Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 214 of 255
Found at i:71587335 original size:48 final size:43
Alignment explanation
Indices: 71587225--71587383 Score: 146
Period size: 41 Copynumber: 3.7 Consensus size: 43
71587215 GGGTGCCAAA
* * * * * *
71587225 GCCATGTCCTAGACATGGTCTTACATGA-GACCACACATTGAT
1 GCCATGTCCCAGACATGGTCTTATACGAGGACCTCATATCGAT
* * * *
71587267 GCCATATCCTAGATATGGTCTTATACGAGG-TCTCATATCGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTATACGAGGACCTCATA----T--CGAT
71587315 GCCATGTCCCAGACATGGTCTTATA--AGGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTATACGAGGACCTCATATCGAT
71587356 GCCATGTCCCAGACATGGTCTTATACGA
1 GCCATGTCCCAGACATGGTCTTATACGA
71587384 AATCACTTAA
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
41 29 0.31
42 28 0.29
43 3 0.03
46 4 0.04
47 6 0.06
48 25 0.26
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
GCCATGTCCCAGACATGGTCTTATACGAGGACCTCATATCGAT
Found at i:71587401 original size:89 final size:90
Alignment explanation
Indices: 71587218--71587428 Score: 228
Period size: 89 Copynumber: 2.4 Consensus size: 90
71587208 CCAATTAGGG
* * * * * * *
71587218 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGAGACCACACATTGATGCCATATCCTAGATAT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTATAAGAGACCACACATCGATGCCATATCCCAGACAT
** * *
71587283 GGTCTTATACGAGGTCTCATATCGG
66 GGTCTTATACGAAATCACATATCGA
* * * *
71587308 TGCCGATGCCATGTCCCAGACATGGTCTTATAAG-GACCTCATATCGATGCCATGTCCCAGACAT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTATAAGAGACCACACATCGATGCCATATCCCAGACAT
*
71587372 GGTCTTATACGAAATCACTTAAT-GA
66 GGTCTTATACGAAATCACAT-ATCGA
* * *
71587397 TGCCGAAGCCATATCCCTGATATGGTCTTATA
1 TGCCGAAGCCATGTCCCAGACATGGTCTTATA
71587429 CGGGATCTCA
Statistics
Matches: 100, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
89 69 0.69
90 31 0.31
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (90 bp):
TGCCGAAGCCATGTCCCAGACATGGTCTTATAAGAGACCACACATCGATGCCATATCCCAGACAT
GGTCTTATACGAAATCACATATCGA
Found at i:71588494 original size:26 final size:26
Alignment explanation
Indices: 71588458--71588510 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
71588448 TTCTAGAACC
71588458 TAAGTTGTGCAATTTATTCAATTTGG
1 TAAGTTGTGCAATTTATTCAATTTGG
71588484 TAAGTTGTGCAATTTATTCAATTTGG
1 TAAGTTGTGCAATTTATTCAATTTGG
71588510 T
1 T
71588511 CCCTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (26 bp):
TAAGTTGTGCAATTTATTCAATTTGG
Found at i:71592159 original size:12 final size:11
Alignment explanation
Indices: 71592141--71592171 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
71592131 ACTATGCTAA
71592141 TTAATTTTAAT
1 TTAATTTTAAT
71592152 TCTAATTTTAAT
1 T-TAATTTTAAT
71592164 TTAATTTT
1 TTAATTTT
71592172 CATTACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:71592447 original size:15 final size:15
Alignment explanation
Indices: 71592417--71592445 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
71592407 ACTATTAGTA
71592417 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
71592432 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
71592446 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:71602119 original size:21 final size:19
Alignment explanation
Indices: 71602095--71602143 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
71602085 AATTATGCTA
71602095 TTAGTCATTGTACTTTATAAT
1 TTAGTCATTGTAC-TT-TAAT
71602116 TTAGTTCA-TGTACTTTAAT
1 TTAG-TCATTGTACTTTAAT
71602135 TTAGTCATT
1 TTAGTCATT
71602144 TTTTGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 9 0.35
20 2 0.08
21 9 0.35
22 3 0.12
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (19 bp):
TTAGTCATTGTACTTTAAT
Found at i:71602673 original size:25 final size:25
Alignment explanation
Indices: 71602622--71602673 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
71602612 AACACAAGTC
*
71602622 ACTTCAAAGCATTTGAACTTAACCA
1 ACTTCAAAGCATTTGAACTTAAACA
71602647 ACTTCAAAGCATTTGAA-TGTAAACA
1 ACTTCAAAGCATTTGAACT-TAAACA
71602672 AC
1 AC
71602674 AAATGGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (25 bp):
ACTTCAAAGCATTTGAACTTAAACA
Found at i:71607889 original size:21 final size:21
Alignment explanation
Indices: 71607864--71607908 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
71607854 GTAATGTTTA
71607864 TATTGATTTGAGAATTGTGGG
1 TATTGATTTGAGAATTGTGGG
71607885 TATTGATTTGAGAATTGTGGG
1 TATTGATTTGAGAATTGTGGG
71607906 TAT
1 TAT
71607909 GTTTGAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TATTGATTTGAGAATTGTGGG
Found at i:71609401 original size:27 final size:28
Alignment explanation
Indices: 71609348--71609406 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
71609338 TTTATATCTT
*
71609348 GTTTTGAAAAGTACTAAAAGTACACAC-
1 GTTTTGAAAAGTACTAAAAATACACACA
*
71609375 GTTTTGAAAAGTACTAAAAATATACACA
1 GTTTTGAAAAGTACTAAAAATACACACA
71609403 GTTT
1 GTTT
71609407 GACACATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (28 bp):
GTTTTGAAAAGTACTAAAAATACACACA
Found at i:71610600 original size:10 final size:9
Alignment explanation
Indices: 71610581--71610640 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
71610571 AAAAAATTAT
71610581 AAATAATAA
1 AAATAATAA
71610590 AAATCAATAA
1 AAAT-AATAA
*
71610600 AAATTATAA
1 AAATAATAA
*
71610609 AAATTATTAA
1 AAA-TAATAA
**
71610619 ATTTTAATAA
1 A-AATAATAA
71610629 AAAT-ATAA
1 AAATAATAA
71610637 AAAT
1 AAAT
71610641 TGTAAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 20 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATAATAA
Found at i:71610619 original size:19 final size:19
Alignment explanation
Indices: 71610576--71610646 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
71610566 TGGCAAAAAA
* * *
71610576 ATTATAAATAATAAAAATC
1 ATTAAAAATTATAAAAATT
*
71610595 AATAAAAATTATAAAAATT
1 ATTAAAAATTATAAAAATT
**
71610614 ATTAAATTTTAATAAAAA-T
1 ATTAAAAATT-ATAAAAATT
*
71610633 A-TAAAAATTGTAAA
1 ATTAAAAATTATAAA
71610647 TTTTTATAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 24 0.59
20 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
ATTAAAAATTATAAAAATT
Found at i:71610641 original size:28 final size:27
Alignment explanation
Indices: 71610595--71610667 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
71610585 AATAAAAATC
*
71610595 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAA-TATAAAAATT-GTAAATTTT
71610624 AATAAAAATATAAAAATTGTAAATTTT
1 AATAAAAATATAAAAATTGTAAATTTT
*
71610651 TATAAAAAATCATAAAA
1 AAT-AAAAAT-ATAAAA
71610668 GAATTATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 10 0.25
28 16 0.40
29 14 0.35
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (27 bp):
AATAAAAATATAAAAATTGTAAATTTT
Found at i:71610957 original size:45 final size:47
Alignment explanation
Indices: 71610892--71610997 Score: 112
Period size: 46 Copynumber: 2.3 Consensus size: 47
71610882 ATTTGACAAT
** * *
71610892 TTTTTATACTTTTT-TAAAAATAT-ATTTTTTTTCTAATTTTTA-ATA
1 TTTTTATA-TTTTTATAAAAATATAATAATTTTTATAACTTTTATATA
* * *
71610937 TTTTTATATTTTTATTAAAATTTAATAATTTTTATAACTTTTATTTA
1 TTTTTATATTTTTATAAAAATATAATAATTTTTATAACTTTTATATA
71610984 TTTTTAT-TTTTTAT
1 TTTTTATATTTTTAT
71610998 CATTCTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
44 5 0.10
45 15 0.29
46 22 0.43
47 9 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (47 bp):
TTTTTATATTTTTATAAAAATATAATAATTTTTATAACTTTTATATA
Found at i:71611898 original size:12 final size:11
Alignment explanation
Indices: 71611872--71611896 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71611862 AAATGTATCT
71611872 AAATAAATTAA
1 AAATAAATTAA
71611883 AAATAAATTAA
1 AAATAAATTAA
71611894 AAA
1 AAA
71611897 ATTATACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAATTAA
Found at i:71614105 original size:2 final size:2
Alignment explanation
Indices: 71614098--71614125 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71614088 TTTCTTTCTT
71614098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71614126 AAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71617511 original size:22 final size:20
Alignment explanation
Indices: 71617480--71617535 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
71617470 TACAAGGTCA
*
71617480 ATGTCGCGACACTGAGAAGTGG
1 ATGTCACGACACTGAGAA--GG
*
71617502 GTGTCACGACACT--GAAGG
1 ATGTCACGACACTGAGAAGG
71617520 ATGTCACGACACTGAG
1 ATGTCACGACACTGAG
71617536 CTGTCGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 14 0.48
20 4 0.14
22 11 0.38
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (20 bp):
ATGTCACGACACTGAGAAGG
Found at i:71619848 original size:52 final size:48
Alignment explanation
Indices: 71619786--71619974 Score: 172
Period size: 47 Copynumber: 3.9 Consensus size: 48
71619776 TGTGATTTCT
* *
71619786 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAGATGTGATATGTGCTCCC
1 GTATAAGACCATAGCTGGGATATGGCATC---GAGATGTGATATGTGCT-CC
* * * *
71619838 GTATAAGACCATATCCGGGATATGGCATCGACA--TGATATGTGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCT-CC
* * *
71619885 GTATAAGACCATATCTGGGATATAGCATC-AG-TGTGATATGTGATCC
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCTCC
* * * *
71619931 GTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 GTATAAGACCATAGCTGGGATATGGCATCGAG-ATGTGATATGTG
71619975 ACTATGTGCA
Statistics
Matches: 114, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
46 26 0.23
47 49 0.43
48 11 0.10
49 3 0.03
52 25 0.22
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCTCC
Found at i:71620360 original size:24 final size:22
Alignment explanation
Indices: 71620317--71620360 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
71620307 ATAAATTGTG
* *
71620317 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
71620339 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
71620361 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:71626794 original size:46 final size:45
Alignment explanation
Indices: 71626645--71626804 Score: 236
Period size: 45 Copynumber: 3.6 Consensus size: 45
71626635 ATACCAATGC
71626645 CATGTCCCAGACATGGTCTTACACTGACACATTTTGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACACATTTTGTAGCCGATG
71626690 CATGTCCCAGACATGGTCTTACACTGACACATTTTGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACACATTTTGTAGCCGATG
* *
71626735 CATGTCCCAGACAT-GTCTTACACTGACTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGAC--ACATTTTGTA-GCCGATG
* *
71626781 CATGTCCTAGACAT-ATCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
71626805 AGCTCTCGTT
Statistics
Matches: 108, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
44 13 0.12
45 60 0.56
46 35 0.32
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACACATTTTGTAGCCGATG
Found at i:71627271 original size:30 final size:30
Alignment explanation
Indices: 71627237--71627293 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
71627227 ATAATTAGCC
* * *
71627237 AAAATGACCATTTTGCCCTTATATTTTTAT
1 AAAATAACCATTTTACCCTTAGATTTTTAT
*
71627267 AAAATAATCATTTTACCCTTAGATTTT
1 AAAATAACCATTTTACCCTTAGATTTT
71627294 AAAATCGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (30 bp):
AAAATAACCATTTTACCCTTAGATTTTTAT
Found at i:71629198 original size:18 final size:18
Alignment explanation
Indices: 71629175--71629210 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
71629165 TCCCCCGGTG
71629175 ATAGTCTATTATCAACTC
1 ATAGTCTATTATCAACTC
*
71629193 ATAGTCTTTTATCAACTC
1 ATAGTCTATTATCAACTC
71629211 CAACAATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (18 bp):
ATAGTCTATTATCAACTC
Found at i:71632953 original size:142 final size:143
Alignment explanation
Indices: 71632783--71633049 Score: 351
Period size: 142 Copynumber: 1.9 Consensus size: 143
71632773 TCCATCAAGT
* **
71632783 CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTCACATATCCGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-A-TCTCACATATCAATGCCGATGCCATGTCCCA
* * * **
71632848 GATATGGTCTTACACTGAC-GT-ATTTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTGAC
64 GACATGGTATTACACTGACTCTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGAC
71632911 TTACATCTCGAAGGC
129 TTACATCTCGAAGGC
* * * *
71632926 CGATGCCATGTCCTAGACAT-GTCTTACACTATCTCTCATCTCAATGCCGATGCCATGTCTCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTATCTCACATATCAATGCCGATGCCATGTCCCAGA
* * * *
71632990 CATGGTATTACATTGGCTCTCATAATGTGGCCGATGCTTGTCCCAGACATGTCTTACACT
66 CATGGTATTACACTGACTCTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
71633050 AGCACACAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
140 41 0.39
141 2 0.02
142 44 0.42
143 19 0.18
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (143 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTATCTCACATATCAATGCCGATGCCATGTCCCAGA
CATGGTATTACACTGACTCTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTT
ACATCTCGAAGGC
Found at i:71633001 original size:48 final size:48
Alignment explanation
Indices: 71632738--71633049 Score: 242
Period size: 47 Copynumber: 6.6 Consensus size: 48
71632728 TATAATGCTA
* * *
71632738 ATGCCATGTCCTAGACATGGTCTTACACT-A-GCTCATCCATCAA-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCAT-C-TCAATGCCG
* * **
71632785 ATGCCATGTCCCAGACATGGTCTTACATTGACTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCT--CATCTCAATGCCG
* * ***
71632835 ATGCCATGTCCCAGATATGGTCTTACACTGAC-GT-AT-TTTGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATCTCAAT-GCCG
*
71632881 ATG-CATGTCCCAGACAT-GTCTTACACTGACT-TACATCTCGAAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATCTC-AATGCCG
*
71632928 ATGCCATGTCCTAGACAT-GTCTTACACT-ATCTCTCATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATCTCAATGCCG
* * * *
71632975 ATGCCATGTCTCAGACATGGTATTACATTGGCTCTCA--T-AATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATCTCAA--T-GCCG
*
71633023 ATG-CTTGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
71633050 AGCACACAAA
Statistics
Matches: 218, Mismatches: 28, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
44 14 0.06
45 18 0.08
46 20 0.09
47 71 0.33
48 53 0.24
49 6 0.03
50 33 0.15
51 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATCTCAATGCCG
Found at i:71636815 original size:50 final size:50
Alignment explanation
Indices: 71636755--71636854 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
71636745 GGTTTTTTTT
*
71636755 AATTTGAAAGTAATTATTATTTAAATAAATTATAAAAAAATATTAATCCC
1 AATTTAAAAGTAATTATTATTTAAATAAATTATAAAAAAATATTAATCCC
71636805 AATTTAAAAGTAATTATTATTTAAATAAATTATAAAAAAATATTAATCCC
1 AATTTAAAAGTAATTATTATTTAAATAAATTATAAAAAAATATTAATCCC
71636855 CCCTGCGTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (50 bp):
AATTTAAAAGTAATTATTATTTAAATAAATTATAAAAAAATATTAATCCC
Found at i:71639993 original size:12 final size:13
Alignment explanation
Indices: 71639971--71640000 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
71639961 TCTCCTCATC
71639971 CTTTTTCCTTCTT
1 CTTTTTCCTTCTT
71639984 CTTTTT-CTTCTT
1 CTTTTTCCTTCTT
71639996 CTTTT
1 CTTTT
71640001 ATCGCCCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTTCCTTCTT
Found at i:71649688 original size:123 final size:124
Alignment explanation
Indices: 71649464--71649696 Score: 316
Period size: 123 Copynumber: 1.9 Consensus size: 124
71649454 ATAAAGTTTT
* * **
71649464 TAATATTATATATTCACCTTTGATTGATGAATGCAAGATACTTCTTCATAATATGACTTTTAGGT
1 TAATATTATATATTCACCTTTGATTGATGAATGCAAGATACTTCTTCATAAGATGACTTTGAAAT
*
71649529 CCTTGAAGCATGTGTTTCGAGAAGGCAACAAGTGTGCCGATTGCTTTTTAATAGAGATAC
66 CCTTGAAGCATGTGTTTCGAGAAGGCAACAAATGTGCCGA-TGCTTTTTAATAGAGATAC
*
71649589 TAATATTATAT-TGTCACCTTTGATTGATGAA-G-ACGATA-TTCCTTC-TCAAGATGACTTTGA
1 TAATATTATATAT-TCACCTTTGATTGATGAATGCAAGATACTT-CTTCAT-AAGATGACTTTGA
*
71649649 AATCCTTGAAGCATGTG-TTCTGAGAAGGCAACAAATGTGCTGATGCTT
63 AATCCTTGAAGCATGTGTTTC-GAGAAGGCAACAAATGTGCCGATGCTT
71649697 CGGCCGTACT
Statistics
Matches: 97, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
122 11 0.11
123 55 0.57
124 2 0.02
125 29 0.30
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (124 bp):
TAATATTATATATTCACCTTTGATTGATGAATGCAAGATACTTCTTCATAAGATGACTTTGAAAT
CCTTGAAGCATGTGTTTCGAGAAGGCAACAAATGTGCCGATGCTTTTTAATAGAGATAC
Found at i:71668241 original size:19 final size:20
Alignment explanation
Indices: 71668225--71668269 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
71668215 AAAAATTTAT
*
71668225 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
71668244 AATTTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
71668264 -ATTTTT
1 AATTTTT
71668270 TCGGTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:71668270 original size:20 final size:19
Alignment explanation
Indices: 71668213--71668269 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
71668203 TTTTTAAAAA
71668213 TAAAAA-ATTTAT-AATTTT
1 TAAAAATATTT-TGAATTTT
*
71668231 TATAAATATTTTGAATTTT
1 TAAAAATATTTTGAATTTT
71668250 TAAAAATTATTTTG-ATTTT
1 TAAAAA-TATTTTGAATTTT
71668269 T
1 T
71668270 TCGGTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 6 0.18
19 21 0.62
20 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TAAAAATATTTTGAATTTT
Found at i:71675635 original size:11 final size:12
Alignment explanation
Indices: 71675617--71675654 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
71675607 ATTTAAGTAA
71675617 ATATATTATATT
1 ATATATTATATT
71675629 A-ATATTATATT
1 ATATATTATATT
71675640 ATTATATTATTATT
1 A-TATATTA-TATT
71675654 A
1 A
71675655 GAATTAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 1 0.04
13 6 0.26
14 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATATTATATT
Found at i:71675734 original size:12 final size:12
Alignment explanation
Indices: 71675707--71675740 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
71675697 CAGAATTGGG
71675707 AGAAAAGAGAGAA
1 AGAAAA-AGAGAA
*
71675720 AGAAAAAGGGAA
1 AGAAAAAGAGAA
71675732 AGAAAAAGA
1 AGAAAAAGA
71675741 AAGGAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:71676186 original size:21 final size:21
Alignment explanation
Indices: 71676162--71676204 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
71676152 TGTGTATTAA
71676162 TTGAAATATGTAGTATGAAAT
1 TTGAAATATGTAGTATGAAAT
71676183 TTGAAATATGTAGTATGAAAT
1 TTGAAATATGTAGTATGAAAT
71676204 T
1 T
71676205 GTAGTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
TTGAAATATGTAGTATGAAAT
Found at i:71676491 original size:5 final size:5
Alignment explanation
Indices: 71676476--71676525 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
71676466 TAATTGTAGT
* * *
71676476 ATTGAA ATTGA ATTGA GTTGA ATTGA ATTGT ATTGT ATTGA ATTGGA ATT
1 ATTG-A ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT-GA ATT
71676526 TATGAATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 30 0.77
6 9 0.23
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (5 bp):
ATTGA
Found at i:71681371 original size:21 final size:21
Alignment explanation
Indices: 71681312--71681371 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
71681302 ATCATGAAAC
* * *
71681312 AGGGCCACACACCCGTGCGGA
1 AGGGCAACACGCCCGTGTGGA
71681333 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
71681354 AGGGCAACACGCCCGTGT
1 AGGGCAACACGCCCGTGT
71681372 AGCTATTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.33, G:0.35, T:0.08
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:71684805 original size:31 final size:31
Alignment explanation
Indices: 71684723--71684812 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
71684713 AAGTAATCTA
*
71684723 ATCAGTGAGAAGTGGTAGCTCCAGCTACCTG
1 ATCAGTGAGAAGTGGTAGCTTCAGCTACCTG
*
71684754 ATCAGTGAGAAGTGGTAGCTTCAGCTACTTG
1 ATCAGTGAGAAGTGGTAGCTTCAGCTACCTG
*
71684785 ATCAGTGA-ATAGTGGTAGCTTCGGCTAC
1 ATCAGTGAGA-AGTGGTAGCTTCAGCTAC
71684813 AAATGACAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 1 0.02
31 54 0.98
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (31 bp):
ATCAGTGAGAAGTGGTAGCTTCAGCTACCTG
Found at i:71688933 original size:21 final size:21
Alignment explanation
Indices: 71688909--71689014 Score: 67
Period size: 21 Copynumber: 5.1 Consensus size: 21
71688899 CGGAAACCCG
71688909 TAAGGGTTGAACAGAAACTCA
1 TAAGGGTTGAACAGAAACTCA
* *
71688930 TAAGAGCTGAAC-GAAAACTCA
1 TAAGGGTTGAACAG-AAACTCA
* *
71688951 -ATAGGGTTAAACTA-AAACTCG
1 TA-AGGGTTGAAC-AGAAACTCA
* * *
71688972 TAAGAGTTGAACTGAAACCCA
1 TAAGGGTTGAACAGAAACTCA
* * *
71688993 TTAGGGTT-AACTGAAGCTCA
1 TAAGGGTTGAACAGAAACTCA
71689013 TA
1 TA
71689015 TGAGTTAACT
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
20 13 0.21
21 49 0.78
22 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.22
Consensus pattern (21 bp):
TAAGGGTTGAACAGAAACTCA
Found at i:71688969 original size:42 final size:42
Alignment explanation
Indices: 71688923--71689027 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
71688913 GGTTGAACAG
*
71688923 AAACTCATAAGAGCTGAAC-GAAAACTCAATAGGGTTAAACTA
1 AAACTCATAAGAGCTGAACTG-AAACCCAATAGGGTTAAACTA
* * * *
71688965 AAACTCGTAAGAGTTGAACTGAAACCCATTAGGGTT-AACTG
1 AAACTCATAAGAGCTGAACTGAAACCCAATAGGGTTAAACTA
* * *
71689006 AAGCTCATATGAG-TTAACTGAA
1 AAACTCATAAGAGCTGAACTGAA
71689028 GCTCATGTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 8 0.15
41 14 0.26
42 30 0.57
43 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (42 bp):
AAACTCATAAGAGCTGAACTGAAACCCAATAGGGTTAAACTA
Found at i:71689021 original size:20 final size:20
Alignment explanation
Indices: 71688998--71689042 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
71688988 ACCCATTAGG
71688998 GTTAACTGAAGCTCATATGA
1 GTTAACTGAAGCTCATATGA
*
71689018 GTTAACTGAAGCTCATGTGA
1 GTTAACTGAAGCTCATATGA
71689038 GTTAA
1 GTTAA
71689043 ACGAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (20 bp):
GTTAACTGAAGCTCATATGA
Found at i:71692259 original size:15 final size:16
Alignment explanation
Indices: 71692239--71692268 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71692229 ACAAGTATAT
71692239 AAATTA-AAAACAATC
1 AAATTAGAAAACAATC
71692254 AAATTAGAAAACAAT
1 AAATTAGAAAACAAT
71692269 GATTAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATTAGAAAACAATC
Found at i:71692371 original size:16 final size:15
Alignment explanation
Indices: 71692351--71692401 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
71692341 ATATAAATCA
*
71692351 TAAAAAAATTAAAAT
1 TAAAAAAATAAAAAT
71692366 TCAAAAAATATAAAAAT
1 T-AAAAAA-ATAAAAAT
*
71692383 TAAAATAAAT-CAAAT
1 TAAAA-AAATAAAAAT
71692398 TAAA
1 TAAA
71692402 CTATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 9 0.29
16 12 0.39
17 10 0.32
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAAAATAAAAAT
Found at i:71698486 original size:59 final size:58
Alignment explanation
Indices: 71698306--71698589 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
71698296 ATGATAAATT
* ** * *
71698306 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
71698365 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
71698426 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
71698485 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
71698547 T
58 C
*
71698548 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
71698590 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:71698513 original size:120 final size:122
Alignment explanation
Indices: 71698299--71698589 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
71698289 TAGTATGATG
* **
71698299 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
71698364 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
71698420 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
71698483 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
71698541 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
71698590 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:71698568 original size:18 final size:19
Alignment explanation
Indices: 71698533--71698569 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
71698523 ATTATTAAGA
71698533 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
71698552 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
71698570 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:71698839 original size:16 final size:16
Alignment explanation
Indices: 71698805--71698857 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
71698795 GATTAGCTAT
71698805 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
71698822 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
71698838 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
71698854 TACA
1 TACA
71698858 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:71731167 original size:17 final size:17
Alignment explanation
Indices: 71731145--71731192 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
71731135 AAAAGAAAAT
** *
71731145 AATAAAATTGAAATGAA
1 AATAAAATAAAAATAAA
71731162 AATAAAATAAAAATAAA
1 AATAAAATAAAAATAAA
71731179 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
71731193 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:71731168 original size:5 final size:6
Alignment explanation
Indices: 71731155--71731192 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
71731145 AATAAAATTG
*
71731155 AAATGA AAAT-A AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
71731193 GATAGGAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:71740430 original size:58 final size:57
Alignment explanation
Indices: 71740354--71740558 Score: 243
Period size: 58 Copynumber: 3.6 Consensus size: 57
71740344 ATCCGTGAGC
* *
71740354 TGTTTTATACTTGCAAAAAATTTGAAAGATAATCAACTAGGGATGTGAATTCGCAAGT
1 TGTTTTATACTTGTAAAAAATTTGAAAGATAATCAACTGGGGATG-GAATTCGCAAGT
* * **
71740412 TGTTTTATACTTGAAAAAAAATTGAAAGATAATCAACTGGGGATGGAA-TCAATAAGT
1 TGTTTTATACTTGTAAAAAATTTGAAAGATAATCAACTGGGGATGGAATTC-GCAAGT
* * * * *
71740469 TGTTTTATACATGTGAAAATTTTGAAAGGTAATCAACTGGGGATGCGAATTCGCGAA-A
1 TGTTTTATACTTGTAAAAAATTTGAAAGATAATCAACTGGGGATG-GAATTCGC-AAGT
* *
71740527 TGTTTTATACTTGTGAAAATTTTGAAAGATAA
1 TGTTTTATACTTGTAAAAAATTTGAAAGATAA
71740559 CATATAACAC
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.02
57 46 0.36
58 75 0.59
59 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (57 bp):
TGTTTTATACTTGTAAAAAATTTGAAAGATAATCAACTGGGGATGGAATTCGCAAGT
Found at i:71743573 original size:3 final size:3
Alignment explanation
Indices: 71743565--71743642 Score: 74
Period size: 3 Copynumber: 26.3 Consensus size: 3
71743555 AAATAGATAT
* *
71743565 TTA TTA TTA TAA TTA TTAA TTA TTA TTG TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
71743611 TTA TTA TTA TT- TAA TTGA -TA TTA -TA TTA TTA T
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T
71743643 GAAATAAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 5 0.08
3 53 0.84
4 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:71743603 original size:34 final size:37
Alignment explanation
Indices: 71743565--71743642 Score: 110
Period size: 34 Copynumber: 2.2 Consensus size: 37
71743555 AAATAGATAT
71743565 TTATTATTATAATTATTAATTA-TT-ATTG-T-TTATA
1 TTATTATTATAATTATT-ATTATTTAATTGATATTATA
*
71743599 TTATTATTATTATTATTATTATTTAATTGATATTATA
1 TTATTATTATAATTATTATTATTTAATTGATATTATA
71743636 TTATTAT
1 TTATTAT
71743643 GAAATAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 4 0.10
34 18 0.46
35 4 0.10
36 1 0.03
37 12 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (37 bp):
TTATTATTATAATTATTATTATTTAATTGATATTATA
Found at i:71743606 original size:37 final size:37
Alignment explanation
Indices: 71743565--71743642 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
71743555 AAATAGATAT
*
71743565 TTATTATTATAATTATTAATTATTATTG-T-TTATATTA
1 TTATTATTATAATTATT-ATT-TAATTGATATTATATTA
*
71743602 TTATTATTATTATTATTATTTAATTGATATTATATTA
1 TTATTATTATAATTATTATTTAATTGATATTATATTA
71743639 TTAT
1 TTAT
71743643 GAAATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 5 0.14
36 4 0.11
37 28 0.76
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (37 bp):
TTATTATTATAATTATTATTTAATTGATATTATATTA
Found at i:71744004 original size:21 final size:20
Alignment explanation
Indices: 71743980--71744022 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
71743970 AGCAAACGAG
71743980 AAAG-AAAGAAAGAAAGGAGAA
1 AAAGAAAAGAAA-AAAGGA-AA
71744001 AAAGAAAAGAAAAAAGGAAA
1 AAAGAAAAGAAAAAAGGAAA
71744021 AA
1 AA
71744023 CTAGAGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAAAAAGGAAA
Found at i:71744006 original size:13 final size:12
Alignment explanation
Indices: 71743921--71744021 Score: 53
Period size: 13 Copynumber: 7.9 Consensus size: 12
71743911 TAAAGTAAAT
* *
71743921 AAAAAGGAAATG
1 AAAAAAGAAAAG
71743933 AAAAAA-AAAAG
1 AAAAAAGAAAAG
*
71743944 AAAGAAACAAAAGG
1 AAA-AAAGAAAA-G
*
71743958 AAAGAACAGAATAG
1 AAA-AA-AGAAAAG
* *
71743972 -CAAACGAGAAAG
1 AAAAAAGA-AAAG
*
71743984 AAAGAAAGAAAGG
1 AAA-AAAGAAAAG
71743997 AGAAAAAGAAAAG
1 A-AAAAAGAAAAG
71744010 AAAAAAGGAAAA
1 AAAAAA-GAAAA
71744022 ACTAGAGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
11 9 0.13
12 18 0.26
13 24 0.35
14 14 0.20
15 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:71746856 original size:69 final size:69
Alignment explanation
Indices: 71746769--71747019 Score: 236
Period size: 69 Copynumber: 3.6 Consensus size: 69
71746759 TGACCGCCAG
* * * * *
71746769 GAGCTTTACTCTCTCTAACTGTGTTGGAGGCTGTGGCTCTTCACCTGCGAGCCTAAATATGATAG
1 GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTAAATATGACAG
71746834 TTGA
66 TTGA
* ** * * * * * *
71746838 GAGTTTTGCTCTCGCTAACTGTGTTAGAGGCTGTAGCTCTTCGCATGCAAGACTCAATATTACAG
1 GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTAAATATGACAG
** *
71746903 CCGG
66 TTGA
* * * * * * *
71746907 GAGCATTGCTCTCGCTAACTGTATTAGAGGCTACGGCT-TTTAGCCTACGAGCCTTAGTATGACA
1 GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCA-CCTGCGAGCCTAAATATGACA
71746971 -TATGA
65 GT-TGA
* *
71746976 GAGCTTTGCTCTCGCTAACTGTGTTAAAAGCTGCGGCTCTTCAC
1 GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCAC
71747020 TTATGAGCCT
Statistics
Matches: 140, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
68 2 0.01
69 135 0.96
70 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (69 bp):
GAGCTTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTGCGAGCCTAAATATGACAG
TTGA
Found at i:71747028 original size:69 final size:69
Alignment explanation
Indices: 71746907--71747041 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 69
71746897 TTACAGCCGG
* * *
71746907 GAGCATTGCTCTCGCTAACTGTATTAGAGGCTACGGCTTTTAGCCTACGAGCCTTAGTATGACAT
1 GAGCATTGCTCTCGCTAACTGTATTAAAAGCTACGGCTTTCAGCCTACGAGCCTTAGTATGACAT
71746972 ATGA
66 ATGA
* * * * *
71746976 GAGCTTTGCTCTCGCTAACTGTGTTAAAAGCTGCGGCTCTTCA-CTTATGAGCCTTAGTATGACA
1 GAGCATTGCTCTCGCTAACTGTATTAAAAGCTACGGCT-TTCAGCCTACGAGCCTTAGTATGACA
71747040 TA
65 TA
71747042 AATGTTGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 54 0.95
70 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (69 bp):
GAGCATTGCTCTCGCTAACTGTATTAAAAGCTACGGCTTTCAGCCTACGAGCCTTAGTATGACAT
ATGA
Found at i:71752759 original size:21 final size:21
Alignment explanation
Indices: 71752721--71752760 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
71752711 ACTGCTCAAG
*
71752721 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
71752742 AGAAGCCGGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
71752761 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Found at i:71757253 original size:94 final size:94
Alignment explanation
Indices: 71757092--71757281 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 94
71757082 CCTCAAGGTC
*
71757092 TAAAAATAGTGCTTTTCTCCTTACCGTTCAGTGAAGAAGACATGAAAATGATGATAATAACTTTT
1 TAAAAATAGTGCTTTTCTCCTTACCATTCAGTGAAGAAGACATGAAAATGATGATAATAACTTTT
71757157 TTTATTTTATTTAATTTAATTTATCAAAT
66 TTTATTTTATTTAATTTAATTTATCAAAT
71757186 TAAAAATAGTGCTTTTCTCCTTACCATTCAGTGAAGAAGACATGAAAATGATGATAATAACTTTT
1 TAAAAATAGTGCTTTTCTCCTTACCATTCAGTGAAGAAGACATGAAAATGATGATAATAACTTTT
71757251 TTTATTTTATTTAATTTAATTTATCAAAT
66 TTTATTTTATTTAATTTAATTTATCAAAT
71757280 TA
1 TA
71757282 CCATTTTAAC
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (94 bp):
TAAAAATAGTGCTTTTCTCCTTACCATTCAGTGAAGAAGACATGAAAATGATGATAATAACTTTT
TTTATTTTATTTAATTTAATTTATCAAAT
Found at i:71758219 original size:22 final size:22
Alignment explanation
Indices: 71758194--71758236 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
71758184 TTGACTCTGC
*
71758194 TGTCTCTAATACTGACATTCTT
1 TGTCTCTAATACAGACATTCTT
*
71758216 TGTCTCTAGTACAGACATTCT
1 TGTCTCTAATACAGACATTCT
71758237 CTGCGAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (22 bp):
TGTCTCTAATACAGACATTCTT
Found at i:71759468 original size:30 final size:30
Alignment explanation
Indices: 71759433--71759490 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
71759423 TAAGCACTTC
71759433 CACACGGGT-GATCCACACGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
* *
71759463 CACACGGGTAGACCATACGCTCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
71759491 CCTGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:71767639 original size:12 final size:12
Alignment explanation
Indices: 71767622--71767654 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
71767612 CTAAATTAAT
71767622 AAAATAAAATAA
1 AAAATAAAATAA
71767634 AAAATAAAATAA
1 AAAATAAAATAA
*
71767646 ATAATAAAA
1 AAAATAAAA
71767655 CCAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:71767641 original size:17 final size:17
Alignment explanation
Indices: 71767619--71767674 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
71767609 ATCCTAAATT
71767619 AATAAAATAAAATAAAA
1 AATAAAATAAAATAAAA
71767636 AATAAAAT-AAATAATAA
1 AATAAAATAAAATAA-AA
** *
71767653 AACCAAATAAAACAAAA
1 AATAAAATAAAATAAAA
71767670 TAATA
1 -AATA
71767675 TCTTCTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.19
17 18 0.58
18 7 0.23
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAATAAAATAAAA
Found at i:71777789 original size:19 final size:19
Alignment explanation
Indices: 71777743--71777790 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
71777733 GTATATATTT
71777743 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
71777761 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
71777780 TAAGTTTTATT
1 TAAATTTTATT
71777791 CATATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:71777851 original size:37 final size:37
Alignment explanation
Indices: 71777810--71777894 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 37
71777800 AGAATATTTT
**
71777810 TATTTTATCTTTTAGTAGTTTATTAGAAGAAGGGAAC
1 TATTTTATAGTTTAGTAGTTTATTAGAAGAAGGGAAC
*
71777847 TATTTTCTTTTATAGTTTAGTAGTTTATTAGAATAAGGGAAC
1 TA-----TTTTATAGTTTAGTAGTTTATTAGAAGAAGGGAAC
71777889 TATTTT
1 TATTTT
71777895 CCCAATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
37 6 0.15
42 34 0.85
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (37 bp):
TATTTTATAGTTTAGTAGTTTATTAGAAGAAGGGAAC
Found at i:71779228 original size:10 final size:10
Alignment explanation
Indices: 71779215--71779276 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
71779205 TTAAATTTTA
71779215 ATAAAAAATT
1 ATAAAAAATT
71779225 AT-AAAAATT
1 ATAAAAAATT
71779234 AT--AAAATT
1 ATAAAAAATT
*
71779242 ATATAAAATT
1 ATAAAAAATT
*
71779252 GT-AAAAA-T
1 ATAAAAAATT
*
71779260 ATATAGAAATT
1 ATA-AAAAATT
71779271 ATAAAA
1 ATAAAA
71779277 TTTTATAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 10 0.24
9 13 0.31
10 15 0.36
11 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:71779232 original size:9 final size:9
Alignment explanation
Indices: 71779218--71779349 Score: 76
Period size: 9 Copynumber: 14.0 Consensus size: 9
71779208 AATTTTAATA
71779218 AAAAATTAT
1 AAAAATTAT
71779227 AAAAATTAT
1 AAAAATTAT
71779236 -AAAATTAT
1 AAAAATTAT
*
71779244 ATAAAATTGT
1 A-AAAATTAT
71779254 AAAAATATAT
1 AAAAAT-TAT
*
71779264 AGAAATTAT
1 AAAAATTAT
*
71779273 -AAAATTTT
1 AAAAATTAT
* *
71779281 ATAAAGTAGT
1 AAAAATTA-T
*
71779291 AAGAAAATTTT
1 -A-AAAATTAT
71779302 ACAAAATGTA-
1 A-AAAAT-TAT
71779312 AAAAA-TAT
1 AAAAATTAT
71779320 -AAAATTCAT
1 AAAAATT-AT
71779329 AAAAAATATTAT
1 --AAAA-ATTAT
71779341 AAAAATTAT
1 AAAAATTAT
71779350 CGTACCAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
7 6 0.06
8 15 0.16
9 32 0.34
10 27 0.28
11 3 0.03
12 9 0.09
13 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:71779282 original size:10 final size:10
Alignment explanation
Indices: 71779207--71779285 Score: 51
Period size: 10 Copynumber: 8.2 Consensus size: 10
71779197 AATATTATTT
71779207 AAATTTTAATA
1 AAATTTT-ATA
**
71779218 AAAAATTATA
1 AAATTTTATA
*
71779228 AAA-ATTATA
1 AAATTTTATA
*
71779237 AAATTATATA
1 AAATTTTATA
*
71779247 AAATTGTA-A
1 AAATTTTATA
*
71779256 AAA-TATATA
1 AAATTTTATA
71779265 GAAA--TTATA
1 -AAATTTTATA
71779274 AAATTTTATA
1 AAATTTTATA
71779284 AA
1 AA
71779286 GTAGTAAGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
8 6 0.11
9 18 0.32
10 27 0.48
11 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
AAATTTTATA
Found at i:71779567 original size:19 final size:19
Alignment explanation
Indices: 71779545--71779612 Score: 61
Period size: 20 Copynumber: 3.7 Consensus size: 19
71779535 TTAATAAATT
71779545 TTAAATTTTTATATTTTTA
1 TTAAATTTTTATATTTTTA
* * *
71779564 TTAAAATTTAATAATTTTTC
1 TTAAATTTTTAT-ATTTTTA
* *
71779584 TAAAATTTAT-TATTTTTA
1 TTAAATTTTTATATTTTTA
71779602 -T-AATTTTTATA
1 TTAAATTTTTATA
71779613 ATTTCTAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
16 6 0.16
17 2 0.05
18 6 0.16
19 11 0.30
20 12 0.32
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTTTTATATTTTTA
Found at i:71779573 original size:18 final size:18
Alignment explanation
Indices: 71779552--71779602 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
71779542 ATTTTAAATT
71779552 TTTATATTTTTATTAAAA
1 TTTATATTTTTATTAAAA
*
71779570 TTTAATAATTTTT-CTAAAA
1 TTT-AT-ATTTTTATTAAAA
71779589 TTTATTATTTTTAT
1 TTTA-TATTTTTAT
71779603 AATTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 10 0.37
19 11 0.41
20 6 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTATTAAAA
Found at i:71779579 original size:46 final size:46
Alignment explanation
Indices: 71779479--71779611 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 46
71779469 GTTAATATTT
* * * *
71779479 TTATGATTCTTATAAAATTTTATTTTTTTATGATTTTTATGAAAAAA
1 TTATAATTTTTAT-AAATTTTATATTTTTATAATTTTTATGAAAAAA
* * * *
71779526 TTCTAATTTTTAATAAATTTTAAATTTTTAT-ATTTTTAT-TAAAAT
1 TTATAATTTTT-ATAAATTTTATATTTTTATAATTTTTATGAAAAAA
* *
71779571 TTAATAATTTTTCTAAAATTTATTATTTTTATAATTTTTAT
1 TT-ATAATTTTTATAAATTTTA-TATTTTTATAATTTTTAT
71779612 AATTTCTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
45 14 0.20
46 24 0.34
47 31 0.44
48 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (46 bp):
TTATAATTTTTATAAATTTTATATTTTTATAATTTTTATGAAAAAA
Found at i:71779607 original size:9 final size:9
Alignment explanation
Indices: 71779529--71779616 Score: 72
Period size: 9 Copynumber: 9.7 Consensus size: 9
71779519 GAAAAAATTC
71779529 TAATTTTTAA
1 TAATTTTT-A
*
71779539 TAAATTTTA
1 TAATTTTTA
71779548 -AATTTTTA
1 TAATTTTTA
71779556 T-ATTTTTA
1 TAATTTTTA
* *
71779564 TTAAAATTTAA
1 -T-AATTTTTA
*
71779575 TAATTTTTC
1 TAATTTTTA
**
71779584 TAAAATTTA
1 TAATTTTTA
*
71779593 TTATTTTTA
1 TAATTTTTA
71779602 TAATTTTTA
1 TAATTTTTA
71779611 TAATTT
1 TAATTT
71779617 CTAATAAGAG
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
8 14 0.23
9 33 0.55
10 8 0.13
11 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:71779819 original size:87 final size:86
Alignment explanation
Indices: 71779633--71779820 Score: 243
Period size: 86 Copynumber: 2.2 Consensus size: 86
71779623 AGAGCATGAA
*
71779633 CTTAATTGCTTTTTTGAAAAAATTTGAGGGTCCTTTTAATGCATTTTGAAAGTTCAAGTACCCAA
1 CTTAATTGCTTTTTTGAAAAAATTTGAGGGTCCTTTTAATGCATTTCGAAAGTTCAAGTACCCAA
*
71779698 TTGAGTGAAAAAAAAGTAGGG
66 TTGAGTGAAAAAAAAGAAGGG
* * * * ** * **
71779719 CTTAATTGTTTTTTTGAAGAAGA-TTGAGGGTCTTTTTTATGCATTTCGAAAGTTTGAGTGCTTA
1 CTTAATTGCTTTTTTGAA-AAAATTTGAGGGTCCTTTTAATGCATTTCGAAAGTTCAAGTACCCA
*
71779783 ATTGAGTGTAAAAAAATGAAGGG
65 ATTGAGTG-AAAAAAAAGAAGGG
71779806 CTTAATTGCTTTTTT
1 CTTAATTGCTTTTTT
71779821 TTTAAAAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 58 0.67
87 29 0.33
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (86 bp):
CTTAATTGCTTTTTTGAAAAAATTTGAGGGTCCTTTTAATGCATTTCGAAAGTTCAAGTACCCAA
TTGAGTGAAAAAAAAGAAGGG
Found at i:71786203 original size:12 final size:12
Alignment explanation
Indices: 71786186--71786211 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71786176 ATAAGAAAGT
71786186 TGAATCAGTGCC
1 TGAATCAGTGCC
71786198 TGAATCAGTGCC
1 TGAATCAGTGCC
71786210 TG
1 TG
71786212 TTGTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (12 bp):
TGAATCAGTGCC
Found at i:71791014 original size:40 final size:40
Alignment explanation
Indices: 71790919--71791136 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
71790909 TGGATGATAA
*
71790919 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
71790960 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
71791000 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71791040 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
71791080 CCGGGCTATGTCCCGAAAGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
71791119 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71791137 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.09
39 15 0.09
40 103 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71793773 original size:42 final size:42
Alignment explanation
Indices: 71793666--71793806 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
71793656 GTTTGTGACA
* ** * * *
71793666 TCGTGTAAGACCGTGTCTAGGACACAGGCCTCGAT-TGAGATT
1 TCGTGTAAGACCATGTCCGGGACAGAGGCATCGATAT-TGATT
* * **
71793708 TACGTATAAGACCATGTCTGGGACATTGGCATCG-TATCTGATT
1 T-CGTGTAAGACCATGTCCGGGACAGAGGCATCGATAT-TGATT
* *
71793751 TCGTGTAAGACCCTGTCCGGGACAGAGGCATCGATATTGAAT
1 TCGTGTAAGACCATGTCCGGGACAGAGGCATCGATATTGATT
*
71793793 TAGATGTAAGACCA
1 TCG-TGTAAGACCA
71793807 CGCCTGGGAC
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 35 0.44
43 44 0.56
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCCGGGACAGAGGCATCGATATTGATT
Found at i:71793816 original size:43 final size:42
Alignment explanation
Indices: 71793714--71793816 Score: 95
Period size: 42 Copynumber: 2.4 Consensus size: 42
71793704 GATTTACGTA
* * ** * *
71793714 TAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCGTG
1 TAAGACCACGCCTGGGACAGAGGCATCGTATCTGAATTAGTG
71793756 TAAGACC-CTGTCC-GGGACAGAGGCATCGATAT-TGAATTAGATG
1 TAAGACCAC-G-CCTGGGACAGAGGCATCG-TATCTGAATTAG-TG
71793799 TAAGACCACGCCTGGGAC
1 TAAGACCACGCCTGGGAC
71793817 GTCGGCATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
42 29 0.59
43 19 0.39
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (42 bp):
TAAGACCACGCCTGGGACAGAGGCATCGTATCTGAATTAGTG
Found at i:71797090 original size:24 final size:24
Alignment explanation
Indices: 71797063--71797111 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
71797053 TATTTACTAG
71797063 ATTACCAAAATGCCCTTCACTTAA
1 ATTACCAAAATGCCCTTCACTTAA
71797087 ATTACCAAAATGCCCTTCACTTAA
1 ATTACCAAAATGCCCTTCACTTAA
71797111 A
1 A
71797112 CTTTGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.29
Consensus pattern (24 bp):
ATTACCAAAATGCCCTTCACTTAA
Found at i:71806985 original size:40 final size:40
Alignment explanation
Indices: 71806918--71807164 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
71806908 CCTTCGGAGT
** * *
71806918 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
71806957 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
71806997 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
71807036 TTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
71807076 TTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
71807116 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
71807156 TTAGCCCGG
1 TTAGCCCGG
71807165 TTATCATCCG
Statistics
Matches: 186, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 46 0.25
40 139 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:71807039 original size:79 final size:80
Alignment explanation
Indices: 71806941--71807123 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 80
71806931 GCCACTAGCT
* * * *
71806941 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
71807006 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
71807020 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
71807085 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
71807100 CAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
71807124 AAATTAGCCA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 60 0.62
80 36 0.38
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:71815035 original size:40 final size:39
Alignment explanation
Indices: 71814991--71815214 Score: 229
Period size: 40 Copynumber: 5.7 Consensus size: 39
71814981 GCCACTAGCT
*
71814991 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
71815031 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * *
71815069 TCAAATGCCTTC-GGACTTAGCCTGGATATAATAGCTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * *
71815109 CAAACGCCTTCGGGACTTAACCCGGATATAGTAGCTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
71815149 CGAATGCCTTTGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
71815189 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
71815215 TATCATCCGA
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 13 0.08
39 45 0.29
40 97 0.63
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:71821408 original size:30 final size:31
Alignment explanation
Indices: 71821374--71821471 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 31
71821364 TAAACTAAAA
71821374 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * * *
71821404 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCTAAAGCTTTAGCTCGTGAGCTAAAGT
*
71821434 TGAGCTAAAG-TTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAAGCTTTAGCTCGTGAGCT-AAAGT
71821464 TGAGCTAA
1 TGAGCTAA
71821472 GAGTGAGCTC
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
30 45 0.88
31 6 0.12
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (31 bp):
TGAGCTAAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:71823651 original size:6 final size:6
Alignment explanation
Indices: 71823640--71823676 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
71823630 TTTTTCAATC
*
71823640 TCTTTT TCTTTT TCTTTT TCATTT TCTTTT TGCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T-CTTTT
71823677 CAAAGGCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:71823653 original size:30 final size:31
Alignment explanation
Indices: 71823582--71823641 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
71823572 CTTTTGTTTC
*
71823582 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
71823613 AATTTC-TTTTCGT-TCTCTTTTTCAATCTC
1 AATTTCTTTTTCATCT-TCTTTTTCAATCTC
71823642 TTTTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.73
31 6 0.23
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.58
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:71823670 original size:24 final size:24
Alignment explanation
Indices: 71823613--71823676 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
71823603 TTCACTCTCA
* *
71823613 AATTTC-TTTTCGTTCTCTTTTTC
1 AATTTCTTTTTCTTTTTCTTTTTC
*
71823636 AATCTCTTTTTCTTTTTCTTTTTC
1 AATTTCTTTTTCTTTTTCTTTTTC
*
71823660 ATTTTCTTTTTGCTTTT
1 AATTTCTTTTT-CTTTT
71823677 CAAAGGCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (24 bp):
AATTTCTTTTTCTTTTTCTTTTTC
Found at i:71823677 original size:12 final size:12
Alignment explanation
Indices: 71823615--71823670 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
71823605 CACTCTCAAA
*
71823615 TTTC-TTTTCGT
1 TTTCTTTTTCAT
* *
71823626 TCTCTTTTTCAA
1 TTTCTTTTTCAT
* *
71823638 TCTCTTTTTCTT
1 TTTCTTTTTCAT
71823650 TTTCTTTTTCAT
1 TTTCTTTTTCAT
71823662 TTTCTTTTT
1 TTTCTTTTT
71823671 GCTTTTCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
11 3 0.08
12 34 0.92
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:71823762 original size:16 final size:15
Alignment explanation
Indices: 71823741--71823801 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
71823731 CTTGCCTCTC
71823741 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-TTTCA
*
71823757 TTTTCTTTTTCTTC-
1 TTTTCTTTTTTTTCA
*
71823771 TTTTGCTTTTTCTTTTA
1 TTTT-CTTTTT-TTTCA
*
71823788 TTTTCTTTATTTTC
1 TTTTCTTTTTTTTC
71823802 TCTTTACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 17 0.46
17 4 0.11
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:71823779 original size:15 final size:14
Alignment explanation
Indices: 71823739--71823784 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
71823729 CTCTTGCCTC
*
71823739 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
71823754 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
71823769 TCTTTTGCTTTTTCT
1 TCTTTT-CTTTTTCT
71823784 T
1 T
71823785 TTATTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:71824725 original size:12 final size:13
Alignment explanation
Indices: 71824708--71824761 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
71824698 CATTAAACAC
71824708 TTTTTTTCAG-AT
1 TTTTTTTCAGAAT
*
71824720 TTTTTTT-TGAAT
1 TTTTTTTCAGAAT
71824732 TTTTTTT--GAAT
1 TTTTTTTCAGAAT
*
71824743 CTTTTTTC-GAAT
1 TTTTTTTCAGAAT
71824755 TTTTTTT
1 TTTTTTT
71824762 GACTTGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 11 0.30
12 26 0.70
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.72
Consensus pattern (13 bp):
TTTTTTTCAGAAT
Found at i:71824734 original size:11 final size:11
Alignment explanation
Indices: 71824720--71824763 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
71824710 TTTTTCAGAT
71824720 TTTTTTTTGAA
1 TTTTTTTTGAA
71824731 TTTTTTTTGAA
1 TTTTTTTTGAA
*
71824742 TCTTTTTTCGAA
1 T-TTTTTTTGAA
71824754 TTTTTTTTGA
1 TTTTTTTTGA
71824764 CTTGTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:71826473 original size:30 final size:30
Alignment explanation
Indices: 71826434--71826524 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
71826424 TGAGTTTAAA
71826434 CTAAA-TTGAGCTAAGCTTTAGCTCGTGAG
1 CTAAAGTTGAGCTAAGCTTTAGCTCGTGAG
* * * * *
71826463 CTAAAGTTGAGCTGAGGC-TAAACTCCTAAG
1 CTAAAGTTGAGCT-AAGCTTTAGCTCGTGAG
* * *
71826493 CTGAAGTTGAGCTAAGGTTTAGCTTGTGAG
1 CTAAAGTTGAGCTAAGCTTTAGCTCGTGAG
71826523 CT
1 CT
71826525 CGGTTTAGCT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
29 7 0.15
30 36 0.78
31 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (30 bp):
CTAAAGTTGAGCTAAGCTTTAGCTCGTGAG
Found at i:71833267 original size:40 final size:40
Alignment explanation
Indices: 71833210--71833412 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
71833200 TGGATGATAA
* * *
71833210 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGCGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA-T
* *
71833250 CCGGGCTAAGTCCCGAAGTCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA-T
*
71833290 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
71833329 CCAGGCCAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
71833369 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTATAT
71833409 CCGG
1 CCGG
71833413 TTAAAGCCCG
Statistics
Matches: 146, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 37 0.25
40 109 0.75
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:71833344 original size:79 final size:80
Alignment explanation
Indices: 71833210--71833410 Score: 264
Period size: 79 Copynumber: 2.5 Consensus size: 80
71833200 TGGATGATAA
* * * * * *
71833210 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGCGACTA-ATTCCGGGCTAAGTCCCGAAGTCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCAGGCCAAGTCCCGAAGGCATTT
**
71833274 GTGCGAGTTACTA-ATT
65 GTGCGAACTACTATA-T
*
71833290 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCCAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCAGGCCAAGTCCCGAAGGCATTTG
71833354 TGCGAACTACTATAT
66 TGCGAACTACTATAT
* *
71833369 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
71833411 GGTTAAAGCC
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 66 0.62
80 40 0.38
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCAGGCCAAGTCCCGAAGGCATTTG
TGCGAACTACTATAT
Found at i:71854936 original size:40 final size:39
Alignment explanation
Indices: 71854892--71855116 Score: 263
Period size: 40 Copynumber: 5.7 Consensus size: 39
71854882 GCCACTAGCT
*
71854892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
71854932 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
71854971 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
71855011 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
** * * * ** * *
71855051 TGAATGCCTTTGGGACTTAGCTCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
71855091 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
71855117 TATCATCCGA
Statistics
Matches: 161, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 40 0.25
40 121 0.75
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:71854990 original size:79 final size:78
Alignment explanation
Indices: 71854892--71855116 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
71854882 GCCACTAGCT
*
71854892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
71854957 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * *
71854971 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
71855036 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
** * * * ** *
71855051 TGAATGCCTTTGGGACTTAGCTCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
71855115 GT
64 GT
71855117 TATCATCCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
79 64 0.52
80 60 0.48
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:71880129 original size:22 final size:22
Alignment explanation
Indices: 71880104--71880149 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
71880094 AATTATTAAC
*
71880104 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
71880126 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
71880148 AT
1 AT
71880150 TATTTTCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:71881117 original size:30 final size:30
Alignment explanation
Indices: 71881081--71881141 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
71881071 TTATAAGCCT
*
71881081 AGGTAAGATTCTTGATTAAGTAAAATCATG
1 AGGTAAGATGCTTGATTAAGTAAAATCATG
*
71881111 AGGTAAGATGCTTGATTAAGTAATATCATG
1 AGGTAAGATGCTTGATTAAGTAAAATCATG
71881141 A
1 A
71881142 CTAAGTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (30 bp):
AGGTAAGATGCTTGATTAAGTAAAATCATG
Found at i:71882349 original size:12 final size:12
Alignment explanation
Indices: 71882329--71882358 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
71882319 TCCAGTTTTT
71882329 ACACAGCCTAAC
1 ACACAGCCTAAC
*
71882341 ACACGGCCTAAC
1 ACACAGCCTAAC
71882353 ACACAG
1 ACACAG
71882359 GTGTGTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.40, G:0.13, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAAC
Found at i:71884651 original size:46 final size:46
Alignment explanation
Indices: 71884584--71884758 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
71884574 TGTAACCCGC
71884584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
71884630 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
71884680 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
71884723 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
71884759 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:71884704 original size:93 final size:93
Alignment explanation
Indices: 71884592--71884763 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
71884582 GCCCATAAGT
** *
71884592 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71884657 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
71884685 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71884750 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
71884764 CAAATATTCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:71884778 original size:46 final size:45
Alignment explanation
Indices: 71884589--71884778 Score: 116
Period size: 46 Copynumber: 4.1 Consensus size: 45
71884579 CCCGCCCATA
* * * *** *
71884589 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGCCCAAATATCC
* * *
71884635 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--AATATC-C
* * * * * *** *
71884683 A-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCCCAAATATCC
71884728 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATA-TCC
71884774 AGTGA
1 AGTGA
71884779 CATGTCACTT
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.08
45 4 0.04
46 64 0.57
47 30 0.27
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCC
Found at i:71887714 original size:27 final size:26
Alignment explanation
Indices: 71887684--71887823 Score: 136
Period size: 27 Copynumber: 5.2 Consensus size: 26
71887674 GGCAAAATGG
* *
71887684 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTAT-TCGA
* * **
71887711 TAATTCTACCTTACAGGGGTATTTTA
1 TAATTCTACCCTACAAGGGTATTCGA
* **
71887737 GTAATTTTACCCTACAAGGGTATTTTA
1 -TAATTCTACCCTACAAGGGTATTCGA
*
71887764 GTAATTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAAGGGTA-TTCGA
*
71887792 TAATTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTA-TTCGA
71887819 TAATT
1 TAATT
71887824 TTGTAAATCG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 92 0.96
28 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (26 bp):
TAATTCTACCCTACAAGGGTATTCGA
Found at i:71887769 original size:54 final size:55
Alignment explanation
Indices: 71887683--71887823 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 55
71887673 GGGCAAAATG
* * * * * *
71887683 GTAATTTTACCCCACAAGGGTA-TCTCGATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTTAGATAATTCTACCCTACAAGGGTATTTCA
*
71887737 GTAATTTTACCCTACAAGGGTATTTTAG-TAATTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTTAGATAATTCTACCCTACAAGGGTATTTCA
* *
71887791 GTAATTCTACCCTACAAGGGTATTTCA-ATAATT
1 GTAATTTTACCCTACAAGGGTATTTTAGATAATT
71887824 TTGTAAATCG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
54 73 0.96
55 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (55 bp):
GTAATTTTACCCTACAAGGGTATTTTAGATAATTCTACCCTACAAGGGTATTTCA
Found at i:71887837 original size:27 final size:27
Alignment explanation
Indices: 71887807--71888041 Score: 138
Period size: 27 Copynumber: 8.7 Consensus size: 27
71887797 CTACCCTACA
*
71887807 AGGGTATTTCAATAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
*** * *
71887834 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
* * *
71887861 GGGGTACTTT-GGTAATTTT-TACAAGTTG
1 AGGGTA-TTTCAGTAATTTTGTA-AA-TCG
**
71887889 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
* *
71887916 AGGGTATTTTAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTGTAAATC-G
* *** *
71887943 AGGGTATTTCGGTAATTTCACAAATCA
1 AGGGTATTTCAGTAATTTTGTAAATCG
** ** *
71887970 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTGTAAATCG
* * *
71887996 AGGGGTATTT-GGTAATTTTGTAAACCA
1 A-GGGTATTTCAGTAATTTTGTAAATCG
**
71888023 AGGGTATTTTGGTAATTTT
1 AGGGTATTTCAGTAATTTT
71888042 CCAAGTCGAG
Statistics
Matches: 169, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
26 25 0.15
27 125 0.74
28 18 0.11
29 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAATCG
Found at i:71887931 original size:82 final size:78
Alignment explanation
Indices: 71887807--71888066 Score: 227
Period size: 82 Copynumber: 3.2 Consensus size: 78
71887797 CTACCCTACA
* ** *** * *
71887807 AGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGGGGTACTTTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGT-ATTTGGTAATTTTGTAAA-CGAGGGTA-TTTG
*
71887872 GTAATTTTTACAAGTTG
63 GTAA-TTTTACAAGTCG
* *
71887889 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTGGTAATTTTGTAAAC-GAGGGTATTT-G
* * *
71887954 GTAATTTCACAAATCA
63 GTAATTTTACAAGTCG
** * *
71887970 AGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 AGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTTGGTAATTTTGTAAA-CGAGGGTA-TTTG
*
71888034 GTAATTTTCCAAGTCG
63 GTAATTTTACAAGTCG
*
71888050 AGGGCA-TTCATGTAATT
1 AGGGTATTTCA-GTAATT
71888067 GGTAAACTAC
Statistics
Matches: 144, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
79 2 0.01
80 47 0.33
81 44 0.31
82 51 0.35
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (78 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTGGTAATTTTGTAAACGAGGGTATTTGGTA
ATTTTACAAGTCG
Found at i:71887960 original size:54 final size:54
Alignment explanation
Indices: 71887862--71888041 Score: 220
Period size: 54 Copynumber: 3.3 Consensus size: 54
71887852 TGTAAATCGG
* ** * *
71887862 GGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAA-TTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATCAA
* * *
71887917 GGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATCAA
* ** *
71887971 GGGTATTTTGGTAATTTTACAAAC-CAGGGGTATTT-GGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTCGGTAATTTTACAAATCAA
71888024 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
71888042 CCAAGTCGAG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 33 0.30
54 64 0.59
55 12 0.11
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAATCAA
Found at i:71888053 original size:27 final size:27
Alignment explanation
Indices: 71887855--71888053 Score: 188
Period size: 27 Copynumber: 7.4 Consensus size: 27
71887845 GTAATTCTGT
* *
71887855 AAATCGGGGGTACTTTGGTAATTTTTAC
1 AAATCGAGGGTATTTTGGTAA-TTTTAC
* * **
71887883 AAGTTGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
71887910 AAATCGAGGGTATTTTAGTAATTTTGC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* *
71887937 AAA-CTGAGGGTATTTCGGTAATTTCAC
1 AAATC-GAGGGTATTTTGGTAATTTTAC
*
71887964 AAATCAAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
71887991 AAA-CCAGGGGTA-TTTGGTAATTTTGT
1 AAATCGA-GGGTATTTTGGTAATTTTAC
* * *
71888017 AAACCAAGGGTATTTTGGTAATTTTCC
1 AAATCGAGGGTATTTTGGTAATTTTAC
*
71888044 AAGTCGAGGG
1 AAATCGAGGG
71888054 CATTCATGTA
Statistics
Matches: 140, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
26 23 0.16
27 101 0.72
28 16 0.11
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:71888073 original size:53 final size:53
Alignment explanation
Indices: 71887916--71888041 Score: 137
Period size: 53 Copynumber: 2.4 Consensus size: 53
71887906 TTACAAATCG
* * * * *** *
71887916 AGGGTATTTTAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCAG-GGGCATTT-GGTAATTTGGTAAACCA
* *
71887970 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGCATTTGGTAATTTGGTAAACCA
71888023 AGGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTT
71888042 CCAAGTCGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
53 32 0.50
54 30 0.47
55 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGCATTTGGTAATTTGGTAAACCA
Found at i:71890346 original size:31 final size:31
Alignment explanation
Indices: 71890301--71890384 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
71890291 TTAGTCTTGA
*
71890301 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTAGGCCGAAGCCTTTCCATAAAT
* *
71890331 CATATCACTTGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTCCATAAAT
*
71890362 CATATCACTAAGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
71890385 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTCCATAAAT
Found at i:71890455 original size:42 final size:42
Alignment explanation
Indices: 71890408--71890541 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
71890398 TATCCCTTAG
*
71890408 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
71890450 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
71890492 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
71890534 GCCCATTT
1 GCCCATTT
71890542 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:71891713 original size:27 final size:27
Alignment explanation
Indices: 71891660--71891912 Score: 176
Period size: 27 Copynumber: 9.3 Consensus size: 27
71891650 TTTCATCCTA
* * *
71891660 CAAGGGTGTTTTGGT-ATATCTACAAAC
1 CAAGGGTATTTTGGTAAT-TTTATAAAC
*
71891687 CAAGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
71891714 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
71891743 TAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* *
71891770 C-AGGAGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTTGGTAATTTTATAAAC
** * * *
71891797 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
71891824 C-AGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
71891850 CTAGAGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
71891878 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
71891905 CGAGGGTA
1 CAAGGGTA
71891913 AAACAGTAAT
Statistics
Matches: 185, Mismatches: 31, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
26 7 0.04
27 140 0.76
28 24 0.13
29 14 0.08
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:71891833 original size:54 final size:53
Alignment explanation
Indices: 71891689--71891912 Score: 209
Period size: 54 Copynumber: 4.1 Consensus size: 53
71891679 CTACAAACCA
** * * * *
71891689 AGGGTATTTTAGTAATTTTATAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTTA
1 AGGGTATTTCGGTAATTTTATAAACC-AGGGTATTT-TGGTAA-TTTTACAAA-TTG
* * *
71891745 AGGGTATTTCTGTAATTTTGTAAATCAGGAGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTATAAACCAGG-GTATTTTGGTAATTTTACAAATTG
* * *
71891799 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTATAAACCAG-GGTATTTTGGTAATTTTACAAATTG
* * * * *
71891852 AGAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCG
1 AG-GGTATTTCGGTAATTTTATAAACC-AGGGTATTTTGGTAATTTTACAAATTG
71891907 AGGGTA
1 AGGGTA
71891913 AAACAGTAAT
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
53 2 0.01
54 91 0.65
55 16 0.11
56 31 0.22
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTATAAACCAGGGTATTTTGGTAATTTTACAAATTG
Found at i:71891920 original size:27 final size:27
Alignment explanation
Indices: 71891891--71892047 Score: 242
Period size: 27 Copynumber: 5.8 Consensus size: 27
71891881 GGGTATTTTA
* * *
71891891 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71891918 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71891945 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71891972 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71891999 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
71892026 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
71892048 CTTTGGTAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:71891922 original size:54 final size:53
Alignment explanation
Indices: 71891863--71892047 Score: 201
Period size: 54 Copynumber: 3.4 Consensus size: 53
71891853 GAGGTATTTT
* * * * *
71891863 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTA-TATAGTAATTCTATAAATCGAGGGTAAAAC
* * * * * *
71891917 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGT-ATATAGTAATTCTATAAATCGAGGGTAAAAC
* * *
71891971 GGTAATTCTATAAATCGAGGGTA-AAACGATAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTATATA-G-TAATTCTATAAATCGAGGGTAAAAC
71892025 GGTAATTCTGTAAATCGAGGGTA
1 GGTAATTCTGTAAATCGAGGGTA
71892048 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 106 0.96
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (53 bp):
GGTAATTCTGTAAATCGAGGGTATATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:71891947 original size:81 final size:81
Alignment explanation
Indices: 71891862--71892071 Score: 287
Period size: 81 Copynumber: 2.6 Consensus size: 81
71891852 AGAGGTATTT
* * * * *
71891862 TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAC-AGTAATTCT
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGA-TAATTCT
71891926 GTAAATCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* ** *
71891943 TGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTG
71892008 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
71892024 CGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGG
1 TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGG
71892072 ACATTTTAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 110 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTG
TAAATCGAGGGTAAAA
Found at i:71894186 original size:31 final size:31
Alignment explanation
Indices: 71894143--71894226 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
71894133 TTAGTCTTGA
71894143 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
71894173 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
71894204 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
71894227 ACTGTAAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:71894297 original size:42 final size:42
Alignment explanation
Indices: 71894250--71894341 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
71894240 TGGCCCTTAG
*
71894250 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
71894292 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
71894334 GCCCATTT
1 GCCCATTT
71894342 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:71894503 original size:24 final size:24
Alignment explanation
Indices: 71894476--71894534 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
71894466 TTGGAGGCCT
71894476 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
** *
71894500 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
71894525 AGCCCTTTTA
1 AGCCCTTTTA
71894535 GCACTTCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 19 0.66
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:71895490 original size:27 final size:27
Alignment explanation
Indices: 71895460--71895681 Score: 110
Period size: 27 Copynumber: 8.1 Consensus size: 27
71895450 GGTAAATCTA
71895460 TAAACCAAGGGTATTTCAGTAATTTTG
1 TAAACCAAGGGTATTTCAGTAATTTTG
* *
71895487 TAAATCAATGGTATTTCTA-TAATTTT-
1 TAAACCAAGGGTATTTC-AGTAATTTTG
** *
71895513 TAGAAAGATAAGGGTATTTCTGTAATTTTG
1 T--AAA-CCAAGGGTATTTCAGTAATTTTG
** ** *
71895543 TAAATTAAGGGTATTTTGGTAATTTTA
1 TAAACCAAGGGTATTTCAGTAATTTTG
* **** **
71895570 CAAATTGGGGGTATTTC-GATAATTTCA
1 TAAACCAAGGGTATTTCAG-TAATTTTG
* ** *
71895597 CAAACC-AGTGGTATTTTGGTAATTTTA
1 TAAACCAAG-GGTATTTCAGTAATTTTG
* * * **
71895624 CAAACTAGGGGTATTTTGGTAATTTTG
1 TAAACCAAGGGTATTTCAGTAATTTTG
* *
71895651 TAAACCAATGGTATTTTAGTAATTTTG
1 TAAACCAAGGGTATTTCAGTAATTTTG
71895678 TAAA
1 TAAA
71895682 TCGAGGATAA
Statistics
Matches: 157, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
26 3 0.02
27 127 0.81
28 9 0.06
29 17 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAACCAAGGGTATTTCAGTAATTTTG
Found at i:71895610 original size:54 final size:54
Alignment explanation
Indices: 71895552--71895676 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
71895542 GTAAATTAAG
* * *
71895552 GGTATTTTGGTAATTTTACAAATTGGGGGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAAT
* * ***
71895606 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAAT
*
71895660 GGTATTTTAGTAATTTT
1 GGTATTTTGGTAATTTT
71895677 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAAT
Found at i:71895664 original size:81 final size:83
Alignment explanation
Indices: 71895461--71895666 Score: 195
Period size: 81 Copynumber: 2.5 Consensus size: 83
71895451 GTAAATCTAT
* ** * * *
71895461 AAACCAAGGGTATTTCAGTAATTTTGTAAATCAATGGTATTTCTATAATTTTTAGAAAGATAAGG
1 AAACTAAGGGTATTTTGGTAATTTTGTAAATCAATGGTATTTCGATAATTTTCAGAAAGACAAGG
**
71895526 GTATTTCTGTAATTTTGT
66 GTATTTCTGTAATTTTAC
* ** **** * *
71895544 AAATTAAGGGTATTTTGGTAATTTTACAAATTGGGGGTATTTCGATAA-TTTCA-CAA-ACCAGT
1 AAACTAAGGGTATTTTGGTAATTTTGTAAATCAATGGTATTTCGATAATTTTCAGAAAGACAAG-
71895606 GGTATTT-TGGTAATTTTAC
65 GGTATTTCT-GTAATTTTAC
* *
71895625 AAACTAGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTT
1 AAACTAAGGGTATTTTGGTAATTTTGTAAATCAATGGTATTT
71895667 TAGTAATTTT
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
80 4 0.04
81 50 0.53
82 4 0.04
83 37 0.39
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (83 bp):
AAACTAAGGGTATTTTGGTAATTTTGTAAATCAATGGTATTTCGATAATTTTCAGAAAGACAAGG
GTATTTCTGTAATTTTAC
Found at i:71895699 original size:27 final size:27
Alignment explanation
Indices: 71895669--71895822 Score: 202
Period size: 27 Copynumber: 5.7 Consensus size: 27
71895659 TGGTATTTTA
* * *
71895669 GTAATTTTGTAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71895696 GTAATTCTGTAAATTC-AGGGTAAAACG
1 GTAATTCTATAAA-TCGAGGGTAAAACG
* ** *
71895723 ATAATTCTATAAATTAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
71895750 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71895777 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71895804 GTAATTCTGTAAATCGAGG
1 GTAATTCTATAAATCGAGG
71895823 ATACTTTGGT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.97
28 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:71895728 original size:81 final size:81
Alignment explanation
Indices: 71895643--71895816 Score: 197
Period size: 81 Copynumber: 2.1 Consensus size: 81
71895633 GGTATTTTGG
* * *** * * * *
71895643 TAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGATAAAACGGTAATTCTGTAA
1 TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAA
71895708 ATTC-AGGGTAAAACGA
66 A-TCGAGGGTAAAACGA
* ** * *
71895724 TAATTCTATAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAA
1 TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAA
*
71895789 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAACGA
71895805 TAATTCTGTAAA
1 TAATTCTGTAAA
71895817 TCGAGGATAC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (81 bp):
TAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGATAATTCTATAA
ATCGAGGGTAAAACGA
Found at i:71895833 original size:81 final size:81
Alignment explanation
Indices: 71895669--71895850 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
71895659 TGGTATTTTA
* * * *
71895669 GTAATTTTGTAAATCGAGGATAAAACGGTAATTCTGTAAATTCAGGGTAAAACGATAATTCTATA
1 GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATTCAGGGTAAAACGATAATTCTATA
* *
71895734 AATTAAGGGTAAAATG
66 AATCAAGGATAAAATG
* * *
71895750 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATTC-AGGGTAAAACGATAATTCTAT
* ***
71895814 AAATCGAGGATACTTTG
65 AAATCAAGGATAAAATG
* *
71895831 GTAATTCTACAAATTGAGGA
1 GTAATTCTATAAATCGAGGA
71895851 CATTTTAGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.02
81 82 0.98
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGATAAAACGATAATTCTATAAATTCAGGGTAAAACGATAATTCTATA
AATCAAGGATAAAATG
Done.