Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 77 of 279
Found at i:25448509 original size:46 final size:46
Alignment explanation
Indices: 25448188--25448509 Score: 482
Period size: 46 Copynumber: 7.0 Consensus size: 46
25448178 TTTCTGTCAT
* * *
25448188 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
25448234 GTTGCTATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * * *
25448280 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
25448326 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
25448372 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * **
25448418 GTTGCCATGATATCTTTCAACCATGATCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
25448464 GTTGCCGTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
25448510 AGAGCACACT
Statistics
Matches: 256, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 256 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:25449452 original size:38 final size:38
Alignment explanation
Indices: 25449401--25449477 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
25449391 TGCAATTTGG
25449401 TCATTTCTGACATTTTTACAAAATTACCCATAAAGTTT
1 TCATTTCTGACATTTTTACAAAATTACCCATAAAGTTT
25449439 TCATTTCTGACATTTTTACAAAATTACCCATAAAGTTT
1 TCATTTCTGACATTTTTACAAAATTACCCATAAAGTTT
25449477 T
1 T
25449478 ACTTTTATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (38 bp):
TCATTTCTGACATTTTTACAAAATTACCCATAAAGTTT
Found at i:25457360 original size:30 final size:30
Alignment explanation
Indices: 25457326--25457383 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
25457316 TCTATGATAG
*
25457326 AGTTTGTTGGTTTAAGAATTAGGAAGTTAA
1 AGTTTGTTGGTTTAAGAATTAGAAAGTTAA
25457356 AGTTTGTTGGTTTAAGAATTAGAAAGTT
1 AGTTTGTTGGTTTAAGAATTAGAAAGTT
25457384 TGCCTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (30 bp):
AGTTTGTTGGTTTAAGAATTAGAAAGTTAA
Found at i:25458790 original size:15 final size:15
Alignment explanation
Indices: 25458770--25458800 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25458760 ATCACTGGAG
25458770 TTAACTTTAGAAAAT
1 TTAACTTTAGAAAAT
*
25458785 TTAACTTTGGAAAAT
1 TTAACTTTAGAAAAT
25458800 T
1 T
25458801 CCTCTTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (15 bp):
TTAACTTTAGAAAAT
Found at i:25463688 original size:47 final size:46
Alignment explanation
Indices: 25463491--25463851 Score: 249
Period size: 47 Copynumber: 7.7 Consensus size: 46
25463481 GATATATTTT
* * * *
25463491 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGC
* * *
25463541 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GC
* * * *
25463585 TGATGCGTGTCCCAGACACGTCTTACACAT-GCTA-TC-TCTGTCGTGGC
1 CGATGCATGTCCCAGACATGTCTTACAC-TGGC-ACTCATCTCT-GT-GC
*
25463632 CGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
* * * *
25463678 CGATGCCATGTCCCATACATGGTCTTACACTAGCTA-TCATAGTATG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTCTGTGC
* * * * * * *
25463726 TGATGCATGTCCCAAACATGTCTTACAGTAGCCCTCGTCT-GGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGC
**
25463772 CGATGCCATGTCCCAGACATGGTCTTACACTGGTC-CTCAT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGG-CACTCATCTCTGT-GC
*
25463820 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
25463852 GCACAAATCA
Statistics
Matches: 253, Mismatches: 37, Indels: 47
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 8 0.03
46 46 0.18
47 87 0.34
48 58 0.23
49 19 0.08
50 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
Found at i:25463746 original size:94 final size:94
Alignment explanation
Indices: 25463491--25463848 Score: 340
Period size: 94 Copynumber: 3.8 Consensus size: 94
25463481 GATATATTTT
* * * **
25463491 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGTTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTA--TG-GCCGATGCATGTCCCA
*
25463555 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGT-GC
* * * * *
25463585 TGATG-CGTGTCCCAGACA-CGTCTTACAC-ATGCTATC-TCTGTCGTGGCCGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA-GCTATCAT-AGT-ATGGCCGATGCATGTCCCA
* *
25463646 GACATGTCTTACATTGGCACTCATCTCTGTGC
63 GACATGTCTTACACTAGCACTCATCTCTGTGC
* * *
25463678 CGATGCCATGTCCCATACATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCCGATGCATGTCCCAGAC
* * * *
25463743 ATGTCTTACAGTAGCCCTCGTCT-GGATGC
66 ATGTCTTACACTAGCACTCATCTCTG-TGC
* * * * *
25463772 CGATGCCATGTCCCAGACATGGTCTTACACT-GGTCCTCATAATGTGGCCGAAGCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCATAGTATGGCCGATGCATGTCCCAGA
25463836 CATGTCTTACACT
65 CATGTCTTACACT
25463849 GGCGCACAAA
Statistics
Matches: 216, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
91 32 0.15
92 15 0.07
93 28 0.13
94 122 0.56
95 17 0.08
96 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGC
Found at i:25463749 original size:141 final size:136
Alignment explanation
Indices: 25463491--25463848 Score: 368
Period size: 141 Copynumber: 2.6 Consensus size: 136
25463481 GATATATTTT
* **
25463491 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGTTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-CTCAT-T-C-TGTGCCGATGCATGTCCCAG
* * * *
25463556 ACATGTCTTACACTAGCACAACTCTTAGCTGATGCGTGTCCCAGACACGTCTTACACAT-GCTAT
62 ACATGTCTTACACTAGCACAACTCATAGCTGATGCATGTCCCAAACACGTCTTACA-ATAGCCAT
25463620 C-TCTGTCG-TGGC
126 CGTCTG--GAT-GC
* *
25463632 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCACTCATCTCTGTGCCGATGCCATGTCCCATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-CTCAT-TCTGTGCCGATG-CATGTCCCAGA
* * * *
25463695 CATGGTCTTACACTAGCTATCATAGT-ATGGCTGATGCATGTCCCAAACATGTCTTACAGTAGCC
63 CAT-GTCTTACACTAGC-A-CA-ACTCATAGCTGATGCATGTCCCAAACACGTCTTACAATAGCC
*
25463759 CTCGTCTGGATGC
124 ATCGTCTGGATGC
** *
25463772 CGATGCCATGTCCCAGACATGGTCTTACACTGGTCCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-CCTCATTCTGT-GCCGATGCATGTCCCAGAC
25463837 ATGTCTTACACT
64 ATGTCTTACACT
25463849 GGCGCACAAA
Statistics
Matches: 184, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 7 0.04
138 14 0.08
139 31 0.17
140 34 0.18
141 69 0.38
142 28 0.15
143 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (136 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATTCTGTGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACAACTCATAGCTGATGCATGTCCCAAACACGTCTTACAATAGCCATCGTCT
GGATGC
Found at i:25470828 original size:94 final size:94
Alignment explanation
Indices: 25470585--25470942 Score: 358
Period size: 94 Copynumber: 3.8 Consensus size: 94
25470575 GATATATTTT
* * * * *
25470585 CGATGCCATGTCCCAGACAGGGTCTTGCACTGGCTGTCATA-TACGCGTGCTGATGCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTCCCA
* *
25470649 GACATGTCTTACACTAGTA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGT-GC
** *
25470679 CGATG-TGTGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTCGA-GGCCT-ATGCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGG-CTGATGCATGTCCC
*
25470739 AGACATGTCTTACGCTAGCACTCATCTCTGTGC
62 AGACATGTCTTACACTAGCACTCATCTCTGTGC
*
25470772 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
* * *
25470837 ATGTCTTACACTAGCCCTCGTCT-GGATGC
66 ATGTCTTACACTAGCACTCATCTCTG-TGC
* * * * * * * *
25470866 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAAGTATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
25470931 ATGTCTTACACT
66 ATGTCTTACACT
25470943 GGCGCACAAA
Statistics
Matches: 223, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
91 30 0.13
92 18 0.08
93 28 0.13
94 126 0.57
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGC
Found at i:25470844 original size:141 final size:140
Alignment explanation
Indices: 25470686--25470945 Score: 332
Period size: 141 Copynumber: 1.9 Consensus size: 140
25470676 AGCCGATGTG
* * * *
25470686 TGTCCCAGACATGTCTTACACTGGCTATC-TCTGTCGAGGCCTATG-CATGTCCCAGACAT-GTC
1 TGTCCCAGACATGTCTTACACTAGCCATCGTCTG--GAGGCCGATGCCATATCCCAGACATGGTC
* * *
25470748 TTACGCTAGCACTCAT-CTCTGTGCC-AATGCCATGTCCCAGACATGGTCTTACACTGGCTATCA
64 TTACACTAGCACTCATAATGTG-GCCGAA-G-CATGTCCCAGACAT-GTCTTACACTGGCTATCA
25470811 TAGTATGGCTGATGCA
125 TAGTATGGCTGATGCA
* *
25470827 TGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCGATGCCATATCCCAGACATGGTCTT
1 TGTCCCAGACATGTCTTACACTAGCCATCGTCTGGAGGCCGATGCCATATCCCAGACATGGTCTT
* *
25470892 ACACTAGCTCTCATAATGTGGCCGAAGTATGTCCCAGACATGTCTTACACTGGC
66 ACACTAGCACTCATAATGTGGCCGAAGCATGTCCCAGACATGTCTTACACTGGC
25470946 GCACAAATCA
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
140 21 0.20
141 52 0.50
142 25 0.24
143 5 0.05
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (140 bp):
TGTCCCAGACATGTCTTACACTAGCCATCGTCTGGAGGCCGATGCCATATCCCAGACATGGTCTT
ACACTAGCACTCATAATGTGGCCGAAGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTAT
GGCTGATGCA
Found at i:25470916 original size:48 final size:46
Alignment explanation
Indices: 25470585--25470942 Score: 253
Period size: 47 Copynumber: 7.6 Consensus size: 46
25470575 GATATATTTT
* * * * * *
25470585 CGATGCCATGTCCCAGACAGGGTCTTGCACTGGCTGTCATATACGCGTGC
1 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTCATCT--GTGTGC
* * * * *
25470635 TGATGCATGTCCTAGACATGTCTTACACTAG-T-ACAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGTGT-GC
** * * *
25470679 CGATGTGTGTCCCAGACATGTCTTACACTGGCTATC-TCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGT-G-TGC
* * * *
25470726 CTATGCATGTCCCAGACATGTCTTACGCTAGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGTGTGC
* * * * *
25470772 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTGTGT-GC
* * *
25470820 TGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGTG-TGC
* *
25470866 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATGTG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTGTGTGC
* *
25470914 CGAAGTATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
25470943 GGCGCACAAA
Statistics
Matches: 240, Mismatches: 52, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.12
45 4 0.02
46 41 0.17
47 90 0.38
48 57 0.24
49 14 0.06
50 5 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTGTGTGC
Found at i:25472870 original size:15 final size:15
Alignment explanation
Indices: 25472846--25472881 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25472836 CAGACAATTT
*
25472846 AGTTTTCATTAATAA
1 AGTTTCCATTAATAA
25472861 AGTTTCCATTAATAA
1 AGTTTCCATTAATAA
25472876 AGTTTC
1 AGTTTC
25472882 AATTCTGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (15 bp):
AGTTTCCATTAATAA
Found at i:25474014 original size:12 final size:12
Alignment explanation
Indices: 25473997--25474028 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25473987 AATAGAGCGA
*
25473997 TTCAAAGTATGT
1 TTCAAAGCATGT
25474009 TTCAAAGCATGT
1 TTCAAAGCATGT
25474021 TTCAAAGC
1 TTCAAAGC
25474029 TAAGAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (12 bp):
TTCAAAGCATGT
Found at i:25475472 original size:18 final size:18
Alignment explanation
Indices: 25475449--25475487 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
25475439 TAGTCTATAA
25475449 ACTTTGAATTAGTTATCG
1 ACTTTGAATTAGTTATCG
25475467 ACTTTGAATTAGTTATCG
1 ACTTTGAATTAGTTATCG
25475485 ACT
1 ACT
25475488 ATGGCCATAT
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:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (18 bp):
ACTTTGAATTAGTTATCG
Found at i:25476647 original size:36 final size:36
Alignment explanation
Indices: 25476600--25476668 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
25476590 AAATAGTACA
25476600 TTTTTCATAATTGACACACTGCCCAAAACATCTAGC
1 TTTTTCATAATTGACACACTGCCCAAAACATCTAGC
25476636 TTTTTCATAATTGACACACTGCCCAAAACATCT
1 TTTTTCATAATTGACACACTGCCCAAAACATCT
25476669 TCTATATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.32
Consensus pattern (36 bp):
TTTTTCATAATTGACACACTGCCCAAAACATCTAGC
Found at i:25492306 original size:13 final size:13
Alignment explanation
Indices: 25492288--25492313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25492278 ATTTTTATTT
25492288 TTAACATAAAATA
1 TTAACATAAAATA
25492301 TTAACATAAAATA
1 TTAACATAAAATA
25492314 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:25496735 original size:22 final size:19
Alignment explanation
Indices: 25496692--25496745 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
25496682 CGTATAACTA
*
25496692 AATTGTGTATATTTGAATTG
1 AATT-TGTATATGTGAATTG
25496712 AATGTTGTATATGTGAATTATG
1 AAT-TTGTATATGTGAA-T-TG
25496734 AATTTGT-TATGT
1 AATTTGTATATGT
25496746 ATATGAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 19 0.63
21 6 0.20
22 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (19 bp):
AATTTGTATATGTGAATTG
Found at i:25498214 original size:29 final size:30
Alignment explanation
Indices: 25498182--25498245 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
25498172 ACACCAGGGG
25498182 ACACACGGCCGTAG-ACCTAACAGTGTGTC
1 ACACACGGCCGTAGAACCTAACAGTGTGTC
* * * * *
25498211 ACACACGGTCGTGGAACTTGACCGTGTGTC
1 ACACACGGCCGTAGAACCTAACAGTGTGTC
25498241 ACACA
1 ACACA
25498246 TGGTTGAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.19
Consensus pattern (30 bp):
ACACACGGCCGTAGAACCTAACAGTGTGTC
Found at i:25499181 original size:10 final size:10
Alignment explanation
Indices: 25499163--25499193 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25499153 ACTCGTACAA
25499163 TAATGCTCAC
1 TAATGCTCAC
*
25499173 TAATACTCAC
1 TAATGCTCAC
25499183 TAATGCTCAC
1 TAATGCTCAC
25499193 T
1 T
25499194 CATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (10 bp):
TAATGCTCAC
Found at i:25501816 original size:49 final size:48
Alignment explanation
Indices: 25501738--25501958 Score: 199
Period size: 49 Copynumber: 4.7 Consensus size: 48
25501728 ACATAGGGTA
*
25501738 CGATGCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTAC
1 CGATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCT-C
* * * * *
25501787 CGGTGTCGATGCCATGTCCCAAACAGGTCTTACACT--CACACAT-GC
1 CGATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTC
* * * * *
25501832 C-AAGCCGATGCCATGTCCTAGACAGGTCTTACACTAGCT-TGCATATC
1 CGATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATCTC
* *
25501879 TCGA-GGCTGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCT-
1 -CGATGTC-GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTC
* * *
25501926 CAATGTCGATG-CATGTCCCAAACAAGTCTTACA
1 CGATGTCGATGCCATGTCCCAGACAGGTCTTACA
25501959 TTAGCACACA
Statistics
Matches: 140, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
44 29 0.21
45 2 0.01
46 30 0.21
47 8 0.06
48 32 0.23
49 39 0.28
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTC
Found at i:25503657 original size:30 final size:30
Alignment explanation
Indices: 25503623--25503680 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25503613 TTTTCGAGCA
* * *
25503623 TAAGGGTATAATGGTCATTTTGCCAAAGTC
1 TAAGGGCAAAATGGTCATTTTACCAAAGTC
25503653 TAAGGGCAAAATGGTCATTTTACCAAAG
1 TAAGGGCAAAATGGTCATTTTACCAAAG
25503681 ATGTGTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (30 bp):
TAAGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:25504186 original size:49 final size:49
Alignment explanation
Indices: 25504119--25504240 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 49
25504109 GTGCTAGTGG
* *
25504119 AAGA-CATGTCTGGGACAT-GCATCAGCACGC-ATAGACGAGAGCTAGTAT
1 AAGACCATGTCTGGAACATGGCATCAGC-CGCGAT-GACGAGAGCCAGTAT
* * * *
25504167 AAGACCATGTCTGGAACATGGCATCGGCCTCGATGATGATAGCCAGTAT
1 AAGACCATGTCTGGAACATGGCATCAGCCGCGATGACGAGAGCCAGTAT
*
25504216 AAGACCATGTCCAGG-ACATGGCATC
1 AAGACCATGT-CTGGAACATGGCATC
25504241 TGCAACTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
48 4 0.06
49 47 0.75
50 12 0.19
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (49 bp):
AAGACCATGTCTGGAACATGGCATCAGCCGCGATGACGAGAGCCAGTAT
Found at i:25505102 original size:55 final size:55
Alignment explanation
Indices: 25505020--25505138 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 55
25505010 AGTCAATTTA
* * * * *
25505020 GTACACGGGCAGGCCATACGGGTGTGTGTCGTGGCCGTGTTTTAAAGTT-AATGCT
1 GTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTGTTTCAAA-TTCAATGCT
* * *
25505075 GTACACGGGCAGGCTACACGAGCGTGTGTCATGGTCGTGTTTCAAATTCAATGTT
1 GTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTGTTTCAAATTCAATGCT
*
25505130 GCACACGGG
1 GTACACGGG
25505139 TTAAGGGCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 2 0.04
55 52 0.96
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (55 bp):
GTACACGGGCAGGCCACACGAGCGTGTGTCATGGCCGTGTTTCAAATTCAATGCT
Found at i:25511485 original size:46 final size:47
Alignment explanation
Indices: 25511418--25511538 Score: 174
Period size: 46 Copynumber: 2.6 Consensus size: 47
25511408 TTACTTGTGT
*
25511418 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCAC-A-ATATGCTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCACGACA-ATGATA
* *
25511464 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAACCACGACAATGATA
* *
25511511 GCCAATGTAAGACGTGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
25511539 TTTGGCTAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 35 0.51
47 32 0.47
48 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAACCACGACAATGATA
Found at i:25512537 original size:45 final size:45
Alignment explanation
Indices: 25512467--25512558 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
25512457 CAGTTTAGTA
* * * *
25512467 CACGGGCAGGCCACACGGGCGTGTGTCGTGGTCGTGTTTTAAAGT
1 CACGGGCAGGCCACACGGGCATGTGTCATGGCCGTGTTTCAAAGT
*
25512512 CACGGGCAGGCCACATGGGCATGTGTCATGGCCGTGTTTCAAAGT
1 CACGGGCAGGCCACACGGGCATGTGTCATGGCCGTGTTTCAAAGT
25512557 CA
1 CA
25512559 GTGTTGCACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.23
Consensus pattern (45 bp):
CACGGGCAGGCCACACGGGCATGTGTCATGGCCGTGTTTCAAAGT
Found at i:25520216 original size:31 final size:31
Alignment explanation
Indices: 25520178--25520295 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
25520168 ACAAATGACA
**
25520178 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
25520209 AGTGAAAAGTGGTAGCTTCGGCTACCTGCTC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
25520240 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
25520271 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
25520296 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:25520275 original size:62 final size:62
Alignment explanation
Indices: 25520178--25520295 Score: 200
Period size: 62 Copynumber: 1.9 Consensus size: 62
25520168 ACAAATGACA
***
25520178 AGTGAAAAGTGGTAGCTTTTGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGCTC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGCTC
*
25520240 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTAC
25520296 AAGTGACAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGCTC
Found at i:25520472 original size:49 final size:48
Alignment explanation
Indices: 25520317--25520584 Score: 297
Period size: 49 Copynumber: 5.7 Consensus size: 48
25520307 GATTTTCGTA
* * * * * *
25520317 TAAGACCATATCTGGGATATGGCATCA-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTAC-GTG
* * * *
25520364 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTACGTG
* *
25520410 TAAGACCAAAGCTGGGTTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTACGTG
25520459 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTACGTG
*
25520508 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T--GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTACGTG
25520550 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
25520585 AGATGTGTAA
Statistics
Matches: 203, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
41 1 0.00
42 35 0.17
44 1 0.00
45 1 0.00
46 26 0.13
47 39 0.19
48 15 0.07
49 85 0.42
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTACGTG
Found at i:25520551 original size:42 final size:43
Alignment explanation
Indices: 25520407--25520619 Score: 191
Period size: 49 Copynumber: 4.7 Consensus size: 43
25520397 TATGTGATTC
* * *
25520407 GTGTAAGACCAAAGCTGGGTTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
25520454 ACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
25520503 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
25520547 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
25520589 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
25520620 GAAAACGAAG
Statistics
Matches: 152, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.42
43 1 0.01
44 6 0.04
45 2 0.01
47 1 0.01
49 77 0.51
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:25523282 original size:40 final size:40
Alignment explanation
Indices: 25523184--25523446 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
25523174 TCCTCGTTCA
* * * * *
25523184 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25523223 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25523263 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25523303 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25523343 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25523383 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25523423 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25523447 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25531234 original size:40 final size:40
Alignment explanation
Indices: 25531136--25531398 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
25531126 TCCTCGTTCA
* * * * *
25531136 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
25531175 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25531215 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
25531255 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
25531295 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
25531335 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
25531375 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25531399 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:25535027 original size:68 final size:69
Alignment explanation
Indices: 25534917--25535075 Score: 203
Period size: 68 Copynumber: 2.3 Consensus size: 69
25534907 TCAACTTTAC
* *
25534917 CCTTCTCCCTCTTTTTCGTTCTCACGTCTGAAGCAACTTCTTTTTTTCA-TTCTTCCCATTTCCT
1 CCTTCT-CCTCTTTTTCATTCTCACATCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
25534981 TCCAA
65 TCCAA
* * * *
25534986 CCTTCTCCTCTTTTTCATTGTCACATCTTAATCATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
1 CCTTCTCCTCTTTTTCATTCTCACATCTGAAGCAACTTCTTTTTTTCA-T-TTCTTCCCATTTCC
*
25535051 TTCCAT
64 TTCCAA
*
25535057 CCATCTCTCTCTTTTTCAT
1 CCTTCTC-CTCTTTTTCAT
25535076 GCTTCTATCC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
68 36 0.46
69 6 0.08
71 25 0.32
72 11 0.14
ACGTcount: A:0.13, C:0.34, G:0.03, T:0.50
Consensus pattern (69 bp):
CCTTCTCCTCTTTTTCATTCTCACATCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCTT
CCAA
Found at i:25535994 original size:3 final size:3
Alignment explanation
Indices: 25535988--25536016 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25535978 ATTATTATTA
25535988 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
25536017 TTTTAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:25539285 original size:43 final size:43
Alignment explanation
Indices: 25539222--25539306 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
25539212 TCAGGAATTA
25539222 GTTGGGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTAG
1 GTTGGGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTAG
* *
25539265 GTTGGGTATCAAGTTGGAAAAGGCATCAAATTGGTTGCCTTA
1 GTTGGGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTA
25539307 TGTATTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (43 bp):
GTTGGGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTAG
Found at i:25539720 original size:17 final size:17
Alignment explanation
Indices: 25539700--25539732 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25539690 ATTAAGAATG
25539700 TTATTAAATTAAATTTT
1 TTATTAAATTAAATTTT
*
25539717 TTATTAAATTATATTT
1 TTATTAAATTAAATTT
25539733 AATAAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATTAAATTTT
Found at i:25539987 original size:16 final size:16
Alignment explanation
Indices: 25539966--25540004 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
25539956 TGAATTACTG
*
25539966 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
*
25539982 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
25539998 ATTACAG
1 ATTACAG
25540005 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:25542220 original size:48 final size:48
Alignment explanation
Indices: 25542120--25542389 Score: 207
Period size: 48 Copynumber: 5.7 Consensus size: 48
25542110 GAAAAGAGCT
* * *
25542120 AGTGTAAGA-CATGTATGGGACAT-GCATCGGCTAC--A-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAGGTGCC
*
25542164 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGCC
* * * * * *
25542212 AGTGTAAGACCATGTCTGAGACATGGCATCGACACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-GAG-GTGCC
* ** * * * *
25542262 AGTGTAAGACCATGGCTGGGACATGGTGTCAGCCTCGATTTCGA--TAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACG-TATAGAGGT-GCC
* * * *
25542311 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAGAGGTGCC
* *
25542358 AGTGTAAGACCATCTCTGGGATATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
25542390 TATTATACCC
Statistics
Matches: 180, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 12 0.07
47 32 0.18
48 46 0.26
49 31 0.17
50 28 0.16
51 5 0.03
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGCC
Found at i:25542330 original size:49 final size:47
Alignment explanation
Indices: 25542027--25542388 Score: 215
Period size: 47 Copynumber: 7.7 Consensus size: 47
25542017 TATGTGTGCT
* * *
25542027 AGTGTAAGA-TATGTCTGGGACAT-GCATCGAC-CACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTC-GATCGAT--GAGCC
* * * * *** * *
25542073 ACTGTAAGACCATGTCTAGGACAT-GCTTCGACATTGAGAAAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGATCGATGAGCC
* * * * *
25542120 AGTGTAAGA-CATGTATGGGACAT-GCATCGGCTAC-A-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGATCGATGAGCC
* * * * * *
25542164 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCG-ATCGATGAGCC
* * * *
25542212 AGTGTAAGACCATGTCTGAGACATGGCATCGACACGGATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTC-GAT-CGAT--GAGCC
* ** *
25542262 AGTGTAAGACCATGGCTGGGACATGGTGTCAGCCTCGATTTCGAT-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA--TCGATGAGCC
* *
25542311 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGCC
* *
25542358 AGTGTAAGACCATCTCTGGGATATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
25542389 GTATTATACC
Statistics
Matches: 250, Mismatches: 47, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.05
45 16 0.06
46 38 0.15
47 65 0.26
48 49 0.20
49 33 0.13
50 30 0.12
51 4 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGCC
Found at i:25544547 original size:13 final size:14
Alignment explanation
Indices: 25544521--25544549 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25544511 AATTATTGAA
25544521 TTACTAATTTAACC
1 TTACTAATTTAACC
25544535 TTACTAA-TTAACC
1 TTACTAATTTAACC
25544548 TT
1 TT
25544550 TAAATCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
TTACTAATTTAACC
Found at i:25549233 original size:14 final size:16
Alignment explanation
Indices: 25549201--25549239 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
25549191 ATTTACATAA
*
25549201 CATATATCACCTATTT
1 CATATATCACCTATGT
25549217 CATATATCA-CT-TGT
1 CATATATCACCTATGT
25549231 CATATATCA
1 CATATATCA
25549240 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:25553684 original size:14 final size:16
Alignment explanation
Indices: 25553652--25553690 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
25553642 ATTTACATAA
*
25553652 CATATATCACCTATTT
1 CATATATCACCTATGT
25553668 CATATATCA-CT-TGT
1 CATATATCACCTATGT
25553682 CATATATCA
1 CATATATCA
25553691 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:25558027 original size:40 final size:40
Alignment explanation
Indices: 25557971--25558142 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
25557961 CATTTGAATG
* * *
25557971 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
25558011 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
25558051 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* ** *
25558091 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
25558131 ATATCC-GGCTAA
1 ATATCCGGGCTAA
25558143 ATTCCGAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 8 0.07
40 106 0.91
41 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:25562646 original size:48 final size:50
Alignment explanation
Indices: 25562529--25562793 Score: 170
Period size: 46 Copynumber: 5.5 Consensus size: 50
25562519 GAGGCCGACA
**
25562529 CCATGTCCCAAACATGGTCTTACACT-AGCTTTCATATATCCGTGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTGAGCCCTCATATA-CCGTGCCGATG
* *
25562579 CCATGTCCCAGACACGGTCTTACACTGA-CACCTC-TATA-CGTGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTGAGC-CCTCATATACCGTGCCGATG
* **
25562627 CCATGTCCCAAACATGGTCTTACACTG-G--CTCTTATAATGTGGCCGGA-G
1 CCATGTCCCAAACATGGTCTTACACTGAGCCCTCATATACCGT-GCC-GATG
* * * * *
25562675 -CATGTCTCAGACAT-GTCTTACACT-AG--CTTACAT-CTCGAGGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTGAGCCCTCATATAC-CG-TGCCGATG
* * * * ** * *
25562721 -CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCT-CAATACCGGTG
1 CCATGTCCCAAACATGGTCTTACACTGAGCCCTCATATACCGTGCCGATG
25562767 CCATGTCCCAAACATGGTCTTACACTG
1 CCATGTCCCAAACATGGTCTTACACTG
25562794 GCTCTTATAA
Statistics
Matches: 173, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
45 5 0.03
46 54 0.31
47 27 0.16
48 53 0.31
49 2 0.01
50 29 0.17
51 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAAACATGGTCTTACACTGAGCCCTCATATACCGTGCCGATG
Found at i:25562798 original size:48 final size:47
Alignment explanation
Indices: 25562529--25562798 Score: 184
Period size: 48 Copynumber: 5.7 Consensus size: 47
25562519 GAGGCCGACA
* * **
25562529 CCATGTCCCAAACATGGTCTTACACTAGCTTTCATATATCCGTGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGC--TC-TCTCTCAATGCCGATG
* * *
25562579 CCATGTCCCAGACACGGTCTTACACT-GACAC-CTCT-ATACGTGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAG-CTCTCTCTCA-A--TGCCGATG
* *
25562627 CCATGTCCCAAACATGGTCTTACACTGGCTCT-TAT-AATGTGGCCGGA-G
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCTCTCAA--T-GCC-GATG
* * * *
25562675 -CATGTCTCAGACAT-GTCTTACACTAGCT-TACATCTCGAGGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCT-C-TCTCAATGCCGATG
* * *
25562721 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATACCGGTG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTC-TCTCAATGCCGATG
*
25562767 CCATGTCCCAAACATGGTCTTACACTGGCTCT
1 CCATGTCCCAAACATGGTCTTACACTAGCTCT
25562799 TATAATGTGG
Statistics
Matches: 178, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
45 3 0.02
46 57 0.32
47 29 0.16
48 59 0.33
49 5 0.03
50 25 0.14
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCTCTCTCAATGCCGATG
Found at i:25562840 original size:46 final size:46
Alignment explanation
Indices: 25562628--25562840 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 46
25562618 GTGCCGATGC
*
25562628 CATGTCCCAAACATGGTCTTACACTGGCTCTTATAATGTGGCCGGAG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTTATAATGTGGCCGGAG
* * * * *
25562675 CATGTCTCAGACATGTCTTACACTAG--CTTACATCTCGAGGCC-GATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTTATA-AT-GTGGCCGGA-G
* * * *
25562721 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA--T-ACCGGTG
1 CATGTCCCAGACATGTCTTACACTGGCTCT--TAT-AATGTGGCCGGAG
*
25562767 CCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATGTGGCCGGAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTTATAATGTGGCCGGAG
*
25562815 CATGTCTCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
25562841 TGCACAAATG
Statistics
Matches: 132, Mismatches: 20, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
44 5 0.04
45 5 0.04
46 59 0.45
47 39 0.30
48 22 0.17
50 1 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGGCCGGAG
Found at i:25568602 original size:12 final size:12
Alignment explanation
Indices: 25568585--25568611 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25568575 GATATATAAA
25568585 TACTTAGTATTG
1 TACTTAGTATTG
25568597 TACTTAGTATTG
1 TACTTAGTATTG
25568609 TAC
1 TAC
25568612 AATAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (12 bp):
TACTTAGTATTG
Found at i:25573451 original size:23 final size:23
Alignment explanation
Indices: 25573333--25573486 Score: 82
Period size: 23 Copynumber: 6.4 Consensus size: 23
25573323 CAGCTCGTAT
25573333 GAGCTTACCGATATATCAGCTC-ATAA
1 GAGCTTACCG-T-T-TCAGCTCAAT-A
** * *
25573359 GAGCTTACTATTTTCAGCTCATTG
1 GAGCTTAC-CGTTTCAGCTCAATA
** * *
25573383 GAGCTTATTGTTTCAACTC-GTA
1 GAGCTTACCGTTTCAGCTCAATA
**
25573405 TGAGCTTA-C-TATTCAGCTTGATA
1 -GAGCTTACCGT-TTCAGCTCAATA
25573428 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
* *
25573451 GAGCTTACTGTTCATCAGCTCAAGA
1 GAGCTTACCGTT--TCAGCTCAATA
25573476 GGAGCTTACCG
1 -GAGCTTACCG
25573487 ATCATGGCTC
Statistics
Matches: 99, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 14 0.14
23 39 0.39
24 15 0.15
25 12 0.12
26 18 0.18
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAATA
Found at i:25573455 original size:68 final size:72
Alignment explanation
Indices: 25573326--25573462 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 72
25573316 CTCACCACAG
* * * *
25573326 CTCGTATGAGCTTACCGATATATCAGCTCATAAGAGCTTACTATTTTCAGCTCATTGGAGCTTAT
1 CTCGTATGAGCTTACC-ATATATCAGCTCATAAGAGCTTACTAGTTTCAGCTCAATAGAGCTTAC
25573391 TGTTTCAA
65 TGTTTCAA
* *
25573399 CTCGTATGAGCTTA-C-TAT-TCAGCTTGAT-AGAGCTTAC-CGTTTCAGCTCAATAGAGCTTAC
1 CTCGTATGAGCTTACCATATATCAGC-TCATAAGAGCTTACTAGTTTCAGCTCAATAGAGCTTAC
25573459 TGTT
65 TGTT
25573463 CATCAGCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
68 22 0.39
69 14 0.25
70 6 0.11
72 1 0.02
73 14 0.25
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (72 bp):
CTCGTATGAGCTTACCATATATCAGCTCATAAGAGCTTACTAGTTTCAGCTCAATAGAGCTTACT
GTTTCAA
Found at i:25573491 original size:26 final size:24
Alignment explanation
Indices: 25573427--25573491 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
25573417 TCAGCTTGAT
* *
25573427 AGAGCTTACCGT-TTCAGCTCAAT
1 AGAGCTTACCGTCATCAGCTCAAG
*
25573450 AGAGCTTACTGTTCATCAGCTCAAG
1 AGAGCTTACCG-TCATCAGCTCAAG
25573475 AGGAGCTTACCGATCAT
1 A-GAGCTTACCG-TCAT
25573492 GGCTCNNNNN
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 10 0.29
24 1 0.03
25 10 0.29
26 13 0.38
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (24 bp):
AGAGCTTACCGTCATCAGCTCAAG
Found at i:25573705 original size:20 final size:19
Alignment explanation
Indices: 25573634--25573709 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
25573624 AGATATGTGT
25573634 TTATATGGATGAATTACTG
1 TTATATGGATGAATTACTG
*
25573653 TTGATACGGATGAATTACTG
1 TT-ATATGGATGAATTACTG
*
25573673 TTATTACT-GATGAACTACTGG
1 TTA-TA-TGGATGAATTACT-G
*
25573694 TTATATGAATGAATTA
1 TTATATGGATGAATTA
25573710 TAGTTTATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.09
20 39 0.83
21 4 0.09
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (19 bp):
TTATATGGATGAATTACTG
Found at i:25585833 original size:22 final size:23
Alignment explanation
Indices: 25585787--25585848 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
25585777 ACTACCATAC
*
25585787 TTTTTT-ATG-AAATTCTAATTA
1 TTTTTTAATGTAAATTATAATTA
25585808 TTTTTTAATGTAAATTATAATT-
1 TTTTTTAATGTAAATTATAATTA
*
25585830 TTTTTAAATGTATAATTAT
1 TTTTTTAATGTA-AATTAT
25585849 CACTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.17
22 14 0.39
23 16 0.44
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTTTTAATGTAAATTATAATTA
Found at i:25585855 original size:23 final size:21
Alignment explanation
Indices: 25585808--25585855 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
25585798 ATTCTAATTA
*
25585808 TTTTTTAATGTAAATTATAAT
1 TTTTTTAATGTAAATTATAAC
*
25585829 TTTTTTAAATGTATAATTATCAC
1 TTTTTT-AATGTA-AATTATAAC
25585852 TTTT
1 TTTT
25585856 ATTTTACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTTAATGTAAATTATAAC
Found at i:25587694 original size:6 final size:6
Alignment explanation
Indices: 25587683--25587709 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25587673 TACATTCTCA
25587683 TGCTCC TGCTCC TGCTCC TGCTCC TGC
1 TGCTCC TGCTCC TGCTCC TGCTCC TGC
25587710 AACACCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.19, T:0.33
Consensus pattern (6 bp):
TGCTCC
Found at i:25588201 original size:7 final size:7
Alignment explanation
Indices: 25588191--25588217 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25588181 CCCAAAACCC
25588191 AAAATCT
1 AAAATCT
25588198 AAAATCT
1 AAAATCT
25588205 AAAATCT
1 AAAATCT
25588212 AAAATC
1 AAAATC
25588218 AAATCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATCT
Found at i:25588676 original size:15 final size:17
Alignment explanation
Indices: 25588644--25588685 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
25588634 AAGATGAAAT
*
25588644 AAAATATTTTATATTAA
1 AAAATATATTATATTAA
25588661 AAAATATATTA-A-TAA
1 AAAATATATTATATTAA
25588676 AAAAT-TATTA
1 AAAATATATTA
25588686 GTAGAGTCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 1 0.04
17 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATATTATATTAA
Found at i:25590421 original size:26 final size:26
Alignment explanation
Indices: 25590384--25590598 Score: 376
Period size: 26 Copynumber: 8.3 Consensus size: 26
25590374 TGATACAAAT
* *
25590384 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590410 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590436 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590462 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590488 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590514 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
25590540 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
25590566 TGACAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25590592 TGATAAT
1 TGATAAT
25590599 ACAAAAAATT
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 182 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:25593578 original size:21 final size:21
Alignment explanation
Indices: 25593554--25593619 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
25593544 AGTGAATTTA
25593554 GAAAAAAAATACTTAGTTGTG
1 GAAAAAAAATACTTAGTTGTG
*** * * * * *
25593575 GAAAGCTATTAGTGAATT-TA
1 GAAAAAAAATACTTAGTTGTG
25593595 GAAAAAAAATACTTAGTTGTG
1 GAAAAAAAATACTTAGTTGTG
25593616 GAAA
1 GAAA
25593620 GCTATTAGTG
Statistics
Matches: 28, Mismatches: 16, Indels: 2
0.61 0.35 0.04
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.29
Consensus pattern (21 bp):
GAAAAAAAATACTTAGTTGTG
Found at i:25593598 original size:41 final size:41
Alignment explanation
Indices: 25593541--25593639 Score: 198
Period size: 41 Copynumber: 2.4 Consensus size: 41
25593531 AGGTTATGAA
25593541 ATTAGTGAATTTAGAAAAAAAATACTTAGTTGTGGAAAGCT
1 ATTAGTGAATTTAGAAAAAAAATACTTAGTTGTGGAAAGCT
25593582 ATTAGTGAATTTAGAAAAAAAATACTTAGTTGTGGAAAGCT
1 ATTAGTGAATTTAGAAAAAAAATACTTAGTTGTGGAAAGCT
25593623 ATTAGTGAATTTAGAAA
1 ATTAGTGAATTTAGAAA
25593640 TTAGTGAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.32
Consensus pattern (41 bp):
ATTAGTGAATTTAGAAAAAAAATACTTAGTTGTGGAAAGCT
Found at i:25593644 original size:16 final size:16
Alignment explanation
Indices: 25593623--25593655 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25593613 GTGGAAAGCT
25593623 ATTAGTGAATTTAGAA
1 ATTAGTGAATTTAGAA
25593639 ATTAGTGAATTTAGAA
1 ATTAGTGAATTTAGAA
25593655 A
1 A
25593656 AAAAAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (16 bp):
ATTAGTGAATTTAGAA
Found at i:25594460 original size:17 final size:17
Alignment explanation
Indices: 25594438--25594470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25594428 AAATTTTACA
*
25594438 AATTTTTTATTATTTTT
1 AATTTTTTATAATTTTT
25594455 AATTTTTTATAATTTT
1 AATTTTTTATAATTTT
25594471 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
AATTTTTTATAATTTTT
Found at i:25594507 original size:28 final size:28
Alignment explanation
Indices: 25594431--25594508 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
25594421 TTTTATAAAA
* * * *
25594431 TTTTACAAATTTTTTATTATTTTTAATT
1 TTTTATAATTTTTTTATAATTTGTAATT
* *
25594459 TTTTATAATTTTATTAAAATTTGTAA-T
1 TTTTATAATTTTTTTATAATTTGTAATT
*
25594486 TTTTATTGATTTTTTTATAATTT
1 TTTTA-TAATTTTTTTATAATTT
25594509 CTTTGTCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 6 0.15
28 34 0.85
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTATAATTTTTTTATAATTTGTAATT
Found at i:25605451 original size:29 final size:30
Alignment explanation
Indices: 25605395--25605453 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
25605385 ATCTCAAAAT
* *
25605395 TATACATGAATTTTAGTTTAATGTGCAATTG
1 TATACATGAACTTTAATTTAA-GTGCAATTG
*
25605426 TATACATGAACTTTAATTTGA-TGCAATT
1 TATACATGAACTTTAATTTAAGTGCAATT
25605454 ATACACATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAAGTGCAATTG
Found at i:25606509 original size:5 final size:5
Alignment explanation
Indices: 25606499--25606523 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25606489 AATCTTATTC
25606499 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
25606524 GAAGTGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25606683 original size:29 final size:29
Alignment explanation
Indices: 25606625--25606683 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25606615 TCCACCTTGA
* * *
25606625 CACGAATTCTCAATGAATAAGTTATTCAC
1 CACGAACTCTCAATGAACAAGTTATCCAC
* *
25606654 CACGAACTCTTAATGAACAAGTTCTCCAC
1 CACGAACTCTCAATGAACAAGTTATCCAC
25606683 C
1 C
25606684 TCTTCCATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (29 bp):
CACGAACTCTCAATGAACAAGTTATCCAC
Found at i:25623257 original size:47 final size:47
Alignment explanation
Indices: 25623189--25623952 Score: 1133
Period size: 47 Copynumber: 16.2 Consensus size: 47
25623179 NNNNNNNNNT
* * * *
25623189 TTCATCACATTGGCCATTCGGCCTAATCACACATACACATGTTCACT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623236 TTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623283 TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623330 TTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623377 TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623424 TTCATCACATTGGCCATTCGACCTTATCACGCATATATATACT-TTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCA--CATATATACA-TGTTCACA
* ** *
25623473 TTCATCACATTGGCCACTCGGCCTTATCACACGTACACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623520 TTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623567 TTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623614 TTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
* *
25623661 TTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
25623708 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACA
25623755 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACA
25623802 TTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACA
* *
25623849 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACA
* * * *
25623896 TTCATCACATCGGCCATTAGGCCTTATCTCATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
*
25623943 TCCATCACAT
1 TTCATCACAT
25623953 AGAATCCTAA
Statistics
Matches: 676, Mismatches: 35, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.00
47 632 0.93
48 1 0.00
49 40 0.06
50 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
Found at i:25623739 original size:22 final size:22
Alignment explanation
Indices: 25623711--25623833 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
25623701 GTTCACATTC
25623711 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
25623733 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
25623757 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
25623780 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
25623804 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25623827 ATCACAT
1 ATCACAT
25623834 ATATACACTT
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 29 0.41
23 10 0.14
24 10 0.14
25 22 0.31
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25640908 original size:17 final size:18
Alignment explanation
Indices: 25640881--25640914 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25640871 AATTAAATAT
25640881 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
25640899 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
25640915 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:25641011 original size:17 final size:17
Alignment explanation
Indices: 25640969--25641014 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
25640959 AAAATTGATA
25640969 ATAATTAATATATAAATT
1 ATAATTAA-ATATAAATT
25640987 ATAA-TAAATAT-AATT
1 ATAATTAAATATAAATT
25641002 ATATATTAAATAT
1 ATA-ATTAAATAT
25641015 TATCATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 10 0.38
18 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATTAAATATAAATT
Found at i:25649511 original size:27 final size:27
Alignment explanation
Indices: 25649480--25649657 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25649470 TAAATTGTAC
25649480 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25649507 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25649533 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25649561 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25649589 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25649616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25649643 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25649658 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:25649594 original size:82 final size:81
Alignment explanation
Indices: 25649481--25649636 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25649471 AAATTGTACA
* *
25649481 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25649545 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25649562 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25649627 TGCGAGTTGA
65 TGCGAATTGA
25649637 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:25649648 original size:82 final size:81
Alignment explanation
Indices: 25649477--25649657 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25649467 GATTAAATTG
* *
25649477 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25649542 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25649558 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25649622 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25649640 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25649658 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:25667713 original size:47 final size:47
Alignment explanation
Indices: 25667644--25667911 Score: 455
Period size: 47 Copynumber: 5.7 Consensus size: 47
25667634 ATGATAGTAT
*
25667644 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGCTAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
25667691 GGCCTAATGGCCGATGTGATGAATGTGCAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * *
25667738 TGCCTAATGGCCGCTGTGATGAATGCGAAAGTGTATATATGTGATCA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
25667785 GGCCTAATGGCCGCTGTGATGAATGTGAAAGTGTATATATGCGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
25667832 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
25667879 GGCCTAATGGCCGATGTGATGAATGCGAAAGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
25667912 CCGATGTGAT
Statistics
Matches: 207, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 207 1.00
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:25667806 original size:94 final size:94
Alignment explanation
Indices: 25667644--25668218 Score: 675
Period size: 94 Copynumber: 5.8 Consensus size: 94
25667634 ATGATAGTAT
*
25667644 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGCTAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25667709 ATGAATGTGCAAGTGTATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATGCGATAA
* * * * *
25667738 TGCCTAATGGCCGCTGTGATGAATGCGAAAGTGTATATATGTGATCAGGCCTAATGGCCGCTGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25667803 ATGAATGTGAAAGTGTATATATGCGATAA
66 ATGAATGTGAAAGTGTATATATGCGATAA
25667832 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25667897 ATGAATGCGAAAGTGCCGATGTGATGAATGCGA-AA
66 ATGAATGTGAAAGT---G-TAT-AT--ATGCGATAA
** *** * * *
25667932 GTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGATCAG
1 G-GCCTA-ATG-GCCGATG--TGAT-G--AATGTG---------AAAGTGTATATATGTGATAAG
*
25667997 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
49 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAA
* * * *
25668043 GGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATCAGGCCTAATGGCCGCTGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25668108 ATGAATGTGAAAGTGTATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATGCGATAA
*
25668137 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
25668202 TGATGAATGTGATAAGT
64 TGATGAATGTGA-AAGT
25668219 CCCGAAGGGC
Statistics
Matches: 412, Mismatches: 41, Indels: 53
0.81 0.08 0.10
Matches are distributed among these distances:
94 255 0.62
96 39 0.09
97 5 0.01
98 2 0.00
99 2 0.00
100 3 0.01
101 9 0.02
102 3 0.01
103 8 0.02
105 4 0.01
106 4 0.01
108 9 0.02
109 3 0.01
110 8 0.02
111 3 0.01
112 2 0.00
113 2 0.00
114 1 0.00
117 50 0.12
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (94 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGCGATAA
Found at i:25667917 original size:23 final size:23
Alignment explanation
Indices: 25667888--25667981 Score: 102
Period size: 23 Copynumber: 4.0 Consensus size: 23
25667878 AGGCCTAATG
25667888 GCCGATGTGATGAATGCGAAAGT
1 GCCGATGTGATGAATGCGAAAGT
25667911 GCCGATGTGATGAATGCGAAAGT
1 GCCGATGTGATGAATGCGAAAGT
*** **
25667934 GTATATATGTGAT-AATGCCTAA-T
1 G--CCGATGTGATGAATGCGAAAGT
25667957 GGCCGATGTGATGAATGCGAAAGT
1 -GCCGATGTGATGAATGCGAAAGT
25667981 G
1 G
25667982 TATATATGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
22 7 0.12
23 33 0.59
24 9 0.16
25 7 0.12
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.26
Consensus pattern (23 bp):
GCCGATGTGATGAATGCGAAAGT
Found at i:25667939 original size:117 final size:117
Alignment explanation
Indices: 25667794--25668028 Score: 407
Period size: 117 Copynumber: 2.0 Consensus size: 117
25667784 AGGCCTAATG
* * *
25667794 GCCGCTGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGCG
25667859 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
* *
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGCG
* *
25667976 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
25668028 G
1 G
25668029 TATATATGTG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (117 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGCG
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
Found at i:25667942 original size:70 final size:70
Alignment explanation
Indices: 25667841--25667981 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
25667831 AGGCCTAATG
*
25667841 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
25667906 AAAGT
66 AAAGT
*
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
25667976 AAAGT
66 AAAGT
25667981 G
1 G
25667982 TATATATGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (70 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
AAAGT
Found at i:25667951 original size:47 final size:47
Alignment explanation
Indices: 25667911--25668210 Score: 501
Period size: 47 Copynumber: 6.3 Consensus size: 47
25667901 ATGCGAAAGT
*
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
*
25667958 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATCAGGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
*
25668005 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
* *
25668052 GCCGATGTGATGAATGCGAAACTGTATATATGTGATCAGGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
* *
25668099 GCCGCTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
* *
25668146 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATG
1 GCCGATGTGATGAATGCGAAAGTG--TATATATGTGATAAGGCCTAATG
25668195 GCCGATGTGATGAATG
1 GCCGATGTGATGAATG
25668211 TGATAAGTCC
Statistics
Matches: 238, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 200 0.84
49 38 0.16
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (47 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:25668023 original size:164 final size:164
Alignment explanation
Indices: 25667747--25668072 Score: 589
Period size: 164 Copynumber: 2.0 Consensus size: 164
25667737 ATGCCTAATG
* * * *
25667747 GCCGCTGTGATGAATGCGAAAGTGTATATATGTGATCAGGCCTAATGGCCGCTGTGATGAATGTG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
25667812 AAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
25667877 AAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
*
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
* *
25667976 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
25668041 AAGGCCTAATGGCCGATGTGATGAATGCGAAA
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAA
25668073 CTGTATATAT
Statistics
Matches: 155, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.28
Consensus pattern (164 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
AAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
Found at i:25668064 original size:211 final size:211
Alignment explanation
Indices: 25667700--25668122 Score: 756
Period size: 211 Copynumber: 2.0 Consensus size: 211
25667690 AGGCCTAATG
* * *
25667700 GCCGATGTGATGAATGTGCAAGTGTATATATGTGATAATGCCTAATGGCCGCTGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
*
25667765 AAAGTGTATATATGTGATCAGGCCTAATGGCCGCTGTGATGAATGTGAAAGTGTATATATGCGAT
66 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGAT
* *
25667830 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATAAGGCCTAATGGCCGATG
25667895 TGATGAATGCGAAAGT
196 TGATGAATGCGAAAGT
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
*
25667976 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGAT
* *
25668041 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATCAGGCCTAATGGCCGCTG
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATAAGGCCTAATGGCCGATG
*
25668106 TGATGAATGTGAAAGT
196 TGATGAATGCGAAAGT
25668122 G
1 G
25668123 TATATATGTG
Statistics
Matches: 202, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
211 202 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (211 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGAT
AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGCGAAAGT
Found at i:25668110 original size:258 final size:258
Alignment explanation
Indices: 25667653--25668169 Score: 881
Period size: 258 Copynumber: 2.0 Consensus size: 258
25667643 TGGCCTAATG
* * *
25667653 GCCGATGTGATGAATGTGAAAGTGTATATATGTGCTAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
* * *
25667718 CAAGTGTATATATGTGATAATGCCTAATGGCCGCTGTGATGAATGCGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGAT
* * * *
25667783 CAGGCCTAATGGCCGCTGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATG
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGCGATAAGGCCTAATGGCCGATG
25667848 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
196 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
*
25667911 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGCG
1 GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
* *
25667976 AAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGAT
* * *
25668041 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGTGATCAGGCCTAATGGCCGCTG
131 AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGCGATAAGGCCTAATGGCCGATG
*
25668106 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
196 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
25668169 G
1 G
25668170 TATATATATG
Statistics
Matches: 242, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
258 242 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (258 bp):
GCCGATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCG
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGCGAAACTGTATATATGCGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGT
Found at i:25668392 original size:37 final size:37
Alignment explanation
Indices: 25668336--25668414 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
25668326 CCGAGCTCTA
* * * *
25668336 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
*
25668373 AAGACCCGATAACTTCGTGTGGAGATTATGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
25668410 AAGAC
1 AAGAC
25668415 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:25672090 original size:27 final size:28
Alignment explanation
Indices: 25672006--25672103 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
25671996 CATGAGATTG
* * * *
25672006 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
25672035 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
25672063 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25672090 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
25672104 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25672114 original size:27 final size:27
Alignment explanation
Indices: 25672034--25672116 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
25672024 TAAATTGTAC
* *
25672034 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
25672062 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
25672089 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
25672116 A
1 A
25672117 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:25672117 original size:29 final size:27
Alignment explanation
Indices: 25672006--25672117 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
25671996 CATGAGATTG
** * *
25672006 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
25672035 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
25672063 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
25672090 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
25672118 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:25703995 original size:46 final size:46
Alignment explanation
Indices: 25703929--25704198 Score: 300
Period size: 46 Copynumber: 5.8 Consensus size: 46
25703919 TATTTGGGCA
25703929 TCCGAACTTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAAC-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
25703976 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
25704023 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
25704069 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
25704116 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
25704162 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25704199 GCGGGTTACA
Statistics
Matches: 188, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
43 8 0.04
45 4 0.02
46 93 0.49
47 71 0.38
48 4 0.02
50 8 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:25704096 original size:93 final size:93
Alignment explanation
Indices: 25703925--25704190 Score: 487
Period size: 93 Copynumber: 2.8 Consensus size: 93
25703915 AGGATATTTG
*
25703925 GGCATCCGAACTTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGA
1 GGCATCCGAGC-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGA
25703990 GTTGAGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCGAGTTCGTGAGATGTAACTA
25704019 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
25704084 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
25704112 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
25704177 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25704191 ACTTATGGGC
Statistics
Matches: 168, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 158 0.94
94 10 0.06
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:25712505 original size:30 final size:29
Alignment explanation
Indices: 25712435--25712491 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
25712425 TTTTTTTATT
*
25712435 ATCATTTCACAATATTTACATGAAATTTC
1 ATCATTTCACAATACTTACATGAAATTTC
*
25712464 ATCATTTCACAATACTTCCATGAAATTT
1 ATCATTTCACAATACTTACATGAAATTT
25712492 TACTATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (29 bp):
ATCATTTCACAATACTTACATGAAATTTC
Found at i:25715928 original size:57 final size:58
Alignment explanation
Indices: 25715851--25715965 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 58
25715841 ATTTTTTAAG
* * * *
25715851 TCATTTTCATTTTGGAGAAAACCACATTCATTTCCGAATGATTT-C-ATTTCTCCATTT
1 TCATGTTCATTTTGGAGAAAACCACAATCATTTCCAAAT-ATTTCCTATTTATCCATTT
* * * *
25715908 TCATGTTCTTTTTTGAGAAAATCATAATCATTTCCAAATATTTCCTATTTATCCATTT
1 TCATGTTCATTTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTATCCATTT
25715966 CACCATTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 4 0.08
57 33 0.69
58 11 0.23
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (58 bp):
TCATGTTCATTTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTATCCATTT
Found at i:25718987 original size:71 final size:71
Alignment explanation
Indices: 25718904--25719045 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
25718894 AGGAGTCTAA
25718904 GCATATAAATCTTATCTTATAATAATTTTTGTACAATTTATAATGATTTTCTAAATACAGAACAG
1 GCATATAAATCTTATCTTATAATAATTTTTGTACAATTTATAATGATTTTCTAAATACAGAACAG
25718969 AGGATT
66 AGGATT
*
25718975 GCATATAAATCTTATCTTATAATAATTTTTGTACAATTTATAATGATTTTCTAAATACAGAATAG
1 GCATATAAATCTTATCTTATAATAATTTTTGTACAATTTATAATGATTTTCTAAATACAGAACAG
25719040 AGGATT
66 AGGATT
25719046 TCAGAGTCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (71 bp):
GCATATAAATCTTATCTTATAATAATTTTTGTACAATTTATAATGATTTTCTAAATACAGAACAG
AGGATT
Found at i:25719353 original size:174 final size:173
Alignment explanation
Indices: 25719063--25719409 Score: 658
Period size: 174 Copynumber: 2.0 Consensus size: 173
25719053 CATTCTGACA
25719063 CTGTCTCACACAACTTTAAATATCTCATTATCGGCAATTCCTTTGCTTACACGGTTTCTTTTATA
1 CTGTCTCACACAACTTTAAATATCTCATTATCGGCAATTCCTTTGCTTACACGGTTTCTTTTATA
* *
25719128 AGAAACTAGACTCGTTAAGCTTTAATTTAATATTTTATTCAGCCTCTAATTCAACTCCATCAATT
66 AGAAACTAGACGCGTTAAGCTTTAATCTAATATTTTATTCAGCCTCTAATTCAACTCCATCAATT
25719193 TATGGTGTTTTTTTTTGAAAACACGTTACTGCTGCTGTCCCAAG
131 TATGGTG-TTTTTTTTGAAAACACGTTACTGCTGCTGTCCCAAG
*
25719237 CTGTCTCACACAACTTTAAATATCTCATTATCGGCAATTCCTTTGCTTACATGGTTTCTTTTATA
1 CTGTCTCACACAACTTTAAATATCTCATTATCGGCAATTCCTTTGCTTACACGGTTTCTTTTATA
25719302 AGAAACTAGACGCGTTAAGCTTTAATCTAATATTTTATTCAGCCTCTAATTCAACTCCATCAATT
66 AGAAACTAGACGCGTTAAGCTTTAATCTAATATTTTATTCAGCCTCTAATTCAACTCCATCAATT
25719367 TATGGTGTTTTTTTTGAAAACACGTTACTGCTGCTGTCCCAAG
131 TATGGTGTTTTTTTTGAAAACACGTTACTGCTGCTGTCCCAAG
25719410 TAGATTTATA
Statistics
Matches: 170, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
173 36 0.21
174 134 0.79
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (173 bp):
CTGTCTCACACAACTTTAAATATCTCATTATCGGCAATTCCTTTGCTTACACGGTTTCTTTTATA
AGAAACTAGACGCGTTAAGCTTTAATCTAATATTTTATTCAGCCTCTAATTCAACTCCATCAATT
TATGGTGTTTTTTTTGAAAACACGTTACTGCTGCTGTCCCAAG
Found at i:25722750 original size:25 final size:25
Alignment explanation
Indices: 25722722--25722776 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25722712 GGTTAAAGGA
25722722 ATTCGCACACACAGTGC-CTCTAATC
1 ATTCGCACACACAGTGCTCT-TAATC
* * *
25722747 ATTCACACACATAGTGCTCTTATTC
1 ATTCGCACACACAGTGCTCTTAATC
25722772 ATTCG
1 ATTCG
25722777 TTATTACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCTCTTAATC
Found at i:25722987 original size:40 final size:40
Alignment explanation
Indices: 25722940--25723135 Score: 302
Period size: 40 Copynumber: 4.9 Consensus size: 40
25722930 GAATAGACAT
*
25722940 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * *
25722980 CATCGGCACGAATACCCTTCGAGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
25723020 CACCAGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* * * *
25723060 CACCAGCATGAATGCCCTTCGGGATTTAGCCTGTATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
25723100 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGAT
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGAT
25723136 CATCGTCGAG
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
Found at i:25725269 original size:47 final size:47
Alignment explanation
Indices: 25725200--25725304 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
25725190 CCCTTTGGGA
* * *
25725200 CTTATCACATTTATACACTTTCACGTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
25725247 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
25725294 CTTATCACATA
1 CTTATCACATA
25725305 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:25729108 original size:29 final size:30
Alignment explanation
Indices: 25729037--25729148 Score: 117
Period size: 29 Copynumber: 3.9 Consensus size: 30
25729027 ACCCCTACAT
* *
25729037 ACATGCATATGGCCCA-CTATGCCCAAT-C
1 ACATTCATATGGCCCATCTAGGCCCAATAC
* * *
25729065 AAATTCATATAGCCCATCT-GGCCCAGTAC
1 ACATTCATATGGCCCATCTAGGCCCAATAC
* * *
25729094 ATATTCTTATGGCCCA-CTAGGCCCAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATAC
25729123 ACATTCATATGGCCCAT-TAGGCCCAA
1 ACATTCATATGGCCCATCTAGGCCCAA
25729149 ATCATATTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
28 21 0.31
29 47 0.69
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATAC
Found at i:25729155 original size:58 final size:57
Alignment explanation
Indices: 25729044--25729156 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 57
25729034 CATACATGCA
* *
25729044 TATGGCCCACTATGCCCAATCAAATTCATATAGCCCATCTGGCCCAGTACATATTCT
1 TATGGCCCACTAGGCCCAATCAAATTCATATAGCCCATCTGGCCCAATACATATTCT
* *
25729101 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAA-ATCATATT
1 TATGGCCCACTAGGCCCAA-TCAAATTCATATAGCCCATCT-GGCCCAATA-CATATT
25729157 ATACTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 20 0.41
58 29 0.59
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.27
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCAAATTCATATAGCCCATCTGGCCCAATACATATTCT
Found at i:25730656 original size:16 final size:16
Alignment explanation
Indices: 25730635--25730665 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25730625 AAGTTCGGGA
25730635 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
25730651 TTTCGAGATTTTTGG
1 TTTCGAGATTTTTGG
25730666 AGCATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.06, G:0.29, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:25733538 original size:27 final size:27
Alignment explanation
Indices: 25733500--25733604 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
25733490 NNNNNNNNNN
25733500 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTGTAAAATTACCAAAATACCCCTAG
* *
25733527 TTTGTAAAATTACCAAAATACCACTGG
1 TTTGTAAAATTACCAAAATACCCCTAG
* * *
25733554 TTTGTGAAATTACCGAAATA-CCCTCAA
1 TTTGTAAAATTACCAAAATACCCCT-AG
*
25733581 TTTCTAAAATTACCAAAATACCCC
1 TTTGTAAAATTACCAAAATACCCC
25733605 ATATTTACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
26 3 0.05
27 60 0.91
28 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCCTAG
Found at i:25733626 original size:27 final size:27
Alignment explanation
Indices: 25733560--25733658 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
25733550 CTGGTTTGTG
*
25733560 AAATTACCGAAATACCCTCAATTTCTA
1 AAATTACAGAAATACCCTCAATTTCTA
25733587 AAATTACCA-AAATACCC-CATATTTAC-A
1 AAATTA-CAGAAATACCCTCA-ATTT-CTA
* * *
25733614 AAGTTACAGAAATACCCTTGACTTTCTAA
1 AAATTACAGAAATACCC-TCAATTTCT-A
**
25733643 AAATTATGGAAATACC
1 AAATTACAGAAATACC
25733659 ATTGGTTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.07
27 33 0.58
28 5 0.09
29 15 0.26
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.28
Consensus pattern (27 bp):
AAATTACAGAAATACCCTCAATTTCTA
Found at i:25733811 original size:27 final size:27
Alignment explanation
Indices: 25733734--25733811 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
25733724 AAATGACTAA
* *
25733734 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
25733761 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
25733788 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
25733812 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:25737774 original size:52 final size:51
Alignment explanation
Indices: 25737692--25737820 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 51
25737682 GAGGAAGTGC
* *
25737692 AAAAGGGCTTATGCCCTACTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCG
*
25737744 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTACCG
25737795 AAAAGGGCTT-TGCCCCAG-TTATTAAA
1 AAAAGGGCTTATGCCCCAGTTTATTAAA
25737821 GAGGCTAGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
49 7 0.10
50 8 0.11
51 25 0.34
52 33 0.45
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:25737789 original size:25 final size:26
Alignment explanation
Indices: 25737692--25737814 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
25737682 GAGGAAGTGC
* * ***
25737692 AAAAGGGCTTATGCCCTACTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCG
25737718 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
25737744 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25737770 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25737795 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25737815 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 33 0.38
26 55 0.62
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25738118 original size:31 final size:31
Alignment explanation
Indices: 25738078--25738150 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
25738068 TACAGTAAAG
*
25738078 GCTTTGGCCCAATGATATGATTTATGAAAAA
1 GCTTCGGCCCAATGATATGATTTATGAAAAA
*
25738109 GCTTCGGCCCAATGATATGATTTATGAAAAG
1 GCTTCGGCCCAATGATATGATTTATGAAAAA
25738140 GCTTCGGCCCA
1 GCTTCGGCCCA
25738151 GTAACCATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (31 bp):
GCTTCGGCCCAATGATATGATTTATGAAAAA
Found at i:25749300 original size:12 final size:11
Alignment explanation
Indices: 25749261--25749360 Score: 64
Period size: 10 Copynumber: 9.2 Consensus size: 11
25749251 TAAGTTAGTT
*
25749261 ATATGAATTTG
1 ATATGAAATTG
* *
25749272 GTATG-ATTTG
1 ATATGAAATTG
25749282 ATATGAAATTG
1 ATATGAAATTG
25749293 AGTATGAAATTG
1 A-TATGAAATTG
* *
25749305 AT-TGGTAGTT-
1 ATAT-GAAATTG
* *
25749315 ATATCAATTTG
1 ATATGAAATTG
* *
25749326 GTATG-ATTTG
1 ATATGAAATTG
25749336 ATATGAAATTG
1 ATATGAAATTG
25749347 AGTATGAAATTG
1 A-TATGAAATTG
25749359 AT
1 AT
25749361 TGGTGATATT
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
10 24 0.34
11 24 0.34
12 22 0.31
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (11 bp):
ATATGAAATTG
Found at i:25749324 original size:54 final size:54
Alignment explanation
Indices: 25749256--25749364 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
25749246 TTTGGTAAGT
*
25749256 TAGTTATATGAATTTGGTATGATTTGATATGAAATTGAGTATGAAATTGATTGG
1 TAGTTATATCAATTTGGTATGATTTGATATGAAATTGAGTATGAAATTGATTGG
25749310 TAGTTATATCAATTTGGTATGATTTGATATGAAATTGAGTATGAAATTGATTGG
1 TAGTTATATCAATTTGGTATGATTTGATATGAAATTGAGTATGAAATTGATTGG
25749364 T
1 T
25749365 GATATTGTGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (54 bp):
TAGTTATATCAATTTGGTATGATTTGATATGAAATTGAGTATGAAATTGATTGG
Found at i:25753153 original size:68 final size:67
Alignment explanation
Indices: 25753081--25753230 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
25753071 CATCATGTGT
* * * *
25753081 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
25753143 ATGTAG
62 ATGTAG
** * *
25753149 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
25753214 AG
66 AG
25753216 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
25753231 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:25753186 original size:64 final size:64
Alignment explanation
Indices: 25753105--25753288 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
25753095 AGACATTATG
* *
25753105 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
25753169 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
25753234 AA
63 AA
* * * *
25753236 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
25753289 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:25759230 original size:42 final size:41
Alignment explanation
Indices: 25759128--25759247 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 41
25759118 GTCTGAGACA
* *
25759128 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACAC-GGCATCGATTGAGATT
* * *
25759170 TATGTATAAGACAATGTCTGGGACATCGGCATCGTATCT-A-ATT
1 T-CGTGTAAGACCATGTCTGGGACA-CGGCATCG-AT-TGAGATT
* *
25759213 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACA-CGGCATCGAT
25759248 ATTAAATTAC
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.03
42 27 0.43
43 29 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACGGCATCGATTGAGATT
Found at i:25759278 original size:85 final size:85
Alignment explanation
Indices: 25759128--25759286 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
25759118 GTCTGAGACA
* * * * * *
25759128 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTATGTATAAGACAATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAAATTCATGTATAAGACAACGTCCGGGA
25759193 CATCGGCATCGTATCTAATT
66 CATCGGCATCGTATCTAATT
* * *
25759213 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTAAATTACATGTA-AA-ACCACGTCCGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGAT-TGAAATT-CATGTATAAGACAACGTCCGG
*
25759276 GACGTCGGCAT
64 GACATCGGCAT
25759287 TGTACTTGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 50 0.81
86 7 0.11
87 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAAATTCATGTATAAGACAACGTCCGGGA
CATCGGCATCGTATCTAATT
Found at i:25762743 original size:40 final size:40
Alignment explanation
Indices: 25762688--25762905 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
25762678 TGGATGATAA
* * *
25762688 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
25762728 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25762768 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25762808 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
25762848 CCGGGCTATGTCTCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
25762888 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25762906 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25770768 original size:79 final size:81
Alignment explanation
Indices: 25770632--25770816 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
25770622 TTGAATGATG
*
25770632 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25770696 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25770711 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25770773 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
25770791 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25770817 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:25770830 original size:40 final size:40
Alignment explanation
Indices: 25770633--25770816 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
25770623 TGAATGATGT
* * * *
25770633 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25770673 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
25770713 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25770751 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25770792 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25770817 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25770838 original size:79 final size:79
Alignment explanation
Indices: 25770685--25770849 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
25770675 GGACTAAGAT
* **
25770685 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
25770750 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25770764 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
25770827 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25770843 CCGAAGG
1 CCGAAGG
25770850 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25782967 original size:321 final size:321
Alignment explanation
Indices: 25782385--25783026 Score: 1284
Period size: 321 Copynumber: 2.0 Consensus size: 321
25782375 GGACTAAAGT
25782385 GTTAAAATGTGAAAATGTGAGGGCTAATTTCTAAAATGCCCTAAATATGTGTATAATGATTGAAT
1 GTTAAAATGTGAAAATGTGAGGGCTAATTTCTAAAATGCCCTAAATATGTGTATAATGATTGAAT
25782450 TGAATGATTTTTTTGAATAAAAGAGTTAAATTTGAATTTATATAGATCAAGAACCAAAGAAAACA
66 TGAATGATTTTTTTGAATAAAAGAGTTAAATTTGAATTTATATAGATCAAGAACCAAAGAAAACA
25782515 GAATTAGATCGGGGAAAGGCAAAAGTCATTGAGTAGTCGATTCCGTCCATTCGAATTTGTACGAG
131 GAATTAGATCGGGGAAAGGCAAAAGTCATTGAGTAGTCGATTCCGTCCATTCGAATTTGTACGAG
25782580 GTAAGTCTATATAAAAATAAATGTCTTTAAATTGAATTATTATTGTTTATATGTTAATGATTTGT
196 GTAAGTCTATATAAAAATAAATGTCTTTAAATTGAATTATTATTGTTTATATGTTAATGATTTGT
25782645 GATGAAATGGCTAATTGAGCTAAATATGAAAATCTAAGAAAGTTCTGATAAAGTGATGACA
261 GATGAAATGGCTAATTGAGCTAAATATGAAAATCTAAGAAAGTTCTGATAAAGTGATGACA
25782706 GTTAAAATGTGAAAATGTGAGGGCTAATTTCTAAAATGCCCTAAATATGTGTATAATGATTGAAT
1 GTTAAAATGTGAAAATGTGAGGGCTAATTTCTAAAATGCCCTAAATATGTGTATAATGATTGAAT
25782771 TGAATGATTTTTTTGAATAAAAGAGTTAAATTTGAATTTATATAGATCAAGAACCAAAGAAAACA
66 TGAATGATTTTTTTGAATAAAAGAGTTAAATTTGAATTTATATAGATCAAGAACCAAAGAAAACA
25782836 GAATTAGATCGGGGAAAGGCAAAAGTCATTGAGTAGTCGATTCCGTCCATTCGAATTTGTACGAG
131 GAATTAGATCGGGGAAAGGCAAAAGTCATTGAGTAGTCGATTCCGTCCATTCGAATTTGTACGAG
25782901 GTAAGTCTATATAAAAATAAATGTCTTTAAATTGAATTATTATTGTTTATATGTTAATGATTTGT
196 GTAAGTCTATATAAAAATAAATGTCTTTAAATTGAATTATTATTGTTTATATGTTAATGATTTGT
25782966 GATGAAATGGCTAATTGAGCTAAATATGAAAATCTAAGAAAGTTCTGATAAAGTGATGACA
261 GATGAAATGGCTAATTGAGCTAAATATGAAAATCTAAGAAAGTTCTGATAAAGTGATGACA
25783027 TTTGAAAAGT
Statistics
Matches: 321, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 321 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (321 bp):
GTTAAAATGTGAAAATGTGAGGGCTAATTTCTAAAATGCCCTAAATATGTGTATAATGATTGAAT
TGAATGATTTTTTTGAATAAAAGAGTTAAATTTGAATTTATATAGATCAAGAACCAAAGAAAACA
GAATTAGATCGGGGAAAGGCAAAAGTCATTGAGTAGTCGATTCCGTCCATTCGAATTTGTACGAG
GTAAGTCTATATAAAAATAAATGTCTTTAAATTGAATTATTATTGTTTATATGTTAATGATTTGT
GATGAAATGGCTAATTGAGCTAAATATGAAAATCTAAGAAAGTTCTGATAAAGTGATGACA
Found at i:25783198 original size:42 final size:43
Alignment explanation
Indices: 25783140--25783248 Score: 132
Period size: 43 Copynumber: 2.5 Consensus size: 43
25783130 ATCTATTCGA
25783140 GATTTACGTGTAAGACCATGTCTGAGAC-ATCCGCATC-ATATTT
1 GATTT-CGTGTAAGACCATGTCTGAGACAAT-CGCATCGATATTT
* * *
25783183 GATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGAGACAATCGCATCGATATTT
* * *
25783226 GATTACATGTAAGACCACGTCTG
1 GATTTCGTGTAAGACCATGTCTG
25783249 GAATGTAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGAGACAATCGCATCGATATTT
Found at i:25784163 original size:19 final size:19
Alignment explanation
Indices: 25784139--25784176 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25784129 GCGCGCCTAG
*
25784139 AGATAGGGTGACAAGATTT
1 AGATAGCGTGACAAGATTT
25784158 AGATAGCGTGACAAGATTT
1 AGATAGCGTGACAAGATTT
25784177 TTCCGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (19 bp):
AGATAGCGTGACAAGATTT
Found at i:25787876 original size:18 final size:18
Alignment explanation
Indices: 25787850--25787884 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25787840 TCGTAACGCT
*
25787850 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
25787868 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
25787885 TGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:25788573 original size:26 final size:25
Alignment explanation
Indices: 25788490--25788624 Score: 195
Period size: 26 Copynumber: 5.4 Consensus size: 25
25788480 CTGGAGGCCG
*
25788490 AGCCTCTTTTAAT-AATTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
25788514 AGCCCTTTTGATAAACTGGGGCA-A
1 AGCCCTTTTAATAAACTGGGGCATA
25788538 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
25788564 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
25788590 AGCCCTTTTTAATAAACTGGGGCATA
1 AGCCC-TTTTAATAAACTGGGGCATA
25788616 AGCCCTTTT
1 AGCCCTTTT
25788625 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.07
24 23 0.22
25 17 0.16
26 53 0.51
27 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:25788740 original size:20 final size:20
Alignment explanation
Indices: 25788674--25788730 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
25788664 TTATGAATAC
*
25788674 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
25788694 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25788714 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
25788731 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:25793295 original size:173 final size:173
Alignment explanation
Indices: 25793006--25793351 Score: 692
Period size: 173 Copynumber: 2.0 Consensus size: 173
25792996 GATATCCTGA
25793006 CCGAAGGTCGATCTTAGAAAATACCGAGGCTCCTCTTAGTTGATCAAACAGATCGCCGATTCTTG
1 CCGAAGGTCGATCTTAGAAAATACCGAGGCTCCTCTTAGTTGATCAAACAGATCGCCGATTCTTG
25793071 GCAATGGATACTTGTTCTTGATGATCAGTTTATTCAACTGCCGATAGTCAATACACATTCGCATA
66 GCAATGGATACTTGTTCTTGATGATCAGTTTATTCAACTGCCGATAGTCAATACACATTCGCATA
25793136 GTCCCATCTTTCTTCTTTACGAACAACACTGGTGCGCCTCACG
131 GTCCCATCTTTCTTCTTTACGAACAACACTGGTGCGCCTCACG
25793179 CCGAAGGTCGATCTTAGAAAATACCGAGGCTCCTCTTAGTTGATCAAACAGATCGCCGATTCTTG
1 CCGAAGGTCGATCTTAGAAAATACCGAGGCTCCTCTTAGTTGATCAAACAGATCGCCGATTCTTG
25793244 GCAATGGATACTTGTTCTTGATGATCAGTTTATTCAACTGCCGATAGTCAATACACATTCGCATA
66 GCAATGGATACTTGTTCTTGATGATCAGTTTATTCAACTGCCGATAGTCAATACACATTCGCATA
25793309 GTCCCATCTTTCTTCTTTACGAACAACACTGGTGCGCCTCACG
131 GTCCCATCTTTCTTCTTTACGAACAACACTGGTGCGCCTCACG
25793352 GGGAAACACT
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (173 bp):
CCGAAGGTCGATCTTAGAAAATACCGAGGCTCCTCTTAGTTGATCAAACAGATCGCCGATTCTTG
GCAATGGATACTTGTTCTTGATGATCAGTTTATTCAACTGCCGATAGTCAATACACATTCGCATA
GTCCCATCTTTCTTCTTTACGAACAACACTGGTGCGCCTCACG
Found at i:25796733 original size:25 final size:24
Alignment explanation
Indices: 25796662--25796744 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
25796652 CTGGAGGCCG
25796662 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
25796686 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
* *
25796710 AGCCATTTTCAATAAACTGAGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
25796736 AGCCCTTTT
1 AGCCCTTTT
25796745 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.14
24 23 0.45
25 12 0.24
26 9 0.18
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:25796860 original size:20 final size:20
Alignment explanation
Indices: 25796794--25796850 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
25796784 TTATGAATAC
*
25796794 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
25796814 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
25796834 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
25796851 TCAACCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.