGC
1 CGTTGTGGCTTTAATCTGTTCAACTGCAT-GCCTGGGAGGTAAGATTCAC
* * * * * * *
35616979 TGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGTAAGATTCAC
1 CGTTGTGGCTTTAATCTGTTCAACTGC-ATGCCTGGGAGGTAAGATTCAC
* * * * * *
35617029 CGATGTGGTTTTAATCTGTTCCACTACATCACCTGGGAGGCAAGAT
1 CGTTGTGGCTTTAATCTGTTCAACTGCAT-GCCTGGGAGGTAAGAT
35617075 ATGTAATTCT
Statistics
Matches: 143, Mismatches: 49, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.03
50 136 0.95
51 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (49 bp):
CGTTGTGGCTTTAATCTGTTCAACTGCATGCCTGGGAGGTAAGATTCAC
Found at i:35617328 original size:44 final size:44
Alignment explanation
Indices: 35617137--35617378 Score: 153
Period size: 44 Copynumber: 5.6 Consensus size: 44
35617127 GATCTACTCT
* * *
35617137 ACTGTAA-CTTCAAAGAGATAAGATCCTTTACTTTAATTCGCTCC
1 ACTGTAATC-TCAAGGAGATAAGATCCTTTACTTCAATCCGCTCC
* * * * * *
35617181 ATTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTTC
1 ACTGTAATCTCAAGGAGATAAGATCCT-TTA-CTTCAATCCGCTCC
* * * * * ** *
35617225 GCTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCGATCTACTCT
1 ACTGTAATCTCAAGGAGATAAGATCCTTTACTTCAATCCGCTCC
* *
35617266 ACTGTAAGT-TC-AGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAA-TCTCAAG-GAGATAAGATCCTTTACTTCAATCCGCTCC
* *
35617310 ACTGTAATCTCAAGGAGATAGGAT--TATCAGCTTCAATCCGCTCC
1 ACTGTAATCTCAAGGAGATAAGATCCT-TTA-CTTCAATCCGCTCC
*
35617354 GCTGTAATCTCAAGGAGATAAGATC
1 ACTGTAATCTCAAGGAGATAAGATC
35617379 TGCAATTTCC
Statistics
Matches: 149, Mismatches: 34, Indels: 29
0.70 0.16 0.14
Matches are distributed among these distances:
40 1 0.01
41 25 0.17
42 5 0.03
43 8 0.05
44 107 0.72
45 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTGTAATCTCAAGGAGATAAGATCCTTTACTTCAATCCGCTCC
Found at i:35617332 original size:129 final size:129
Alignment explanation
Indices: 35617102--35617376 Score: 426
Period size: 129 Copynumber: 2.1 Consensus size: 129
35617092 TTCCACCGTG
* *
35617102 ATCTCAGGAAGATAAGACCTGATATGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTA
1 ATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTA
* * * * *
35617167 CTTTAATTCGCTCCATTGTAATCTCAGGGAGATAGGATTA-CTAGCTTCAATCTGCTTCGCTGTA
66 CTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTATC-AGCTTCAATCCGCTCCGCTGTA
* * *
35617231 ATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAAGTTCAGAGAGATAAGATCCTTTA
1 ATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTA
*
35617296 TTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTATCAGCTTCAATCCGCTCCGCTGTA
66 CTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTATCAGCTTCAATCCGCTCCGCTGTA
*
35617360 ATCTCAAGGAGATAAGA
1 ATCTCAGGGAGATAAGA
35617377 TCTGCAATTT
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
129 132 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (129 bp):
ATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTA
CTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTATCAGCTTCAATCCGCTCCGCTGTA
Found at i:35617592 original size:87 final size:87
Alignment explanation
Indices: 35617492--35617817 Score: 465
Period size: 87 Copynumber: 3.8 Consensus size: 87
35617482 ACTGTCGACG
* * *
35617492 CAGGAGGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAAGCGATGGAGGCAAGGCTTCGTTT
1 CAGGAAGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTCGTTT
* *
35617557 TCGATCTGCTTCGCTATTAACA
66 TCGATCTGCTTCGCTGTTAATA
* * *
35617579 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGACTTCGTTT
1 CAGGAAGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTCGTTT
* *
35617644 TCGATCTGCTTCACTGTTAATG
66 TCGATCTGCTTCGCTGTTAATA
* * ** * *
35617666 CAGGACGGAAAGATCTGCT-TCTTTAACCAGCTCCAATGCAAATGATGGAGGTAAGACTTTGTTT
1 CAGGAAGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTCGTTT
35617730 TCGATCTGCTTCGCTGTTAATA
66 TCGATCTGCTTCGCTGTTAATA
* * * *
35617752 CAGGAAGGAAAAATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTCGTTT
35617817 T
66 T
35617818 TTATCTTCAC
Statistics
Matches: 209, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
86 74 0.35
87 135 0.65
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (87 bp):
CAGGAAGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTCGTTT
TCGATCTGCTTCGCTGTTAATA
Found at i:35617732 original size:173 final size:174
Alignment explanation
Indices: 35617471--35617817 Score: 507
Period size: 173 Copynumber: 2.0 Consensus size: 174
35617461 AGACTCGATG
* * * *
35617471 CGATCTGCTCCACTGTCGACGCAGGAGGGAAAGATCTGCTATCTTTAACCAGCTCCACTGCAAGC
1 CGATCTGCTCCACTGTCAACGCAGGACGGAAAGATCTGCTATCTTTAACCAGCTCCAATGCAAAC
* * *
35617536 GATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTATTAACACAGGAAGGCAAGATCTGCTATC
66 GATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTATTAACACAGGAAGGAAAAATCTGCTATC
35617601 TTTAACCAGCTCCACTACAACCGATGAAGGCAAGACTTCGTTTT
131 TTTAACCAGCTCCACTACAACCGATGAAGGCAAGACTTCGTTTT
* * * *
35617645 CGATCTGCTTCACTGTTAATGCAGGACGGAAAGATCTGCT-TCTTTAACCAGCTCCAATGCAAAT
1 CGATCTGCTCCACTGTCAACGCAGGACGGAAAGATCTGCTATCTTTAACCAGCTCCAATGCAAAC
* * * * *
35617709 GATGGAGGTAAGACTTTGTTTTCGATCTGCTTCGCTGTTAATACAGGAAGGAAAAATCTGTTATC
66 GATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTATTAACACAGGAAGGAAAAATCTGCTATC
* * * *
35617774 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
131 TTTAACCAGCTCCACTACAACCGATGAAGGCAAGACTTCGTTTT
35617818 TTATCTTCAC
Statistics
Matches: 153, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
173 118 0.77
174 35 0.23
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (174 bp):
CGATCTGCTCCACTGTCAACGCAGGACGGAAAGATCTGCTATCTTTAACCAGCTCCAATGCAAAC
GATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTATTAACACAGGAAGGAAAAATCTGCTATC
TTTAACCAGCTCCACTACAACCGATGAAGGCAAGACTTCGTTTT
Found at i:35619944 original size:21 final size:20
Alignment explanation
Indices: 35619920--35619964 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35619910 TCCTTTTCCA
35619920 TTCTGATTTTTTCA-TCTTGCT
1 TTCT-ATTTTTTCATTCTT-CT
*
35619941 TTCTCTTTTTTCATTCTTCT
1 TTCTATTTTTTCATTCTTCT
35619961 TTCT
1 TTCT
35619965 TCTTCTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (20 bp):
TTCTATTTTTTCATTCTTCT
Found at i:35619968 original size:21 final size:20
Alignment explanation
Indices: 35619926--35619964 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35619916 TCCATTCTGA
35619926 TTTTTTCATCTTGCTTTCTC
1 TTTTTTCATCTTGCTTTCTC
35619946 TTTTTTCATTCTT-CTTTCT
1 TTTTTTCA-TCTTGCTTTCT
35619965 TCTTCTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTTCATCTTGCTTTCTC
Found at i:35624510 original size:15 final size:16
Alignment explanation
Indices: 35624492--35624532 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
35624482 AAGAGGAAAT
35624492 TTTAAAATAAATCA-A
1 TTTAAAATAAATCACA
*
35624507 TTTAAGGAT-AATCACA
1 TTTAA-AATAAATCACA
35624523 TTTAAAATAA
1 TTTAAAATAA
35624533 CATATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (16 bp):
TTTAAAATAAATCACA
Found at i:35629260 original size:468 final size:469
Alignment explanation
Indices: 35628390--35629305 Score: 1309
Period size: 468 Copynumber: 2.0 Consensus size: 469
35628380 ATCTGGTGCC
* * * ** *
35628390 CTAATTGTAGTATATTCATTTGTATACTTATAATTTTTTTTAACAGATTGGTTAATAAAATTATT
1 CTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCAAACAAATTGGTTAATAAAATTATT
* * *
35628455 TATAAATTTCATTAGTATTCTTTATATAATGTCATCATGTGGACTTTGCATGTAAAGCAAAATAG
66 CATAAATTTCATTAATATTCTTTATATAATGTCATCATGTGGACTTTGCATGTAAAACAAAATAG
* *
35628520 AAACAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATATTAAGCAATATTACGTAGTCAGA
131 AAACAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAGCAATATTACATAGTCAGA
** *
35628585 TTGTAATATGGAAAGACAACTTATACTAGTAGATGAACCTAAACATGTCATTAGTCTAATAAAAA
196 TCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTAAACATGTCATTAGTCTAATAAAAA
* *
35628650 ATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGTCTAATTAGGGAGATGTTTTATCT
261 ATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGTCCAATTAGGGAGATGCTTTATCT
* * * ** * *
35628715 TGGGCATCAGAGCGGATGACTTTGAGAAGATAGAGACATAGATGTGACTAACTGGACTAACAGTA
326 TAGGCATCAGAACAGATGACTCCGAGAAGATAGAGACATAGATGTGACTAACTAGACTAACAATA
*
35628780 AATTGAATTGGACCCAAGAAGAATACATCCT-AAGTCAGTTTATGG-GTTTATTCACTTCTGTCT
391 AATAGAATTGGACCCAAGAAGAATACATCCTGAA-TCAGTTTATGGTGTTTATTCACTTCTGTCT
35628843 ATTGGATTTGGTATG
455 ATTGGATTTGGTATG
* *
35628858 CTAATTATAGTATATTCGTTCGTATACTTGTAATTTTCTCAAACAAATTGGTTAATAAAATTATT
1 CTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCAAACAAATTGGTTAATAAAATTATT
* * * * * *
35628923 CATGAATTTCATTAATATTCTTTGTATACTGTCCTCTTGTGGATTTTGCATGTAAAACAAAATA-
66 CATAAATTTCATTAATATTCTTTATATAATGTCATCATGTGGACTTTGCATGTAAAACAAAATAG
* * * **
35628987 AAAGCAAATATTAGCTCACTGGTTGTCTAATGTTTAGCTAATACTAAGCGATATTACATGGTTGG
131 AAA-CAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAGCAATATTACATAGTCAG
* * * **
35629052 ATCATAATATGGAAAGACAACTTATACTAGTAGGCGAACCTAAACATGTCCTTTGTCTAATCGAA
195 ATCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTAAACATGTCATTAGTCTAATAAAA
* * * *
35629117 AATGAGCAAACCGATTGAAAGACTAATATACCCTCTATCATGTCCAATTAGGGAGATGCTTTGTC
260 AATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGTCCAATTAGGGAGATGCTTTATC
* *
35629182 TTAGGCATCAGAACAGATGACTCCGAGAAGATAGAGACATAGATGTGATTGACTAGACTAACAAT
325 TTAGGCATCAGAACAGATGACTCCGAGAAGATAGAGACATAGATGTGACTAACTAGACTAACAAT
* * * *
35629247 ATATCAG-ATTGGACCCATGTAGAATAGATCCTGAATCAGTTTATGGTGTTTATTCACTT
390 AAAT-AGAATTGGACCCAAGAAGAATACATCCTGAATCAGTTTATGGTGTTTATTCACTT
35629306 GTGACATTAA
Statistics
Matches: 392, Mismatches: 52, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
467 3 0.01
468 374 0.95
469 15 0.04
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (469 bp):
CTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCAAACAAATTGGTTAATAAAATTATT
CATAAATTTCATTAATATTCTTTATATAATGTCATCATGTGGACTTTGCATGTAAAACAAAATAG
AAACAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAGCAATATTACATAGTCAGA
TCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTAAACATGTCATTAGTCTAATAAAAA
ATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGTCCAATTAGGGAGATGCTTTATCT
TAGGCATCAGAACAGATGACTCCGAGAAGATAGAGACATAGATGTGACTAACTAGACTAACAATA
AATAGAATTGGACCCAAGAAGAATACATCCTGAATCAGTTTATGGTGTTTATTCACTTCTGTCTA
TTGGATTTGGTATG
Found at i:35629773 original size:10 final size:10
Alignment explanation
Indices: 35629758--35629783 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35629748 ATGTTGAATA
35629758 AAATGAACAT
1 AAATGAACAT
35629768 AAATGAACAT
1 AAATGAACAT
35629778 AAATGA
1 AAATGA
35629784 TGAAGTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (10 bp):
AAATGAACAT
Found at i:35634122 original size:28 final size:28
Alignment explanation
Indices: 35634082--35634170 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
35634072 CCAATTATCG
35634082 CACTG-TTACTGTA-TGAGGCTAAGGCCCA
1 CACTGATT-CTGTATTG-GGCTAAGGCCCA
*
35634110 CACTGATTCTGTATTGGGCTAAAGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
35634138 CACTGATTCTGTATTGGGCTAGGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
35634166 CACTG
1 CACTG
35634171 TACTGTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 52 0.93
29 4 0.07
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (28 bp):
CACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:35635630 original size:18 final size:18
Alignment explanation
Indices: 35635591--35635630 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35635581 ATAAATTATT
* * *
35635591 TATCATTTTTATTTTATT
1 TATCATTTTAATTCTATC
35635609 TATCATTTTAATTCTATC
1 TATCATTTTAATTCTATC
35635627 TATC
1 TATC
35635631 CTATTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (18 bp):
TATCATTTTAATTCTATC
Found at i:35636423 original size:48 final size:47
Alignment explanation
Indices: 35636342--35636463 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 47
35636332 TGACAGATTT
*
35636342 TCTACAATTTTGGTGGC-TTGACCACAACTATGTGTATTGGAAGCTT-
1 TCTACAA-TTTGGTGGCTTTGTCCACAACTATGTGTATTGGAAGCTTG
* * * *
35636388 TCCTACGATTTCGGTGGCTTTGTCCACAACTATGTGTTTTGGTAGGTTG
1 T-CTACAATTT-GGTGGCTTTGTCCACAACTATGTGTATTGGAAGCTTG
*
35636437 TCTAAAAATTTGGTGGCTTTGTCCACA
1 TCT-ACAATTTGGTGGCTTTGTCCACA
35636464 TATGTGCTGG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 4 0.06
47 11 0.17
48 43 0.67
49 6 0.09
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (47 bp):
TCTACAATTTGGTGGCTTTGTCCACAACTATGTGTATTGGAAGCTTG
Found at i:35640130 original size:14 final size:15
Alignment explanation
Indices: 35640111--35640144 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35640101 TTGCAATACT
35640111 ATAAAAGAAGGAA-A
1 ATAAAAGAAGGAAGA
*
35640125 ATAAAAGAAGTAAGA
1 ATAAAAGAAGGAAGA
35640140 ATAAA
1 ATAAA
35640145 GCTTAGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAAGAAGGAAGA
Found at i:35640594 original size:50 final size:48
Alignment explanation
Indices: 35640477--35640649 Score: 161
Period size: 50 Copynumber: 3.5 Consensus size: 48
35640467 ACATGTCAAA
* *
35640477 GCCATGTCCCAGACATAGTCTTACATGGGATGTT-TC-TTGTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGTGGGA-GTTCTCATTG-A-TGCCAAT
* * *
35640526 GCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCAT-T-GATGCCAAT
* * ** * *
35640576 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCA--TTGATGCCAAT
*
35640626 GCTATGTCCCAGACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
35640650 CTAGGACCTT
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.03
49 28 0.27
50 66 0.65
51 3 0.03
52 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACGTGGGAGTTCTCATTGATGCCAAT
Found at i:35647187 original size:14 final size:15
Alignment explanation
Indices: 35647165--35647241 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
35647155 CAATCAAACA
35647165 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
35647179 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
35647194 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
35647214 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
35647228 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
35647242 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:35647206 original size:20 final size:20
Alignment explanation
Indices: 35647181--35647220 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35647171 AATATTTTCC
*
35647181 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
35647201 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
35647221 TCATTTTACG
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:35647226 original size:34 final size:35
Alignment explanation
Indices: 35647169--35647235 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
35647159 CAAACACCAG
*
35647169 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
35647204 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
35647236 TATTTTACTG
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:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:35648736 original size:50 final size:50
Alignment explanation
Indices: 35648669--35648861 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
35648659 TTTCTTATAC
* * **
35648669 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCGCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCGCATATCGG
* * * * *
35648719 TGCCCATGCCATGTCCCAGACATGATCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCGCATATCGG
* * * *
35648769 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCGCAT-A--TC---GG
* *
35648825 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
35648862 TCTCTTTACC
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 81 0.68
53 2 0.02
56 36 0.30
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCGCATATCGG
Found at i:35654749 original size:567 final size:572
Alignment explanation
Indices: 35653651--35654801 Score: 1589
Period size: 567 Copynumber: 2.0 Consensus size: 572
35653641 GTATCTCAGG
*
35653651 TCATATAACAATCGAATTATGGACACACAGCCGTGTCCCAGGCCGTATCATCACCCGTATAACTC
1 TCATATAACAATCGAATTATGGACACACAGCCGTGTCCCAGGCCGTATCATCACCCGTATAACAC
* * * *
35653716 TCTGAGTAGGGTCACATGACCAAGTCACACGCTCGTGTGCTAGGCTGTGTACTTGTTTGACTTGC
66 TCTGAGTAGGGTCACACGACCAAGTCACACGCTCGTGTACTAGGCCGTGTACTTGTCTGACTTGC
* *
35653781 ATTCAGTAGAAGCTACAAGGGACATACGACCATGTTGCCAGGCCGTGTGCCACACACGACTGAGT
131 ATGCAATAGAAGCTACAAGGG--A-ACGACCA---T--CAGGCCGTGTGCCACACACGACTGAGT
* * *
35653846 AACATGCCCGTGTCTCAAGCCGTGTGGACATGAATTTTCCCAAAATCAAGCCATTTGCAACACTA
188 AACATGCCCGTGTCTCAAGCCGTGTGGACATGAATTTGCCCAAAATCAAGCAATTTCCAACACTA
* * * * * *
35653911 ACTCATGCATGACCCTTTAGGCCAATTCTGCACATATTCAAGGGAATAAGACCTTATCAAAACAC
253 AATCAAGCATGACCCTTTAGGACAATTCTACACATATTCAAGGGAACAAGACCCTATCAAAACAC
* * *
35653976 ATATATAAATACCAATTCAGGAGTCCTAAATCAACTAACAAATATGTCATTGAAGGAACCTCAAT
318 ACATATAAATACCAATTCAAGAGTCCTAAATCAACTAACAAATATGTCATTCAAGGAACCTCAAT
* * * * *
35654041 TTCAATCACCAAAACCCACATAATTATGCCAAATTTACCACTTATCATTTATCAACTAGAAATTC
383 TGCAATCACCAAAACCCACATAATCATGCAAAATTTACCACTTACCATTTATCAACTACAAATTC
* *
35654106 CAAGAACTTACTAAACATAAAACAGAAATCAACTCAATGACATAAACCATCAAATAATTCTAATA
448 CAAGAACTTACTAAACATAAAACAGAAATCAACTCAATGACACAAACCATCAAATAATACTAATA
* *
35654171 AACTATTCTCATCCATTATCAAAAGTGACCATAGTTACTTTCTAAACG-AATCATTAAAAC
513 AACCATTCTCATCCATTATCAAAAGTGACCATAGGTACTTTCTAAA-GAAATCATTAAAAC
* * * * * *
35654231 TCATGTAACAATCGAATTATGGACACATAGCCGTGTCCCAGGTCGTGTCCTCACCCGTGTAACAC
1 TCATATAACAATCGAATTATGGACACACAGCCGTGTCCCAGGCCGTATCATCACCCGTATAACAC
*
35654296 TCTGAGTAGGGTCACACGACCAAGTCATACGCTCGTGTACTAGGCCGTGTAAC-TGTCTGACTTG
66 TCTGAGTAGGGTCACACGACCAAGTCACACGCTCGTGTACTAGGCCGTGT-ACTTGTCTGACTTG
* ** * * *
35654360 CATGGAATAGAAGCTATTAGGG-AC-A-CA-C-GGCCGTGTGTCACACACGGCTGAGTCACATGC
130 CATGCAATAGAAGCTACAAGGGAACGACCATCAGGCCGTGTGCCACACACGACTGAGTAACATGC
* ** * *
35654420 CGGTGTCTCCGGCCGTGTGGACATTAGTTTGCCCAAAATCAAGCAATTTCCAACACTAAATCAAG
195 CCGTGTCTCAAGCCGTGTGGACATGAATTTGCCCAAAATCAAGCAATTTCCAACACTAAATCAAG
* * * *
35654485 CATGACCCTTTAGGATAATTGTACACATATTCAAGGGAACAAGACCCTATCAAAGCATACATATA
260 CATGACCCTTTAGGACAATTCTACACATATTCAAGGGAACAAGACCCTATCAAAACACACATATA
* *
35654550 AATACCAATTCAAGAGTCCTAAATCAACTAACCAATATGTCATTCAAGGCACCTCAATTGCAATC
325 AATACCAATTCAAGAGTCCTAAATCAACTAACAAATATGTCATTCAAGGAACCTCAATTGCAATC
* * * *
35654615 CCCAAAACCTACCTAATCATGCAAAATTTACCACTTACCATTTATCAACTACTAATTCCAAGAAC
390 ACCAAAACCCACATAATCATGCAAAATTTACCACTTACCATTTATCAACTACAAATTCCAAGAAC
* * * * * *
35654680 TTACTAAACATACAACATAAAGT-AGCTTAATGGCACAAACCATCAAATAATACTAATAAACCGT
455 TTACTAAACATAAAACAGAAA-TCAACTCAATGACACAAACCATCAAATAATACTAATAAACCAT
35654744 TCTCATCCATTATCAAAAGTGACCATAGGTACTTTCTAAAGAAATCATTAAAAC
519 TCTCATCCATTATCAAAAGTGACCATAGGTACTTTCTAAAGAAATCATTAAAAC
35654798 TCAT
1 TCAT
35654802 TCGTATAACC
Statistics
Matches: 506, Mismatches: 62, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
566 1 0.00
567 365 0.72
568 2 0.00
574 2 0.00
575 1 0.00
576 2 0.00
580 131 0.26
581 2 0.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (572 bp):
TCATATAACAATCGAATTATGGACACACAGCCGTGTCCCAGGCCGTATCATCACCCGTATAACAC
TCTGAGTAGGGTCACACGACCAAGTCACACGCTCGTGTACTAGGCCGTGTACTTGTCTGACTTGC
ATGCAATAGAAGCTACAAGGGAACGACCATCAGGCCGTGTGCCACACACGACTGAGTAACATGCC
CGTGTCTCAAGCCGTGTGGACATGAATTTGCCCAAAATCAAGCAATTTCCAACACTAAATCAAGC
ATGACCCTTTAGGACAATTCTACACATATTCAAGGGAACAAGACCCTATCAAAACACACATATAA
ATACCAATTCAAGAGTCCTAAATCAACTAACAAATATGTCATTCAAGGAACCTCAATTGCAATCA
CCAAAACCCACATAATCATGCAAAATTTACCACTTACCATTTATCAACTACAAATTCCAAGAACT
TACTAAACATAAAACAGAAATCAACTCAATGACACAAACCATCAAATAATACTAATAAACCATTC
TCATCCATTATCAAAAGTGACCATAGGTACTTTCTAAAGAAATCATTAAAAC
Found at i:35685106 original size:51 final size:51
Alignment explanation
Indices: 35684982--35685132 Score: 189
Period size: 51 Copynumber: 3.0 Consensus size: 51
35684972 AGGGGGAAGC
* *
35684982 AGTGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAAT
1 AGTGGTAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATT
* * *
35685031 AGTGGTAGTATATGTTCATATCAGTGGTGGCTTGTCCACAAAAGTGTTATT
1 AGTGGTAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATT
* * * * *
35685082 AGTGGTAGTTTATCTGCAAATCAGTGGTGACTTGTCTACAAATGGTGTTAT
1 AGTGGTAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAA-AGTGTTAT
35685133 GGATGGACGA
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 39 0.45
50 1 0.01
51 40 0.46
52 7 0.08
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (51 bp):
AGTGGTAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTATT
Found at i:35694449 original size:29 final size:29
Alignment explanation
Indices: 35694407--35694722 Score: 235
Period size: 29 Copynumber: 10.8 Consensus size: 29
35694397 TGTGCTAAAT
* *
35694407 GATGGTTGTAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
35694436 GATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TATTC
** *
35694466 GATGGTCGTCACCATCCCTTTCCATAGTT-
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
** *
35694495 GATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * * *
35694524 GATAGTCGAAGCTATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TATTC
** *
35694554 GATGGTCGTCACCATCCCTTTCCATAGTT-
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
** *
35694583 GATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * * * *
35694612 GATAGCCGAAGCTATCCCTTTTCACATTTC
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
* * * * *
35694642 GATAGTTGAAGCTATTCC-TTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
35694670 GATGCTC-ATCACCATCCCTTTTCATATTC
1 GATGGTCGA-AACCATCCCTTTTCATATTC
* * * *
35694699 AATAGTCGAAGCTATCCCTTTTCA
1 GATGGTCGAAACCATCCCTTTTCA
35694723 GTGGTCGATG
Statistics
Matches: 229, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
27 1 0.00
28 14 0.06
29 146 0.64
30 68 0.30
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:35694499 original size:59 final size:58
Alignment explanation
Indices: 35694407--35694635 Score: 244
Period size: 59 Copynumber: 3.9 Consensus size: 58
35694397 TGTGCTAAAT
* *
35694407 GATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGAAACCATCCCTTTTCA-TAATC
* * * * **
35694466 GATGGTCGTCACCATCCCTTTCCATAGTTGATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGAAACCATCCCTTTTCATAATC
* * ** * * *
35694524 GATAGTCG-AAGCTATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTCCATAGTT
1 GATGGTCGTAA-CCATCCCTTTTCA-TAATCGATGGTCGAAACCATCCCTTTTCATAATC
* * * * *
35694583 GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCA
1 GATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGAAACCATCCCTTTTCA
35694636 CATTTCGATA
Statistics
Matches: 141, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
57 1 0.01
58 45 0.32
59 94 0.67
60 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (58 bp):
GATGGTCGTAACCATCCCTTTTCATAATCGATGGTCGAAACCATCCCTTTTCATAATC
Found at i:35694555 original size:88 final size:88
Alignment explanation
Indices: 35694406--35694722 Score: 419
Period size: 88 Copynumber: 3.6 Consensus size: 88
35694396 GTGTGCTAAA
* * * * * *
35694406 TGATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGG
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
35694471 TCGTCACCATCCCTTTCCATAGT
66 TCGTCACCATCCCTTTCCATAGT
35694494 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
35694559 TCGTCACCATCCCTTTCCATAGT
66 TCGTCACCATCCCTTTCCATAGT
*
35694582 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCACATT--TCGAT
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTT--CATTAATCGAT
* * * * *
35694645 AGTTG-AAGCTATTCCTTT-CATA-T
64 GGTCGTCA-CCATCCCTTTCCATAGT
* * * *
35694668 TCGATGCTCATCACCATCCCTTTTCATATTCAATAGTCGAAGCTATCCCTTTTCA
1 T-GATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCA
35694723 GTGGTCGATG
Statistics
Matches: 208, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
85 2 0.01
86 2 0.01
87 51 0.25
88 149 0.72
90 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (88 bp):
TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
TCGTCACCATCCCTTTCCATAGT
Found at i:35703725 original size:33 final size:33
Alignment explanation
Indices: 35703683--35703749 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
35703673 GAAAGGGAGA
35703683 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
1 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
35703716 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
1 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
35703749 A
1 A
35703750 TACAAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
Found at i:35708856 original size:45 final size:45
Alignment explanation
Indices: 35708787--35708872 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
35708777 AGATACTCGA
* * *
35708787 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCCGG
35708832 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGT
35708873 TTAGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTCCGG
Found at i:35708941 original size:51 final size:50
Alignment explanation
Indices: 35708883--35709069 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
35708873 TTAGTTCACA
* * *
35708883 TAGTAGCCTGCACATAGCACTGCACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * *
35708934 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGA-TACACG
* * * ** * *
35708985 TAATAGCCTACACATAGTACTACACATGCAACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
*
35709035 TAGTAGCCTGCACATAATACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
35709070 CACTTTCACT
Statistics
Matches: 105, Mismatches: 26, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
49 2 0.02
50 36 0.34
51 65 0.62
52 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:35710630 original size:35 final size:35
Alignment explanation
Indices: 35710584--35710653 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
35710574 AAGACATGAC
35710584 AATGTCAAACATAACCCAAACAAACCAATAATTCT
1 AATGTCAAACATAACCCAAACAAACCAATAATTCT
35710619 AATGTCAAACATAACCCAAACAAACCAATAATTCT
1 AATGTCAAACATAACCCAAACAAACCAATAATTCT
35710654 TTCATCTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (35 bp):
AATGTCAAACATAACCCAAACAAACCAATAATTCT
Found at i:35711954 original size:42 final size:42
Alignment explanation
Indices: 35711874--35711955 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
35711864 CGTTTTCTCT
* **
35711874 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
35711916 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
35711956 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:35717032 original size:16 final size:16
Alignment explanation
Indices: 35717011--35717043 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35717001 ACTTAATCCA
*
35717011 TTGCTAAGGACAATTT
1 TTGCTAAGGAAAATTT
35717027 TTGCTAAGGAAAATTT
1 TTGCTAAGGAAAATTT
35717043 T
1 T
35717044 GCAATAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (16 bp):
TTGCTAAGGAAAATTT
Found at i:35721239 original size:5 final size:5
Alignment explanation
Indices: 35721229--35721259 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
35721219 ATGTATAATG
35721229 ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
35721260 AACGTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:35724698 original size:31 final size:31
Alignment explanation
Indices: 35724608--35724698 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
35724598 TATGACATAC
*
35724608 ATAGCATATGACCATGGATGAAAGATGTCAT
1 ATAGCATAAGACCATGGATGAAAGATGTCAT
* *
35724639 GGTAGCAT-CGTA-CATGG--GAAA-ATG-CAT
1 -ATAGCATAAG-ACCATGGATGAAAGATGTCAT
*
35724666 ATTGCATAAGACCATGGATGAAAGATGTCAT
1 ATAGCATAAGACCATGGATGAAAGATGTCAT
35724697 AT
1 AT
35724699 CGACCTAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
26 6 0.13
27 9 0.19
28 3 0.06
29 8 0.17
30 3 0.06
31 11 0.23
32 7 0.15
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (31 bp):
ATAGCATAAGACCATGGATGAAAGATGTCAT
Found at i:35736159 original size:42 final size:42
Alignment explanation
Indices: 35736077--35736170 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
35736067 TACTCCATAG
* * * **
35736077 CTCGTGTAAGCACCATCATGTAGTTTACATTTTGGCCCACAA
1 CTCGTGTGAGCACCATCATGTAGCTTACATTCTGAACCACAA
* * *
35736119 CTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGAACCACAG
1 CTCGTGTGAGCACCATCATGTAGCTTACATTCTGAACCACAA
*
35736161 CTTGTGTGAG
1 CTCGTGTGAG
35736171 TAGACCCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (42 bp):
CTCGTGTGAGCACCATCATGTAGCTTACATTCTGAACCACAA
Found at i:35741475 original size:22 final size:19
Alignment explanation
Indices: 35741450--35741491 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
35741440 TGATAATAAT
35741450 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
35741472 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
35741491 T
1 T
35741492 CAGCTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:35742121 original size:25 final size:24
Alignment explanation
Indices: 35742061--35742126 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
35742051 CTCCTAAATT
*
35742061 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTAT-TAATTTTTCAA
* *
35742086 TTTATTGAATTATTAATATTTT-ATA
1 TTAATTAAATTATTAAT-TTTTCA-A
*
35742111 TTAATTAAATTTTTAA
1 TTAATTAAATTATTAA
35742127 GAAAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAATTAAATTATTAATTTTTCAA
Found at i:35745341 original size:21 final size:22
Alignment explanation
Indices: 35745317--35745357 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
35745307 AAACTTGTAT
35745317 ATCTAACATTAAAC-CTTAATA
1 ATCTAACATTAAACACTTAATA
*
35745338 ATCTATCATTAAACACTTAA
1 ATCTAACATTAAACACTTAA
35745358 ACAACCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (22 bp):
ATCTAACATTAAACACTTAATA
Found at i:35751909 original size:94 final size:94
Alignment explanation
Indices: 35751682--35751932 Score: 229
Period size: 95 Copynumber: 2.7 Consensus size: 94
35751672 GAGGTTTAAG
* * * * * * * * * *
35751682 GTGTAAGACCATTGCTTGACTATGGTAGCATATGGAGTTCATTGGGACAATAA-ATAAGTTATAA
1 GTGTAAGACCATAGCTCGGCTATGGCAGCATATGGAGTCCATCGAGACAATAACATGAG--GTAG
* * * *
35751746 TCAGCCATGATGTTAAACATGGGGTTAGATT
64 TCCGCCAAGACGTTAAACATAGGGTTAGATT
* * * * * * * *
35751777 GTGTATGACCATAGGTTGGCTTTGGTAGTATATGGAGTCCGTCGGGACAATAAACATGAGGTAGT
1 GTGTAAGACCATAGCTCGGCTATGGCAGCATATGGAGTCCATCGAGACAAT-AACATGAGGTAGT
35751842 CCGCCAAGACGTTAAACATAGGG-TAGATT
65 CCGCCAAGACGTTAAACATAGGGTTAGATT
* *
35751871 GTGTAAGACCATAGCTCGG-TAATGGCAGCATATGGAGTCTATCGAGACAGTAACATGAGGTA
1 GTGTAAGACCATAGCTCGGCT-ATGGCAGCATATGGAGTCCATCGAGACAATAACATGAGGTA
35751933 ATCTATTAGG
Statistics
Matches: 127, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
93 12 0.09
94 45 0.35
95 64 0.50
96 2 0.02
97 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (94 bp):
GTGTAAGACCATAGCTCGGCTATGGCAGCATATGGAGTCCATCGAGACAATAACATGAGGTAGTC
CGCCAAGACGTTAAACATAGGGTTAGATT
Found at i:35753495 original size:11 final size:11
Alignment explanation
Indices: 35753481--35753529 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
35753471 CACCACTTCT
*
35753481 CCACTATAGCA
1 CCACCATAGCA
*
35753492 CCACCATACCA
1 CCACCATAGCA
*
35753503 CCACCACAGCA
1 CCACCATAGCA
* *
35753514 CCACCCTTGCA
1 CCACCATAGCA
35753525 CCACC
1 CCACC
35753530 TCAAAACTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.31, C:0.53, G:0.06, T:0.10
Consensus pattern (11 bp):
CCACCATAGCA
Found at i:35759764 original size:20 final size:20
Alignment explanation
Indices: 35759739--35759779 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35759729 ATCGATCCAC
35759739 TACAACAAAAATAGAATCTT
1 TACAACAAAAATAGAATCTT
35759759 TACAACAAAAATAGAATCTT
1 TACAACAAAAATAGAATCTT
35759779 T
1 T
35759780 TCTCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (20 bp):
TACAACAAAAATAGAATCTT
Found at i:35765955 original size:5 final size:5
Alignment explanation
Indices: 35765945--35765972 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35765935 TAATAACAAG
35765945 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
35765973 TATAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:35769261 original size:25 final size:25
Alignment explanation
Indices: 35769233--35769288 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
35769223 ATATGGTAAG
*
35769233 TTTATGTTGAAGTGATATAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
35769258 TTTATGTTGAAGTGATACAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
35769283 TTTATG
1 TTTATG
35769289 ATGAGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.41
Consensus pattern (25 bp):
TTTATGTTGAAGTGATACAGGTCAA
Found at i:35777503 original size:25 final size:25
Alignment explanation
Indices: 35777475--35777530 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
35777465 ATATTGTAAG
*
35777475 TTTATGTTGAAGTGATATAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
35777500 TTTATGTTGAAGTGATACAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
35777525 TTTATG
1 TTTATG
35777531 ATGAGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.41
Consensus pattern (25 bp):
TTTATGTTGAAGTGATACAGGTCAA
Found at i:35791985 original size:29 final size:29
Alignment explanation
Indices: 35791925--35791998 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
35791915 TCATCAACCA
* *
35791925 CGCACACTTAGTGCCTTGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
35791954 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
*
35791983 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
35791999 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:35801279 original size:18 final size:18
Alignment explanation
Indices: 35801253--35801288 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35801243 TTATGCATTG
35801253 TCTTCTTTGGTTGCTCAA
1 TCTTCTTTGGTTGCTCAA
*
35801271 TCTTGTTTGGTTGCTCAA
1 TCTTCTTTGGTTGCTCAA
35801289 AATAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.50
Consensus pattern (18 bp):
TCTTCTTTGGTTGCTCAA
Found at i:35811847 original size:58 final size:57
Alignment explanation
Indices: 35811785--35811964 Score: 211
Period size: 58 Copynumber: 3.1 Consensus size: 57
35811775 ATAAGGAAGC
* * * *
35811785 CTTTGTGGCGATCTCTATT-AAGAGGAAGCCTTTATGACTATCTCAGATAAACA-AATGT
1 CTTTGTGGTGATCTCTATTAAAG-GGATGCCTTTATGGCTATCTCAG-TAAA-AGAATAT
* *
35811843 CTTTGTGGTGATCTCTATTAAAGGGGTGCCTTTATGGCTATCTTAGTAAAATGAATAT
1 CTTTGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTAAAA-GAATAT
* * * *
35811901 CTCTATGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAATAC
1 CTTTGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAG-TAAAAGAATAT
35811959 CTTTGT
1 CTTTGT
35811965 AGCTATCTCA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 4 0.04
58 92 0.88
59 7 0.07
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (57 bp):
CTTTGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTAAAAGAATAT
Found at i:35811950 original size:29 final size:29
Alignment explanation
Indices: 35811754--35811986 Score: 129
Period size: 29 Copynumber: 8.0 Consensus size: 29
35811744 CTGAAAGGTA
* * **
35811754 GCCTTTGTGGCAATCTTTGTTATAAGGAA-
1 GCCTTTATGGCTATCTCAGTTA-AAGGAAT
* *
35811783 GCCTTTGTGGCGATCTCTA-TTAAGAGGAA-
1 GCCTTTATGGCTATCTC-AGTTAA-AGGAAT
* * **
35811812 GCCTTTATGACTATCTCAGATAAACAAAT
1 GCCTTTATGGCTATCTCAGTTAAAGGAAT
* * **
35811841 GTCTTTGTGG-TGATCTCTA-TTAAAGGGGT
1 GCCTTTATGGCT-ATCTC-AGTTAAAGGAAT
* * *
35811870 GCCTTTATGGCTATCTTAGTAAAATGAAT
1 GCCTTTATGGCTATCTCAGTTAAAGGAAT
** * *
35811899 ATCTCTATGG-TGATCTCTA-TTAAAGGGAT
1 GCCTTTATGGCT-ATCTC-AGTTAAAGGAAT
*
35811928 GCCTTTATGGCTATCTCAGTTAAATGAAT
1 GCCTTTATGGCTATCTCAGTTAAAGGAAT
* * *
35811957 ACCTTTGTAGCTATCTCAGTTAAAGGAAT
1 GCCTTTATGGCTATCTCAGTTAAAGGAAT
35811986 G
1 G
35811987 TCTTGTGTAA
Statistics
Matches: 151, Mismatches: 41, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
28 9 0.06
29 138 0.91
30 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (29 bp):
GCCTTTATGGCTATCTCAGTTAAAGGAAT
Found at i:35818051 original size:13 final size:13
Alignment explanation
Indices: 35818035--35818059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35818025 CTTACGACAA
35818035 GGAAGAAATTTTT
1 GGAAGAAATTTTT
35818048 GGAAGAAATTTT
1 GGAAGAAATTTT
35818060 GAGATTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (13 bp):
GGAAGAAATTTTT
Found at i:35818471 original size:6 final size:6
Alignment explanation
Indices: 35818460--35818496 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
35818450 TAAAACTATC
35818460 ATTAAA ATTAAA ATTAAA GATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA -ATTAAA ATTAAA ATTAAA
35818497 GACAAAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:35818484 original size:19 final size:19
Alignment explanation
Indices: 35818460--35818498 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35818450 TAAAACTATC
35818460 ATTAAAATTAAAATTAAAG
1 ATTAAAATTAAAATTAAAG
35818479 ATTAAAATTAAAATTAAAG
1 ATTAAAATTAAAATTAAAG
35818498 A
1 A
35818499 CAAAGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
ATTAAAATTAAAATTAAAG
Found at i:35818503 original size:25 final size:25
Alignment explanation
Indices: 35818460--35818511 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
35818450 TAAAACTATC
* *
35818460 ATTAAAATTAAAATTAAAGATTAAA
1 ATTAAAATTAAAATCAAAGATAAAA
35818485 ATTAAAATTAAAGA-CAAAGATAAAA
1 ATTAAAATTAAA-ATCAAAGATAAAA
35818510 AT
1 AT
35818512 GAGAAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (25 bp):
ATTAAAATTAAAATCAAAGATAAAA
Found at i:35818510 original size:19 final size:19
Alignment explanation
Indices: 35818463--35818511 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
35818453 AACTATCATT
* *
35818463 AAAATTAAAATTAAAGATT
1 AAAATAAAAATTAAAGATC
*
35818482 AAAATTAAAATTAAAGA-C
1 AAAATAAAAATTAAAGATC
35818500 AAAGATAAAAAT
1 AAA-ATAAAAAT
35818512 GAGAAGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATTAAAGATC
Found at i:35824919 original size:38 final size:38
Alignment explanation
Indices: 35824863--35825011 Score: 228
Period size: 38 Copynumber: 3.9 Consensus size: 38
35824853 AAAAACGTAA
* * *
35824863 TGATATTCGGGCTATGTGCCTAGTAGGCTTTGTACCGG
1 TGATATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGG
* * *
35824901 TGATATTCAAGCTGTGTGCCTAGTAGGCTTTGTGCCGG
1 TGATATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGG
35824939 TGATATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGG
1 TGATATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGG
35824977 TGATATT-AGGGCTATGTGCCTAGCAGGCTTTGTGC
1 TGATATTCA-GGCTATGTGCCTAGCAGGCTTTGTGC
35825012 TAGTGTTATT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 1 0.01
38 102 0.99
ACGTcount: A:0.16, C:0.19, G:0.32, T:0.34
Consensus pattern (38 bp):
TGATATTCAGGCTATGTGCCTAGCAGGCTTTGTGCCGG
Found at i:35824956 original size:22 final size:22
Alignment explanation
Indices: 35824925--35824996 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
35824915 TGTGCCTAGT
*
35824925 AGGCTTTGTGCCGGTGATATTC
1 AGGCTATGTGCCGGTGATATTC
*
35824947 AGGCTATGTGCC-----TA-GC
1 AGGCTATGTGCCGGTGATATTC
*
35824963 AGGCTTTGTGCCGGTGATATT-
1 AGGCTATGTGCCGGTGATATTC
35824984 AGGGCTATGTGCC
1 A-GGCTATGTGCC
35824997 TAGCAGGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
16 12 0.32
17 2 0.05
21 3 0.08
22 21 0.55
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.32
Consensus pattern (22 bp):
AGGCTATGTGCCGGTGATATTC
Found at i:35825037 original size:76 final size:76
Alignment explanation
Indices: 35824874--35825054 Score: 202
Period size: 76 Copynumber: 2.4 Consensus size: 76
35824864 GATATTCGGG
* * * * * *
35824874 CTATGTGCCTAGTAGGCTTTGTACCGGTGATATTCAAGCTGTGTGCCTAGTAGGCTTTGTGCCGG
1 CTATATGCCTAGCAGGCTTTGTGCCGGTGATATTCAAGCTATGTGCCTAGCAGGCTTTGTGCCAG
**
35824939 TGATATTCAGG
66 TGATATTCAAA
* * *
35824950 CTATGTGCCTAGCAGGCTTTGTGCCGGTGATATT-AGGGCTATGTGCCTAGCAGGCTTTGTGCTA
1 CTATATGCCTAGCAGGCTTTGTGCCGGTGATATTCA-AGCTATGTGCCTAGCAGGCTTTGTGCCA
*
35825014 GTGTTATTCAAA
65 GTGATATTCAAA
* * * *
35825026 CTTTATTCCTAGCAGGCTTTATGTCGGTG
1 CTATATGCCTAGCAGGCTTTGTGCCGGTG
35825055 TAATGCAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 1 0.01
76 88 0.99
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (76 bp):
CTATATGCCTAGCAGGCTTTGTGCCGGTGATATTCAAGCTATGTGCCTAGCAGGCTTTGTGCCAG
TGATATTCAAA
Found at i:35836495 original size:20 final size:20
Alignment explanation
Indices: 35836436--35836500 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
35836426 AATTGCAAGA
* * *
35836436 AATGTGAACTAGCTACCAGT
1 AATGTGGACAAGCCACCAGT
* * *
35836456 ATTGTAGACAAGCTGA-CAGT
1 AATGTGGACAAGC-CACCAGT
35836476 AATGTGGACAAGCCACCAGT
1 AATGTGGACAAGCCACCAGT
35836496 AATGT
1 AATGT
35836501 AGATAATGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (20 bp):
AATGTGGACAAGCCACCAGT
Found at i:35844771 original size:79 final size:78
Alignment explanation
Indices: 35844626--35844781 Score: 231
Period size: 79 Copynumber: 2.0 Consensus size: 78
35844616 CAGTCTTGGA
* *
35844626 AGCTTGACACTTGAAGTTCCCGAATAGCCATTAGAGTGGACTTAAAGAGTTGAGCTAAATAAATC
1 AGCTTGACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTTGAGCTAAATAAATC
35844691 AAATTAATTGATT
66 AAATTAATTGATT
* * * * * *
35844704 AGCTTGGACATTTGGAGTTCCCGAACAGCCATTGGAGCGGACTTAAGGAGTTGAGCTGAATGAAT
1 AGCTT-GACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTTGAGCTAAATAAAT
35844769 CAAATTAATTGAT
65 CAAATTAATTGAT
35844782 CGTTCAATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 5 0.07
79 64 0.93
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (78 bp):
AGCTTGACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTTGAGCTAAATAAATC
AAATTAATTGATT
Found at i:35846371 original size:60 final size:61
Alignment explanation
Indices: 35846307--35846457 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 61
35846297 CACTAGTAAA
* * *
35846307 AAAGGGCAGCCTTTATGGCAAAACTCTAGATA-AGAAAGCCTTTT-TTACGA-AACTAGATGT
1 AAAGGGCAGCCTTTATGGCAAAACTCTAGACATA-AAAG-CTTTTGTGACGAGAACTACATGT
* * * * * ** *
35846367 AAAGGACAACATTTGTGGCAAAAATCTAGACATAAAAGCTTTTGTGGTGAGTACTACATGT
1 AAAGGGCAGCCTTTATGGCAAAACTCTAGACATAAAAGCTTTTGTGACGAGAACTACATGT
*
35846428 AAAAGGCAGCCTTTATGGCAAAACTCTAGA
1 AAAGGGCAGCCTTTATGGCAAAACTCTAGA
35846458 AAGGTATGCC
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
59 5 0.07
60 33 0.46
61 33 0.46
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (61 bp):
AAAGGGCAGCCTTTATGGCAAAACTCTAGACATAAAAGCTTTTGTGACGAGAACTACATGT
Found at i:35848957 original size:40 final size:40
Alignment explanation
Indices: 35848902--35848999 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
35848892 GATTATTGAA
*
35848902 TGATTACACTCTCGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACTCTCGTGCCCCTATTTGTACTTCAGTACCCC
35848942 TGATTGCACTCTCGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACTCTCGTGCCCCTATTTGTACTTCAGTACCCC
*
35848982 TGACTGCACTCTCGTGCC
1 TGATTGCACTCTCGTGCC
35849000 TCTGGTTATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.15, C:0.36, G:0.15, T:0.34
Consensus pattern (40 bp):
TGATTGCACTCTCGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:35848961 original size:20 final size:20
Alignment explanation
Indices: 35848902--35848999 Score: 78
Period size: 20 Copynumber: 4.9 Consensus size: 20
35848892 GATTATTGAA
*
35848902 TGATTACACTCTCGTGCCCC
1 TGATTGCACTCTCGTGCCCC
* *
35848922 T-ATTTGTACT-TCAGTACCCC
1 TGA-TTGCACTCTC-GTGCCCC
35848942 TGATTGCACTCTCGTGCCCC
1 TGATTGCACTCTCGTGCCCC
* *
35848962 T-ATTTGTACT-TCAGTACCCC
1 TGA-TTGCACTCTC-GTGCCCC
*
35848982 TGACTGCACTCTCGTGCC
1 TGATTGCACTCTCGTGCC
35849000 TCTGGTTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
19 6 0.10
20 48 0.80
21 6 0.10
ACGTcount: A:0.15, C:0.36, G:0.15, T:0.34
Consensus pattern (20 bp):
TGATTGCACTCTCGTGCCCC
Found at i:35851155 original size:51 final size:52
Alignment explanation
Indices: 35851035--35851163 Score: 172
Period size: 51 Copynumber: 2.5 Consensus size: 52
35851025 ACTAGTGACT
*
35851035 CAAGTGTGGTACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
* * **
35851087 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTATTTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTC-A
* *
35851138 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
35851164 CGGGCATCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 35 0.51
52 33 0.48
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
Found at i:35853550 original size:28 final size:28
Alignment explanation
Indices: 35853506--35853563 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
35853496 TAATTGCTTC
*
35853506 AGTTGGGTATTCGCACCGAGACCGTGGG
1 AGTTGGGTATTCACACCGAGACCGTGGG
*
35853534 AGTTGGGTATTCACACCGAGACCTTGGG
1 AGTTGGGTATTCACACCGAGACCGTGGG
35853562 AG
1 AG
35853564 ATCATATTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (28 bp):
AGTTGGGTATTCACACCGAGACCGTGGG
Found at i:35860166 original size:51 final size:52
Alignment explanation
Indices: 35860050--35860177 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
35860040 ACTAATGACT
35860050 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTAGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTAGGTCA
* *
35860102 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTAGGTC-A
* * *
35860153 CAAGGGTGATACTATGTGTAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
35860178 ACAGGTATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.01
51 34 0.49
52 35 0.50
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTAGGTCA
Found at i:35860505 original size:20 final size:20
Alignment explanation
Indices: 35860480--35860519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35860470 TGTGTGACTT
*
35860480 TGAAAAATCACTAAAAATGG
1 TGAAAAATCACCAAAAATGG
35860500 TGAAAAATCACCAAAAATGG
1 TGAAAAATCACCAAAAATGG
35860520 AGTCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (20 bp):
TGAAAAATCACCAAAAATGG
Found at i:35863150 original size:19 final size:19
Alignment explanation
Indices: 35863128--35863164 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35863118 CAATATGGTG
* *
35863128 GAAAAGAGGAAATATGAGA
1 GAAAAGAGAAAAGATGAGA
35863147 GAAAAGAGAAAAGATGAG
1 GAAAAGAGAAAAGATGAG
35863165 TCGTAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (19 bp):
GAAAAGAGAAAAGATGAGA
Found at i:35864903 original size:50 final size:50
Alignment explanation
Indices: 35864761--35864952 Score: 154
Period size: 50 Copynumber: 3.9 Consensus size: 50
35864751 GATAATAACA
* * * * ** * *
35864761 TGCCAAAGCCAAGTCCCAGACATGGTCTTACATGGGATGTTTCATGAAC--
1 TGCCAACGCCATGTCCCAGACATGGTCGTACAGGGGACCTCTCAT-ATCGG
* * * ** * * **
35864810 TGCCAATGCCATATCTCAGATTTGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCGTACAGGGGACCTCTCATATCGG
* * * *
35864860 TGCCCATGCCATGTCCCAGACATGGTCGTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCGTACAGGGGACCTCTCATATCGG
* *
35864910 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCGTACAGGGGACCTCTC
35864953 TGAATCTCAA
Statistics
Matches: 115, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 2 0.02
49 36 0.31
50 77 0.67
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCGTACAGGGGACCTCTCATATCGG
Found at i:35868654 original size:107 final size:107
Alignment explanation
Indices: 35868468--35868681 Score: 376
Period size: 107 Copynumber: 2.0 Consensus size: 107
35868458 CCTATACATG
35868468 CCATTATAACCAAACCTAAACCAACTAAAAGTACAAAAAGAGCCGATGGATAGTGTGATATAGTT
1 CCATTATAACCAAACCTAAACCAACTAAAAGTACAAAAAGAGCCGATGGATAGTGTGATATAGTT
* *
35868533 CCGACAAGCTTCCAACCCGAACGAGCTTTTGATTCACTATAA
66 CCGACAAGCTTCCAACCCGAACGAGCTTCTAATTCACTATAA
*
35868575 CCATTATAACCAAACCTAAACCAACTGAAAA-TACCAAAAGAGCCGATGGATAGTGTGATATAGT
1 CCATTATAACCAAACCTAAACCAACT-AAAAGTACAAAAAGAGCCGATGGATAGTGTGATATAGT
*
35868639 TTCGACAAGCTTCCAACCCGAACGAGCTTCTAATTCACTATAA
65 TCCGACAAGCTTCCAACCCGAACGAGCTTCTAATTCACTATAA
35868682 AACACGGAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
107 98 0.96
108 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.22
Consensus pattern (107 bp):
CCATTATAACCAAACCTAAACCAACTAAAAGTACAAAAAGAGCCGATGGATAGTGTGATATAGTT
CCGACAAGCTTCCAACCCGAACGAGCTTCTAATTCACTATAA
Found at i:35868948 original size:30 final size:30
Alignment explanation
Indices: 35868893--35868954 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
35868883 CATTAAGCAA
35868893 GTTTCATATACATGTATCATCCATTTC-AT
1 GTTTCATATACATGTATCATCCATTTCTAT
35868922 GTTTCAATATATCATGTAAT-AT-CATTTCTAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCTAT
35868953 GT
1 GT
35868955 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 11 0.38
31 11 0.38
32 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCTAT
Found at i:35869218 original size:24 final size:24
Alignment explanation
Indices: 35869154--35869219 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
35869144 TGTAAATCAT
* *
35869154 TAAGCTCATACGAGCTGAGAACCGA
1 TAAGCTTATACGAGCT-AAAACCGA
*
35869179 TAAGCTCTCATA--AGCTAAAATCGA
1 TAAGCT-T-ATACGAGCTAAAACCGA
35869203 TAAGCTTATACGAGCTA
1 TAAGCTTATACGAGCTA
35869220 TGGTGTGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 1 0.03
24 17 0.50
25 10 0.29
27 3 0.09
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (24 bp):
TAAGCTTATACGAGCTAAAACCGA
Found at i:35873166 original size:50 final size:50
Alignment explanation
Indices: 35873060--35873252 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
35873050 GGTAAAGATA
* * *
35873060 TCCCATGTAGGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
35873116 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
35873166 TCCCCTGTAAGACCATG-CCAGGGACATGGCATAGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTA-GGACATGGCATTGGCACCGAGATGAGAGG
* *
35873216 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
35873253 GTACAAAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 76 0.64
51 2 0.02
53 3 0.03
55 1 0.01
56 34 0.29
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:35879720 original size:50 final size:50
Alignment explanation
Indices: 35879645--35879935 Score: 284
Period size: 50 Copynumber: 5.9 Consensus size: 50
35879635 CATTTGGGTA
* * * *
35879645 AAGAGGTCCTATGTAAGATCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
35879695 AAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCTAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
35879745 AACAGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTAGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *** * * *
35879794 GAGAGGTCCCCCATAAGACCATGTCTTGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * * *
35879844 GAGAACTCCCATGTAAGATCATATCTGGGATATGGCATTGGCAGTACAAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
* * *
35879895 AACA--TCCCATGTAAGACCATGTCCGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35879936 TGTTATTATC
Statistics
Matches: 198, Mismatches: 40, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 72 0.36
50 121 0.61
51 2 0.01
52 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:35879825 original size:99 final size:100
Alignment explanation
Indices: 35879648--35879879 Score: 270
Period size: 99 Copynumber: 2.3 Consensus size: 100
35879638 TTGGGTAAAG
* * * * **
35879648 AGGTCCTATGTAAGATCATGTTTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATAAGAGGTCCCACATAAGA
*
35879713 CCATGTTTGGGACATAGCATTGGCACCTAGATAAC
66 CCATGTTTGGGACATAGCATGGGCACCTAGATAAC
* *
35879748 AGGTCCCATGTAAGACCATGTCT-GGACATGGCGTTAGCACCGAGATGAGAGGTCCCCCATAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATAAGAGGTCCCACATAAGA
* * * * *
35879812 CCATGTCTT-GGACATGGCATGGGCACCGATATGAG
66 CCATGT-TTGGGACATAGCATGGGCACCTAGATAAC
** * * *
35879847 AACTCCCATGTAAGATCATATCTGGGATATGGC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGC
35879880 ATTGGCAGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 81 0.73
100 30 0.27
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (100 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATAAGAGGTCCCACATAAGA
CCATGTTTGGGACATAGCATGGGCACCTAGATAAC
Found at i:35879924 original size:149 final size:148
Alignment explanation
Indices: 35879658--35879928 Score: 341
Period size: 149 Copynumber: 1.8 Consensus size: 148
35879648 AGGTCCTATG
* * * ** * *
35879658 TAAGATCATGTTTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTTTGG
1 TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTGG
* * *
35879723 GACATAGCATTGGCACCTAGATAACAGGTCCCATGTAAGACCATGTCTGGACATGGCGTTAGCAC
66 GACATAGCATTGGCAACAAGATAACA-GTCCCATGTAAGACCATGTCGGGACATGGCGTTAGCAC
35879788 CGAGATGAGAGGTCCCCCA
130 CGAGATGAGAGGTCCCCCA
* * *
35879807 TAAGACCATGTCTT-GGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGATCATATCTG
1 TAAGACCATGT-TTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTG
* *
35879871 GGATATGGCATTGGCAGTACAAGA-AACA-TCCCATGTAAGACCATGTCCGGGACATGGC
65 GGACATAGCATTGGCA--ACAAGATAACAGTCCCATGTAAGACCATGT-CGGGACATGGC
35879929 TTTGGCATGT
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
148 18 0.17
149 75 0.73
150 6 0.06
151 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (148 bp):
TAAGACCATGTTTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCATATCTGG
GACATAGCATTGGCAACAAGATAACAGTCCCATGTAAGACCATGTCGGGACATGGCGTTAGCACC
GAGATGAGAGGTCCCCCA
Found at i:35887348 original size:49 final size:49
Alignment explanation
Indices: 35887292--35887477 Score: 171
Period size: 49 Copynumber: 3.8 Consensus size: 49
35887282 CATTAAGATT
* *
35887292 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGCACCGAC
** * * * * *
35887341 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCAT-TGCACCGAC
** * *
35887391 ATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATT-GCACCG-AC
* **
35887440 A-GAAAACATCCCATGTAAGACCATGTCTAGGACATGGC
1 ATG-AGAGGTCCCATGTAAGACCATGTCTAGGACATGGC
35887478 TTTGGCATGT
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 67 0.61
50 41 0.38
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGCACCGAC
Found at i:35890791 original size:27 final size:27
Alignment explanation
Indices: 35890740--35890791 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
35890730 CTCATCTTAG
** *
35890740 TTTAATTAATAAGTGTTTTTGTTAAAC
1 TTTAATTAATAAGTGTTGCTCTTAAAC
*
35890767 TTTATTTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTGTTGCTCTTAA
35890792 TTAATCTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTAATTAATAAGTGTTGCTCTTAAAC
Found at i:35892565 original size:15 final size:15
Alignment explanation
Indices: 35892545--35892575 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35892535 AATAAATCAT
35892545 CTCTTTTTCCAAGCC
1 CTCTTTTTCCAAGCC
35892560 CTCTTTTTCCAAGCC
1 CTCTTTTTCCAAGCC
35892575 C
1 C
35892576 AAGTTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.42, G:0.06, T:0.39
Consensus pattern (15 bp):
CTCTTTTTCCAAGCC
Found at i:35892831 original size:30 final size:32
Alignment explanation
Indices: 35892776--35892845 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
35892766 TAAAATTTAA
*
35892776 ATTTATTATTATAATATTTTGAAAA-TATT-T
1 ATTTATTTTTATAATATTTTGAAAATTATTAT
*
35892806 ATTTATTTTTAT-ATATTTTTTAAAATTATTAT
1 ATTTATTTTTATAATA-TTTTGAAAATTATTAT
*
35892838 ATATATTT
1 ATTTATTT
35892846 GAAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.09
30 19 0.56
31 4 0.12
32 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTATTTTTATAATATTTTGAAAATTATTAT
Found at i:35892839 original size:20 final size:20
Alignment explanation
Indices: 35892813--35892865 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
35892803 TTTATTTATT
*
35892813 TTTATATATTTTTTAAAAT-
1 TTTATATATTTTTGAAAATA
*
35892832 TATTATATATATTTGAAAATA
1 T-TTATATATTTTTGAAAATA
*
35892853 TTTAGATATTTTT
1 TTTATATATTTTT
35892866 ATATATTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTATATATTTTTGAAAATA
Found at i:35892910 original size:22 final size:20
Alignment explanation
Indices: 35892879--35892945 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
35892869 TATTTCTTTG
35892879 AATTTT-TAAAATTATAATTA
1 AATTTTGTAAAATTATAA-TA
*
35892899 AATTGTTGT-AAATTTTAATA
1 AATT-TTGTAAAATTATAATA
*
35892919 ATTATTTTTTAAAATTATAACTA
1 A--ATTTTGTAAAATTATAA-TA
35892942 AATT
1 AATT
35892946 AATATAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 7 0.18
21 16 0.42
22 12 0.32
23 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTGTAAAATTATAATA
Found at i:35895816 original size:3 final size:3
Alignment explanation
Indices: 35895808--35895849 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
35895798 CGCAGCAACT
* * *
35895808 GCA GCA GCA GCA ACA ACA CCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
35895850 AAGGCAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.36, G:0.26, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:35895819 original size:15 final size:15
Alignment explanation
Indices: 35895788--35895850 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 15
35895778 ACCATCTCCT
35895788 CAGCAACAG-A-C-G
1 CAGCAACAGCAGCAG
*
35895800 CAGCAACTGCAGCAG
1 CAGCAACAGCAGCAG
* *
35895815 CAGCAACAACACCAG
1 CAGCAACAGCAGCAG
*
35895830 CAGCAGCAGCAGCAG
1 CAGCAACAGCAGCAG
35895845 CAGCAA
1 CAGCAA
35895851 AGGCAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 8 0.20
13 1 0.03
14 1 0.03
15 30 0.75
ACGTcount: A:0.40, C:0.35, G:0.24, T:0.02
Consensus pattern (15 bp):
CAGCAACAGCAGCAG
Found at i:35900653 original size:28 final size:28
Alignment explanation
Indices: 35900594--35900654 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
35900584 ACGTGCCATT
* * *
35900594 TTTATCACCCATGGGATTATATTAAGGT
1 TTTATCACCCATGGGATCATATGAAGGA
*
35900622 TTTATCACTCATGGGATCATAATGAA-GA
1 TTTATCACCCATGGGATCAT-ATGAAGGA
35900650 TTTAT
1 TTTAT
35900655 GATGAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (28 bp):
TTTATCACCCATGGGATCATATGAAGGA
Found at i:35901880 original size:23 final size:24
Alignment explanation
Indices: 35901835--35901880 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
35901825 TGTTTATAAT
*
35901835 TGAAATGGATATTGATAGAAAATG
1 TGAAATGGAAATTGATAGAAAATG
* *
35901859 TGAAAT-GAAATTGTTAGTAAAT
1 TGAAATGGAAATTGATAGAAAAT
35901881 TTTGTTATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGAAATGGAAATTGATAGAAAATG
Found at i:35906736 original size:6 final size:7
Alignment explanation
Indices: 35906718--35906759 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
35906708 TTTGCTTTAC
35906718 ATTTTTT
1 ATTTTTT
35906725 ATTTTTT
1 ATTTTTT
35906732 ATTTTTT
1 ATTTTTT
35906739 CATTTTATT
1 -ATTTT-TT
35906748 ATTTTTT
1 ATTTTTT
35906755 CATTT
1 -ATTT
35906760 CTTTTCCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 16 0.50
8 14 0.44
9 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:35906738 original size:16 final size:16
Alignment explanation
Indices: 35906718--35906759 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
35906708 TTTGCTTTAC
35906718 ATTTTTT-ATTTT-TT
1 ATTTTTTCATTTTATT
35906732 ATTTTTTCATTTTATT
1 ATTTTTTCATTTTATT
35906748 ATTTTTTCATTT
1 ATTTTTTCATTT
35906760 CTTTTCCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTCATTTTATT
Found at i:35920589 original size:20 final size:20
Alignment explanation
Indices: 35920536--35920589 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
35920526 TATTTAAGCT
*
35920536 AAAGTAAGTAAATACAATGG
1 AAAGTAAGTAAATGCAATGG
35920556 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGG
35920576 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
35920590 GAAGGGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGG
Found at i:35931802 original size:15 final size:15
Alignment explanation
Indices: 35931778--35931811 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35931768 ACAACTTCTT
*
35931778 CTTCTTCAGCAACAA
1 CTTCTACAGCAACAA
35931793 CTTCTACAGCAACAA
1 CTTCTACAGCAACAA
35931808 -TTCT
1 CTTCT
35931812 GAACAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.29
Consensus pattern (15 bp):
CTTCTACAGCAACAA
Found at i:35944026 original size:9 final size:9
Alignment explanation
Indices: 35944014--35944099 Score: 93
Period size: 9 Copynumber: 9.4 Consensus size: 9
35944004 AAATAAAAAA
35944014 AATTCGGGT
1 AATTCGGGT
35944023 AATTCGGGT
1 AATTCGGGT
*
35944032 ATTTTTC-GGT
1 A--ATTCGGGT
*
35944042 AATTCGGTT
1 AATTCGGGT
* *
35944051 AATTTGGTT
1 AATTCGGGT
*
35944060 AATTCAGGT
1 AATTCGGGT
35944069 AATTCGGGT
1 AATTCGGGT
*
35944078 AATTCAGGT
1 AATTCGGGT
35944087 AATTCGGGT
1 AATTCGGGT
35944096 AATT
1 AATT
35944100 TTTAACCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
8 3 0.05
9 54 0.84
10 4 0.06
11 3 0.05
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:35945613 original size:56 final size:58
Alignment explanation
Indices: 35945552--35945684 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 58
35945542 TAATCACTTT
* *
35945552 AATATTAAA-TATATA-ATACTTA-TC-AAGATAAACATTCAATTAAATTTAATATTAA
1 AATATTAAATTA-ATAGATACTTACTCTAAGATAAACATTAAATTAAATTAAATATTAA
**
35945607 ATATATTAAATTAATAGTATACTTATCTCTAAGATAATTATTAAATTAAATTAAATATTAA
1 A-ATATTAAATTAATAG-ATACTTA-CTCTAAGATAAACATTAAATTAAATTAAATATTAA
*
35945668 AACTATTAAAATAATAG
1 AA-TATTAAATTAATAG
35945685 TATTTTTGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
55 1 0.02
56 11 0.17
57 2 0.03
58 7 0.11
60 3 0.05
61 41 0.63
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (58 bp):
AATATTAAATTAATAGATACTTACTCTAAGATAAACATTAAATTAAATTAAATATTAA
Found at i:35950344 original size:42 final size:41
Alignment explanation
Indices: 35950207--35950355 Score: 147
Period size: 42 Copynumber: 3.6 Consensus size: 41
35950197 GTTACTCGGT
* * * *
35950207 GGAATCAGCGCTTAGCAACCAC-TTATAATCAGTGATACGG
1 GGAATCAGCACTTAGCAACCCCTTTACAATCAATGATACGG
* * * *
35950247 GGAATTAGCACATAGCAACCCCTTTCACAATCAAGGATACGCT
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAATGATACG-G
* * * * *
35950290 GGAATCAACACTTATCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAATGATACGG
35950332 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
35950356 AGGGAATCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 18 0.21
41 6 0.07
42 30 0.35
43 27 0.31
44 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAATGATACGG
Found at i:35950360 original size:26 final size:26
Alignment explanation
Indices: 35950331--35950381 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
35950321 CAATAATTCG
35950331 GGGAATCAGCACTTAGCAACCCCTTA
1 GGGAATCAGCACTTAGCAACCCCTTA
* *
35950357 GGGAATCTGCACTTAGCTACCCCTT
1 GGGAATCAGCACTTAGCAACCCCTT
35950382 TTTGATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (26 bp):
GGGAATCAGCACTTAGCAACCCCTTA
Found at i:35950402 original size:41 final size:41
Alignment explanation
Indices: 35950356--35950504 Score: 244
Period size: 41 Copynumber: 3.6 Consensus size: 41
35950346 GCAACCCCTT
*
35950356 AGGGAATCTGCACTTAGCTACCCCTTTTTGATCAGAGTTTC
1 AGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTC
*
35950397 GGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTC
1 AGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTC
* *
35950438 AGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTC
1 AGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTC
* *
35950479 AAGGAATCTGCATTTAGCAACCCCTT
1 AGGGAATCTGCACTTAGCAACCCCTT
35950505 ACATTCAATG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (41 bp):
AGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTC
Found at i:35958325 original size:20 final size:20
Alignment explanation
Indices: 35958300--35958338 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35958290 CTCAGTTTAG
*
35958300 CTCACATGAGTTTAATTCAA
1 CTCACATGAGCTTAATTCAA
35958320 CTCACATGAGCTTAATTCA
1 CTCACATGAGCTTAATTCA
35958339 GCTCGTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
CTCACATGAGCTTAATTCAA
Found at i:35978448 original size:20 final size:18
Alignment explanation
Indices: 35978406--35978448 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
35978396 ACGTTATATG
*
35978406 ATTAATTTAATAATAAAT
1 ATTAATTTAATAAAAAAT
35978424 ATTAATATTAATAAAAAAGT
1 ATTAAT-TTAATAAAAAA-T
35978444 ATTAA
1 ATTAA
35978449 AAACATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAATTTAATAAAAAAT
Found at i:35984267 original size:23 final size:22
Alignment explanation
Indices: 35984217--35984271 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
35984207 GTCAAACATT
*
35984217 ATTATAATTATGGTAATTATAATT
1 ATTAT-ATT-TGGTAATTATAATA
*
35984241 ATTATATTTGGTTAATTATTATA
1 ATTATATTTGG-TAATTATAATA
35984264 ATTA-ATTT
1 ATTATATTT
35984272 TGATTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
ATTATATTTGGTAATTATAATA
Found at i:35987504 original size:15 final size:16
Alignment explanation
Indices: 35987479--35987508 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35987469 AGAGAAAAAT
35987479 AAAAGTGAAAATGAAG
1 AAAAGTGAAAATGAAG
35987495 AAAA-TGAAAATGAA
1 AAAAGTGAAAATGAA
35987509 AAAGGCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (16 bp):
AAAAGTGAAAATGAAG
Found at i:35997340 original size:25 final size:26
Alignment explanation
Indices: 35997311--35997373 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 26
35997301 GAGCATTCTC
35997311 TTATCTTT-ATCTTCTATTCTTTTAT
1 TTATCTTTAATCTTCTATTCTTTTAT
35997336 TTATCTTTTGTTAATCTTCTATTCTTTTAT
1 TTATC---T-TTAATCTTCTATTCTTTTAT
35997366 TTATCTTT
1 TTATCTTT
35997374 TGTTAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 1 0.03
28 1 0.03
29 2 0.06
30 22 0.67
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATCTTTAATCTTCTATTCTTTTAT
Found at i:35997355 original size:30 final size:30
Alignment explanation
Indices: 35997319--35997380 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35997309 TCTTATCTTT
35997319 ATCTTCTATTCTTTTATTTATCTTTTGTTA
1 ATCTTCTATTCTTTTATTTATCTTTTGTTA
35997349 ATCTTCTATTCTTTTATTTATCTTTTGTTA
1 ATCTTCTATTCTTTTATTTATCTTTTGTTA
35997379 AT
1 AT
35997381 TTTACCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.66
Consensus pattern (30 bp):
ATCTTCTATTCTTTTATTTATCTTTTGTTA
Found at i:36010002 original size:31 final size:31
Alignment explanation
Indices: 36009967--36010029 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
36009957 GGAATGAATT
*
36009967 CATACCGAAACCAATTGAAA-ATCATGAAATC
1 CATACCGAAACCAATT-AAAGATCAAGAAATC
*
36009998 CATACCGAGACCAATTAAAGATCAAGAAATC
1 CATACCGAAACCAATTAAAGATCAAGAAATC
36010029 C
1 C
36010030 TCCATCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.48, C:0.24, G:0.11, T:0.17
Consensus pattern (31 bp):
CATACCGAAACCAATTAAAGATCAAGAAATC
Found at i:36010511 original size:5 final size:5
Alignment explanation
Indices: 36010501--36010532 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
36010491 TCATACTTCC
36010501 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
36010533 TAAAAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:36013653 original size:17 final size:17
Alignment explanation
Indices: 36013631--36013663 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36013621 TTAATTTAAA
36013631 TAAATAAATTT-CTCAAT
1 TAAAT-AATTTACTCAAT
36013648 TAAATAATTTACTCAA
1 TAAATAATTTACTCAA
36013664 ACGAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTTACTCAAT
Found at i:36015486 original size:20 final size:20
Alignment explanation
Indices: 36015448--36015498 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36015438 GGCTTGAAGC
* *
36015448 TATTCTAACTTGTTTAAAAA
1 TATTCTAACTTATTGAAAAA
*
36015468 TATTTTAACTTATTGAAAAA
1 TATTCTAACTTATTGAAAAA
* *
36015488 AAATCTAACTT
1 TATTCTAACTT
36015499 TGATTGAGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (20 bp):
TATTCTAACTTATTGAAAAA
Found at i:36027307 original size:11 final size:11
Alignment explanation
Indices: 36027285--36027327 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
36027275 AGGAGAGTGA
36027285 TGGTCACGGTAG
1 TGGTC-CGGTAG
36027297 TGGTCCGGTAG
1 TGGTCCGGTAG
*
36027308 TGGTCCGGTGG
1 TGGTCCGGTAG
*
36027319 TGGTGCGGT
1 TGGTCCGGT
36027328 TAATTAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 24 0.83
12 5 0.17
ACGTcount: A:0.07, C:0.16, G:0.49, T:0.28
Consensus pattern (11 bp):
TGGTCCGGTAG
Found at i:36032126 original size:33 final size:33
Alignment explanation
Indices: 36032082--36032161 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
36032072 GAGTTAGTTT
36032082 ATTAACTTTAGTTTAGCTCAAATAAGTGTTAGTA
1 ATTAA-TTTAGTTTAGCTCAAATAAGTGTTAGTA
* * *
36032116 ATTATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTAGTTTAGCTCAAATAAGTGTTAGTA
36032149 ATTAATTT-GTTTA
1 ATTAATTTAGTTTA
36032162 AATCTGGACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 4 0.10
33 33 0.80
34 4 0.10
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (33 bp):
ATTAATTTAGTTTAGCTCAAATAAGTGTTAGTA
Done.