Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 214 of 333
Found at i:70446610 original size:15 final size:17
Alignment explanation
Indices: 70446589--70446629 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
70446579 TTTAAAATTT
70446589 TTAATATAAT-AATAAA
1 TTAATATAATAAATAAA
*
70446605 -TAATAT-TTAAATAAA
1 TTAATATAATAAATAAA
70446620 TTAATATAAT
1 TTAATATAAT
70446630 GATACAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.05
15 12 0.60
16 6 0.30
17 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAATATAATAAATAAA
Found at i:70449439 original size:22 final size:22
Alignment explanation
Indices: 70449396--70449440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
70449386 TCTGAGCTAA
* *
70449396 TGAACAGTAAGCTTTATTGAGC
1 TGAACAGTAAGCTTCATGGAGC
70449418 TGAACAGTAAG-TTCATAGGAGC
1 TGAACAGTAAGCTTCAT-GGAGC
70449440 T
1 T
70449441 AAAACGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (22 bp):
TGAACAGTAAGCTTCATGGAGC
Found at i:70449487 original size:24 final size:24
Alignment explanation
Indices: 70449376--70449489 Score: 76
Period size: 24 Copynumber: 4.8 Consensus size: 24
70449366 GCCATGATCG
*
70449376 GTAAGCTCCTTCTGAGCT-AATGAACA
1 GTAAGCT-CTTATGAGCTGAA--AACA
70449402 GTAAGCT-TTATTGAGCTG--AACA
1 GTAAGCTCTTA-TGAGCTGAAAACA
* * * *
70449424 GTAAGTTCATAGGAGCT-AAAACG
1 GTAAGCTCTTATGAGCTGAAAACA
** *
70449447 GTAAGCTCCAATTAGCTGAAAACA
1 GTAAGCTCTTATGAGCTGAAAACA
*
70449471 GTAAGCTCTTACGAGCTGA
1 GTAAGCTCTTATGAGCTGA
70449490 TATATCGGTA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
22 15 0.22
23 17 0.25
24 22 0.33
25 6 0.09
26 7 0.10
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTATGAGCTGAAAACA
Found at i:70457566 original size:47 final size:47
Alignment explanation
Indices: 70457497--70457588 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
70457487 TACTAAACCA
70457497 CTTACTCAAAGCAAACTAATTATAAAGATTATAAGCATCTTCTTCGC
1 CTTACTCAAAGCAAACTAATTATAAAGATTATAAGCATCTTCTTCGC
*
70457544 CTTACTCAAAGCAAACTGATTATAAAGATTATAAGCATCTTCTTC
1 CTTACTCAAAGCAAACTAATTATAAAGATTATAAGCATCTTCTTC
70457589 AGAATGCACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTACTCAAAGCAAACTAATTATAAAGATTATAAGCATCTTCTTCGC
Found at i:70466990 original size:46 final size:46
Alignment explanation
Indices: 70466923--70467016 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
70466913 AATGACTTAA
70466923 TTGATTTATACAAATCCAATCCAATCTTCAAATGCCAAGTACTGGT
1 TTGATTTATACAAATCCAATCCAATCTTCAAATGCCAAGTACTGGT
70466969 TTGATTTATACAAATCCAATCCAATCTTCAAATGCCAAGTACTGGT
1 TTGATTTATACAAATCCAATCCAATCTTCAAATGCCAAGTACTGGT
70467015 TT
1 TT
70467017 CCATAGATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (46 bp):
TTGATTTATACAAATCCAATCCAATCTTCAAATGCCAAGTACTGGT
Found at i:70467249 original size:18 final size:18
Alignment explanation
Indices: 70467226--70467261 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
70467216 AATGATTGTC
70467226 TTTAGTAGTTGTTTACGA
1 TTTAGTAGTTGTTTACGA
70467244 TTTAGTAGTTGTTTACGA
1 TTTAGTAGTTGTTTACGA
70467262 AACTCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
TTTAGTAGTTGTTTACGA
Found at i:70472839 original size:12 final size:13
Alignment explanation
Indices: 70472816--70472847 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
70472806 TATAATATTT
70472816 TAATAA-AATAAA
1 TAATAATAATAAA
70472828 TAA-AATAATAAA
1 TAATAATAATAAA
70472840 TAATAATA
1 TAATAATA
70472848 TTTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 12 0.67
13 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:70473128 original size:8 final size:7
Alignment explanation
Indices: 70473110--70473166 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
70473100 TTTTTATTAA
70473110 ATAAAAT
1 ATAAAAT
*
70473117 A-AAATT
1 ATAAAAT
70473123 ATAAAAACT
1 AT-AAAA-T
70473132 ATAAAAT
1 ATAAAAT
70473139 AT-AAAT
1 ATAAAAT
70473145 ATAAAACT
1 ATAAAA-T
70473153 AATAAAAT
1 -ATAAAAT
70473161 ATAAAA
1 ATAAAA
70473167 ATTTGTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 11 0.26
7 13 0.31
8 9 0.21
9 9 0.21
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAAAAT
Found at i:70473138 original size:22 final size:22
Alignment explanation
Indices: 70473109--70473165 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
70473099 ATTTTTATTA
70473109 AATAAAATA-AAATTATAAAAACT
1 AATAAAATATAAA-TAT-AAAACT
70473132 -ATAAAATATAAATATAAAACT
1 AATAAAATATAAATATAAAACT
70473153 AATAAAATATAAA
1 AATAAAATATAAA
70473166 AATTTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.19
22 23 0.72
23 3 0.09
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAAATATAAATATAAAACT
Found at i:70473168 original size:30 final size:29
Alignment explanation
Indices: 70473110--70473166 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
70473100 TTTTTATTAA
*
70473110 ATAAAATAAAATTATAAAAACTATAAAAT
1 ATAAAATAAAATAATAAAAACTATAAAAT
70473139 ATAAATATAAAACTAAT-AAAA-TATAAAA
1 ATAAA-ATAAAA-TAATAAAAACTATAAAA
70473167 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 12 0.48
30 10 0.40
31 3 0.12
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (29 bp):
ATAAAATAAAATAATAAAAACTATAAAAT
Found at i:70473558 original size:36 final size:36
Alignment explanation
Indices: 70473518--70473601 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 36
70473508 AAATAGTTGA
70473518 AAAATTAAATAAATGAAAAAGTTTC-TTTATAATTTT
1 AAAATTAAATAAATGAAAAAGTTTCTTTTA-AATTTT
* * *
70473554 AAAATATAAA-AAATTAACATGTTTCTTTTAAATTTT
1 AAAAT-TAAATAAATGAAAAAGTTTCTTTTAAATTTT
*
70473590 -TAA-TAAATAAAT
1 AAAATTAAATAAAT
70473602 AGTGAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
33 4 0.10
34 4 0.10
35 2 0.05
36 23 0.56
37 8 0.20
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (36 bp):
AAAATTAAATAAATGAAAAAGTTTCTTTTAAATTTT
Found at i:70475387 original size:48 final size:48
Alignment explanation
Indices: 70475305--70475470 Score: 199
Period size: 48 Copynumber: 3.5 Consensus size: 48
70475295 ATACTAAGGT
*
70475305 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
* * * * * * **
70475353 TATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCA-CTGGCCTCGA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-GACATTTA
* *
70475401 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGACATTTA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
* *
70475449 TATGAGAGCTACTGTAAGACCA
1 TATGAGAGCCAGTGTAAGACCA
70475471 CGTCCGGATT
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 93 0.99
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
Found at i:70475496 original size:96 final size:96
Alignment explanation
Indices: 70475305--70475478 Score: 296
Period size: 96 Copynumber: 1.8 Consensus size: 96
70475295 ATACTAAGGT
*
70475305 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTACTGTAA
* *
70475370 AACCATGTCTGGGACATGGCACTGGCCTCGA
66 AACCACGTCTCGGACATGGCACTGGCCTCGA
*
70475401 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGACATTTATATGAGAGCTACTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTACTGTAA
*
70475466 GACCACGTC-CGGA
66 AACCACGTCTCGGA
70475479 TTATGGCATC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
95 3 0.04
96 70 0.96
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTACTGTAA
AACCACGTCTCGGACATGGCACTGGCCTCGA
Found at i:70477946 original size:15 final size:16
Alignment explanation
Indices: 70477926--70477962 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
70477916 CAATTAAATC
*
70477926 ATAATAATTAT-TATT
1 ATAATAAATATCTATT
70477941 ATAATAAATATCTATT
1 ATAATAAATATCTATT
70477957 -TAATAA
1 ATAATAA
70477963 CAAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATAAATATCTATT
Found at i:70478098 original size:32 final size:33
Alignment explanation
Indices: 70478053--70478126 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
70478043 TTTATTTATC
70478053 ATAA-AAAA-ATC-TTTTACTAATTA-ATAGTAA
1 ATAATAAAATATCTTTTTACTAATTATATA-TAA
70478083 ATAATAAAATATCTTTTTACTAATTATATATAA
1 ATAATAAAATATCTTTTTACTAATTATATATAA
70478116 ATAATACAAAT
1 ATAATA-AAAT
70478127 GTACTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 3 0.08
33 21 0.54
34 7 0.18
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (33 bp):
ATAATAAAATATCTTTTTACTAATTATATATAA
Found at i:70480044 original size:14 final size:14
Alignment explanation
Indices: 70480008--70480046 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
70479998 TTGTTTCACT
*
70480008 GAAAATGACTTCCG
1 GAAAATGATTTCCG
*
70480022 GAAAATGATTTCTG
1 GAAAATGATTTCCG
70480036 GAAAATGATTT
1 GAAAATGATTT
70480047 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:70480518 original size:15 final size:15
Alignment explanation
Indices: 70480500--70480551 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
70480490 ATTACAAAAC
70480500 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
70480515 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
70480534 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
70480549 ATT
1 ATT
70480552 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:70480615 original size:16 final size:16
Alignment explanation
Indices: 70480584--70480620 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
70480574 ATGTGAATAA
70480584 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
70480600 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
70480616 TATTA
1 TATTA
70480621 AATAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:70480671 original size:22 final size:22
Alignment explanation
Indices: 70480631--70480686 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
70480621 AATAAAATTG
*
70480631 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
70480651 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
70480673 TATTAATAATTTAT
1 AAATAATAAATTAT
70480687 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:70484975 original size:40 final size:40
Alignment explanation
Indices: 70484916--70485063 Score: 260
Period size: 40 Copynumber: 3.7 Consensus size: 40
70484906 GAGCATTGGA
*
70484916 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
70484956 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
70484996 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
70485036 ATATATCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
70485064 ATGTGTTTGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:70487257 original size:48 final size:48
Alignment explanation
Indices: 70487182--70487407 Score: 166
Period size: 48 Copynumber: 4.8 Consensus size: 48
70487172 CACATAGTCG
* *** *
70487182 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCTAAACATGGTCTTACATGGGATCACATATT
* * * *
70487230 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATCGGATCATGCATATC
1 GATGCCAATGCCATGTCCTAAACATGGTCTTACATGGGATCA--CATATT
* ** * * *
70487280 GAAGCCGATAACCCA-G--CT----ATGGTCTTACACGATG-TCTCATATT
1 GATGCC-A-ATGCCATGTCCTAAACATGGTCTTACATG-GGATCACATATT
*
70487323 GATGCCAATGCCATGT-CTCAAACATGGTCTTACATGGGATCATAT-TT
1 GATGCCAATGCCATGTCCT-AAACATGGTCTTACATGGGATCACATATT
*
70487370 CGATGCCAATGCCATGTCCCAAACATGGTCTTACATGG
1 -GATGCCAATGCCATGTCCTAAACATGGTCTTACATGG
70487408 TTCATGCATA
Statistics
Matches: 141, Mismatches: 22, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
41 4 0.03
42 2 0.01
43 12 0.09
45 13 0.09
46 1 0.01
47 3 0.02
48 86 0.61
49 3 0.02
50 10 0.07
51 2 0.01
52 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCTAAACATGGTCTTACATGGGATCACATATT
Found at i:70492647 original size:26 final size:28
Alignment explanation
Indices: 70492597--70492694 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
70492587 GATTAAACTA
*
70492597 TAAAATATGAAAAATAAGGGCAAAAATG
1 TAAAATCTGAAAAATAAGGGCAAAAATG
* *
70492625 TAAAATCT-AAAAA-AAGGGTAAAACTG
1 TAAAATCTGAAAAATAAGGGCAAAAATG
* *
70492651 TAAAATTTGAAAAATATA-GGCAAAAGTG
1 TAAAATCTGAAAAATA-AGGGCAAAAATG
70492679 TAAAATCTGAAAAATA
1 TAAAATCTGAAAAATA
70492695 GAGGATACAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 18 0.30
27 10 0.17
28 31 0.52
29 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.21
Consensus pattern (28 bp):
TAAAATCTGAAAAATAAGGGCAAAAATG
Found at i:70493950 original size:27 final size:27
Alignment explanation
Indices: 70493920--70493974 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
70493910 AACCTAAGCT
70493920 CTCTAAAGAGGAACACTAACACTTAAC
1 CTCTAAAGAGGAACACTAACACTTAAC
70493947 CTCTAAAGAGGAACACTAACACTTAAC
1 CTCTAAAGAGGAACACTAACACTTAAC
70493974 C
1 C
70493975 ACTTAGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (27 bp):
CTCTAAAGAGGAACACTAACACTTAAC
Found at i:70494324 original size:21 final size:21
Alignment explanation
Indices: 70494283--70494324 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
70494273 ATTAATATAA
* *
70494283 TAATACTTGATTATATTATTT
1 TAATACTTAATTATATCATTT
70494304 TAATACTTCAATTATA-CATTT
1 TAATACTT-AATTATATCATTT
70494325 ATGACCTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATACTTAATTATATCATTT
Found at i:70497406 original size:65 final size:67
Alignment explanation
Indices: 70497302--70497428 Score: 213
Period size: 65 Copynumber: 1.9 Consensus size: 67
70497292 TATTTAACAA
* *
70497302 ATTTTTTTCTCTCATTTTTTCTCTTGCGAAACACCA-TTTT-TTCTTCAAAACACATGGTTGCTG
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGCTG
70497365 CC
66 CC
*
70497367 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTG
1 ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTG
70497429 GCTTATTTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 34 0.60
66 4 0.07
67 19 0.33
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.47
Consensus pattern (67 bp):
ATTTTTTTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGCTG
CC
Found at i:70497986 original size:36 final size:36
Alignment explanation
Indices: 70497939--70498011 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
70497929 TTTTATTTTA
70497939 TAAATTTCTCTTATTGGATTTGATGAAATATTGAAT
1 TAAATTTCTCTTATTGGATTTGATGAAATATTGAAT
70497975 TAAATTTCTCTTATTGGATTTGATGAAATATTGAAT
1 TAAATTTCTCTTATTGGATTTGATGAAATATTGAAT
70498011 T
1 T
70498012 TTTGAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (36 bp):
TAAATTTCTCTTATTGGATTTGATGAAATATTGAAT
Found at i:70504817 original size:19 final size:19
Alignment explanation
Indices: 70504793--70504831 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
70504783 AATATGTAAA
70504793 ATCACGTACAACACATGTG
1 ATCACGTACAACACATGTG
70504812 ATCACGTACAACACATGTG
1 ATCACGTACAACACATGTG
70504831 A
1 A
70504832 CATTAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (19 bp):
ATCACGTACAACACATGTG
Found at i:70505081 original size:12 final size:12
Alignment explanation
Indices: 70505064--70505094 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
70505054 TATTTTAAAC
70505064 CTCGAACTTGAA
1 CTCGAACTTGAA
70505076 CTCGAACTTGAA
1 CTCGAACTTGAA
70505088 CTCGAAC
1 CTCGAAC
70505095 ATCGAAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (12 bp):
CTCGAACTTGAA
Found at i:70505184 original size:13 final size:13
Alignment explanation
Indices: 70505147--70505187 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
70505137 TTCAAACCAT
*
70505147 AAAAACTAAACTC
1 AAAACCTAAACTC
*
70505160 CAAACCTCAAACTC
1 AAAACCT-AAACTC
70505174 AAAACCTAAACTC
1 AAAACCTAAACTC
70505187 A
1 A
70505188 TGACCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAACCTAAACTC
Found at i:70506291 original size:16 final size:16
Alignment explanation
Indices: 70506261--70506294 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
70506251 TTTAAAAATA
70506261 AAAATAAAATTTTTTT
1 AAAATAAAATTTTTTT
*
70506277 AAAA-AAAATTATTTT
1 AAAATAAAATTTTTTT
70506292 AAA
1 AAA
70506295 TAATTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATAAAATTTTTTT
Found at i:70510999 original size:48 final size:48
Alignment explanation
Indices: 70510944--70511257 Score: 325
Period size: 48 Copynumber: 6.5 Consensus size: 48
70510934 TGCACTAGTA
*
70510944 TAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * ** *
70510992 TAAGACCATGTTTGGAACATGGCATCGGTAATG-TAATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ATGAGAGCCAGTG
* * * *
70511040 TAAGACCATGTCTGGGACATGGCATCAG-CATTGATATGTA-CGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATG-AGAGCCAGTG
*
70511088 TAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGTG
* ** * * *
70511136 GAAGACCATGTCTGGGACATGGCATC-AACATTGAGAT-AGGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGA-GAGCCAGTG
* * * *
70511184 TAAGACCATGTCTAGGACATGGCATCGGCCTCGACATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* *
70511232 TAAGACCATGTTTGGAACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
70511258 AGCAATTCAC
Statistics
Matches: 221, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
47 7 0.03
48 208 0.94
49 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
Found at i:70511187 original size:144 final size:144
Alignment explanation
Indices: 70510927--70511260 Score: 415
Period size: 144 Copynumber: 2.3 Consensus size: 144
70510917 GACATTTGGG
* * * * *
70510927 TGATATGTGCACTAGTATAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTACGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTG
* * *** *
70510992 TAAGACCATGTTTGGAACATGGCATCGGTAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGA
66 GAAGACCATGTCTGGAACATGGCATCAACAATGTAATGAGAGCCAGTGTAAGACCATGTCTAGGA
70511057 CATGGCATCAGCAT
131 CATGGCATCAGCAT
70511071 TGATATGTACGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATGAGAGCCAGT
1 TGATATGTACGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCCAGT
* * *
70511135 GGAAGACCATGTCTGGGACATGGCATCAACATTG-AGAT-AGGAGCTAGTGTAAGACCATGTCTA
65 GGAAGACCATGTCTGGAACATGGCATCAACAATGTA-ATGA-GAGCCAGTGTAAGACCATGTCTA
* *
70511198 GGACATGGCATCGGCCT
128 GGACATGGCATCAGCAT
* * * * *
70511215 CGACATGTGA-GCCAGTGTAAGACCATGTTTGGAACATGGCATCAGC
1 TGATATGT-ACGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
70511261 AATTCACCCT
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
143 3 0.02
144 161 0.98
145 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (144 bp):
TGATATGTACGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTG
GAAGACCATGTCTGGAACATGGCATCAACAATGTAATGAGAGCCAGTGTAAGACCATGTCTAGGA
CATGGCATCAGCAT
Found at i:70518844 original size:96 final size:96
Alignment explanation
Indices: 70518704--70519026 Score: 348
Period size: 96 Copynumber: 3.4 Consensus size: 96
70518694 TGATATGTGT
* * * * *
70518704 GCTAGTCTAAGACCATGTTTGGGACATGGCATCAGCCA-TGATATGAGAGCCAGTGTAGGACCAT
1 GCTAGTGTAAGACCATGTTTGGGACATGACATC-GGCATTGATATGAGAGCTAGTGTAAGACCAT
* *
70518768 GTTTGGAACATGGCATCAACAATCTAATGAGA
65 GTCTGGGACATGGCATCAACAATCTAATGAGA
* * * * *
70518800 GCTAGTGTAAGATCATGTTTGGGACATGACATCGGCATTAATATGTGCGCTAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTTTGGGACATGACATCGGCATTGATATGAGAGCTAGTGTAAGACCATG
*
70518865 TCTGGGACATGGCATCGACCACAT-T-ATGAGA
66 TCTGGGACATGGCATC-AACA-ATCTAATGAGA
* * * * *
70518896 GCCAGTGTAAGACTATGGTTGGGACATGACATTGGCATTGAGATGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTTTGGGACATGACATCGGCATTGATATGAGAGCTAGTGTAAGACCATG
** * * * *
70518961 TCTGGGACATGGCATCGGC-CTCGACCTGTGA
66 TCTGGGACATGGCATCAACAATCTA-ATGAGA
* *
70518992 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GCTAGTGTAAGACCATGTTTGGGACATGACATCGG
70519027 TAATTCACCC
Statistics
Matches: 186, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
93 1 0.01
95 4 0.02
96 175 0.94
97 4 0.02
98 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTTTGGGACATGACATCGGCATTGATATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCAACAATCTAATGAGA
Found at i:70518873 original size:144 final size:144
Alignment explanation
Indices: 70518696--70519025 Score: 389
Period size: 144 Copynumber: 2.3 Consensus size: 144
70518686 CATTTGGGTG
* * *
70518696 ATATGTGTGCTAGTCTAAGACCATGTTTGGGACATGGCATC-AGC-CATGATATGAGAGCCAGTG
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACAT--TATGAGAGCCAGTG
* * * * *
70518759 TAGGACCATGTTTGGAACATGGCATCAACAATCT-A-ATGAGAGCTAGTGTAAGATCATGTTTGG
64 TAAGACCATGGTTGGAACATGACATCAAC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTGG
*
70518822 GACATGACATCGGCATTA
127 GACATGACATCGGCATCA
* * *
70518840 ATATGTGCGCTAGTGTAAAACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTA
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTA
* * ***
70518905 AGACTATGGTTGGGACATGACATTGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACA
66 AGACCATGGTTGGAACATGACATCAACATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACA
* * *
70518970 TGGCATCGGCCTCG
131 TGACATCGGCATCA
** *
70518984 ACCTGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCG
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
70519026 GTAATTCACC
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 148 0.94
145 2 0.01
146 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTA
AGACCATGGTTGGAACATGACATCAACATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACA
TGACATCGGCATCA
Found at i:70519026 original size:48 final size:48
Alignment explanation
Indices: 70518695--70519026 Score: 312
Period size: 48 Copynumber: 6.9 Consensus size: 48
70518685 ACATTTGGGT
* * * *
70518695 GATATGTGTGCTAGTCTAAGACCATGTTTGGGACATGGCATCAGCCAT-
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GGCATC
* * * **
70518743 GATATGAGAGCCAGTGTAGGACCATGTTTGGAACATGGCATCAACAATC
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATC
* * * *
70518792 TA-ATGAGAGCTAGTGTAAGATCATGTTTGGGACATGACATCGGCATT
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
* * * * * *
70518839 AATATGTGCGCTAGTGTAAAACCATGTCTGGGACATGGCATCGACCA-C
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG-GCATC
* * * * * *
70518887 -ATTATGAGAGCCAGTGTAAGACTATGGTTGGGACATGACATTGGCATT
1 GA-TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
* * *
70518935 GAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
** * *
70518983 GACCTGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG
70519027 TAATTCACCC
Statistics
Matches: 226, Mismatches: 51, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
47 7 0.03
48 215 0.95
49 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
Found at i:70519700 original size:35 final size:35
Alignment explanation
Indices: 70519660--70519743 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
70519650 GGCGATGGTA
* * *
70519660 AGGTCCTTCGGGGTGACACCATTAAAATGATTATT
1 AGGTCCTTTGGGGTGACACCATGAAAACGATTATT
* * **
70519695 AGGTCCTTTAGGGTGATACTGTGAAAACGATTATT
1 AGGTCCTTTGGGGTGACACCATGAAAACGATTATT
70519730 AGGTCCTTTGGGGT
1 AGGTCCTTTGGGGT
70519744 AAGGCCTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (35 bp):
AGGTCCTTTGGGGTGACACCATGAAAACGATTATT
Found at i:70519861 original size:64 final size:67
Alignment explanation
Indices: 70519793--70519922 Score: 169
Period size: 68 Copynumber: 2.0 Consensus size: 67
70519783 GACGGTGGCC
* * * *
70519793 ACCAATAGAGTCCG-TG-ACATTAAACATGGGGTTAT-ACGATGT-AATCTATAGCTCGGCTATG
1 ACCAACAGAGTCCGCAGAACATTAAACATGGGCTTATAACGA-GTAAAACTATAGCTCGGCTATG
70519854 GAA
65 GAA
*
70519857 ACCAACAGAGTCCGCCAGAACATTAAACATGGGCTTATAAGGAGTAAAACTATAGCTCGGCTATG
1 ACCAACAGAGTCCG-CAGAACATTAAACATGGGCTTATAACGAGTAAAACTATAGCTCGGCTATG
70519922 G
65 G
70519923 CATCAGGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
64 13 0.23
66 1 0.02
67 20 0.36
68 22 0.39
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (67 bp):
ACCAACAGAGTCCGCAGAACATTAAACATGGGCTTATAACGAGTAAAACTATAGCTCGGCTATGG
AA
Found at i:70521532 original size:11 final size:11
Alignment explanation
Indices: 70521516--70521591 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
70521506 GAAAATCACT
70521516 TTAATATTAAA
1 TTAATATTAAA
70521527 TTAATA--AAA
1 TTAATATTAAA
*
70521536 -TACTATTAATA
1 TTAATATTAA-A
*
70521547 TAAATATTAAA
1 TTAATATTAAA
70521558 TTTAAT-TTAATA
1 -TTAATATTAA-A
70521570 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
70521583 ATAATATTA
1 TTAATATTA
70521592 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 16 0.31
13 3 0.06
14 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:70523322 original size:21 final size:21
Alignment explanation
Indices: 70523298--70523346 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
70523288 TAATACATGG
*
70523298 TATCGATACCTTATTTAAAAA
1 TATCGATACCTTAGTTAAAAA
*
70523319 TATCGATA-ATTAGTTAAAAA
1 TATCGATACCTTAGTTAAAAA
70523339 T-T-GATACC
1 TATCGATACC
70523347 ATTTTGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 11 0.46
21 8 0.33
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (21 bp):
TATCGATACCTTAGTTAAAAA
Found at i:70530190 original size:27 final size:26
Alignment explanation
Indices: 70530155--70530266 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
70530145 AGCATGGCTG
* *
70530155 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
70530181 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
70530209 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
70530236 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
70530263 CCAG
1 CCAG
70530267 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:70530247 original size:54 final size:54
Alignment explanation
Indices: 70530155--70530266 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
70530145 AGCATGGCTG
* *
70530155 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
70530209 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
70530263 CCAG
1 CCAG
70530267 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:70530300 original size:17 final size:17
Alignment explanation
Indices: 70530278--70530312 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
70530268 ACGCTTCCTC
70530278 CAAAATATAACCCATGT
1 CAAAATATAACCCATGT
70530295 CAAAATATAACCCATGT
1 CAAAATATAACCCATGT
70530312 C
1 C
70530313 CCCATGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (17 bp):
CAAAATATAACCCATGT
Found at i:70534384 original size:20 final size:21
Alignment explanation
Indices: 70534347--70534386 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
70534337 ACACGGTATT
* *
70534347 GATACCTTATTTACAAATATC
1 GATACCTTAGTTAAAAATATC
70534368 GATA-CTTAGTTAAAAATAT
1 GATACCTTAGTTAAAAATAT
70534387 ATACCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
GATACCTTAGTTAAAAATATC
Found at i:70536662 original size:40 final size:40
Alignment explanation
Indices: 70536601--70536688 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
70536591 ACAATTTTAA
*
70536601 AATCAAGTTAGAATAAGTTTAAC-CAAGTCAAAATGA-TTTC
1 AATCAAGTTAAAATAAGTTTAACAC-A-TCAAAATGATTTTC
* *
70536641 AATCAAGTTAAAATCATTTTAACACATCAAAATGATTTTC
1 AATCAAGTTAAAATAAGTTTAACACATCAAAATGATTTTC
*
70536681 AAACAAGT
1 AATCAAGT
70536689 CATAATTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 9 0.21
40 32 0.76
41 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (40 bp):
AATCAAGTTAAAATAAGTTTAACACATCAAAATGATTTTC
Found at i:70536678 original size:19 final size:20
Alignment explanation
Indices: 70536618--70536690 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
70536608 TTAGAATAAG
*
70536618 TTTAACCAAGTCAAAATGAT
1 TTTAATCAAGTCAAAATGAT
* * *
70536638 TTCAATCAAGTTAAAATCAT
1 TTTAATCAAGTCAAAATGAT
70536658 TTTAA-CACA-TCAAAATGAT
1 TTTAATCA-AGTCAAAATGAT
*
70536677 TTTCAAACAAGTCA
1 TTT-AATCAAGTCA
70536691 TAATTGTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 13 0.31
20 24 0.57
21 5 0.12
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (20 bp):
TTTAATCAAGTCAAAATGAT
Found at i:70536810 original size:33 final size:33
Alignment explanation
Indices: 70536746--70536813 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
70536736 GATAATTTTG
*
70536746 AAATTATCAATACCCTTAGAAAAACTGAGACCA
1 AAATTATCAATACCCTTAGAAAAACTAAGACCA
*
70536779 AAATTATCGATACCCTTAGAAAAA-TCAAGACCA
1 AAATTATCAATACCCTTAGAAAAACT-AAGACCA
70536812 AA
1 AA
70536814 CTTGTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.21
Consensus pattern (33 bp):
AAATTATCAATACCCTTAGAAAAACTAAGACCA
Found at i:70536907 original size:22 final size:20
Alignment explanation
Indices: 70536867--70536907 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
70536857 TTTTTAAGGT
*
70536867 ATCGATATTTTCTAAAAATA
1 ATCGATATTTCCTAAAAATA
70536887 ATCGATACTTTCCTTAAAAAT
1 ATCGATA-TTTCC-TAAAAAT
70536908 GATACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (20 bp):
ATCGATATTTCCTAAAAATA
Found at i:70539360 original size:42 final size:42
Alignment explanation
Indices: 70539267--70539360 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
70539257 CATGTGTCTA
* * **
70539267 AGCCATGTCTGACACACGGTCAGCCCTATGGGTGTGTTGCCC
1 AGCCATGTGTGACACACGGTCAACCCTATGGGCATGTTGCCC
*
70539309 GGCCATGTGTGACACACGGTCAACCCTATGGGCATGTTGCCC
1 AGCCATGTGTGACACACGGTCAACCCTATGGGCATGTTGCCC
*
70539351 AGCCGTGTGT
1 AGCCATGTGT
70539361 CTCTGCACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (42 bp):
AGCCATGTGTGACACACGGTCAACCCTATGGGCATGTTGCCC
Found at i:70539569 original size:28 final size:28
Alignment explanation
Indices: 70539529--70539584 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
70539519 GCGATAACAT
* *
70539529 GGGCGTGTTTAGGCCATGTGAGGGACAC
1 GGGCGTGTCTAGGCCATGTGAGAGACAC
70539557 GGGCGTGTCTAGGCCATGTGAGAGACAC
1 GGGCGTGTCTAGGCCATGTGAGAGACAC
70539585 AGGCCAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (28 bp):
GGGCGTGTCTAGGCCATGTGAGAGACAC
Found at i:70545285 original size:16 final size:17
Alignment explanation
Indices: 70545254--70545286 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
70545244 ATTAGTGCGT
*
70545254 TAAAATTTTTATATAAA
1 TAAAATTTTAATATAAA
70545271 TAAAA-TTTAATATAAA
1 TAAAATTTTAATATAAA
70545287 AATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTTAATATAAA
Found at i:70545289 original size:18 final size:17
Alignment explanation
Indices: 70545254--70545296 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
70545244 ATTAGTGCGT
* *
70545254 TAAAATTTTTATATAAA
1 TAAAATTTATATAAAAA
70545271 TAAAATTTAATATAAAAA
1 TAAAATTT-ATATAAAAA
*
70545289 TTAAATTT
1 TAAAATTT
70545297 GACTTAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAAAA
Found at i:70545815 original size:19 final size:21
Alignment explanation
Indices: 70545774--70545815 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
70545764 AATTTTATTA
* *
70545774 AAAAAAAATATGTGTTTACTT
1 AAAAAAAATATGTGTTGAATT
70545795 AAAAAAAAT-TGT-TTGAATT
1 AAAAAAAATATGTGTTGAATT
70545814 AA
1 AA
70545816 TTTAAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (21 bp):
AAAAAAAATATGTGTTGAATT
Found at i:70552186 original size:20 final size:19
Alignment explanation
Indices: 70552145--70552188 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
70552135 ATTTTTTTTA
* **
70552145 AAAATTTAATAATAATTTT
1 AAAATTTAATAAAAATCAT
70552164 AAAATTTAATAAAAAATCAT
1 AAAATTTAAT-AAAAATCAT
70552184 AAAAT
1 AAAAT
70552189 AAATATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTTAATAAAAATCAT
Found at i:70552242 original size:24 final size:23
Alignment explanation
Indices: 70552215--70552271 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
70552205 AAATTATGTT
*
70552215 AATATATATTTTTAAAAAATTATA
1 AATATATATTTCTAAAAAATTA-A
* * *
70552239 AATAAAATAGTTCTAAAAATTTAA
1 AAT-ATATATTTCTAAAAAATTAA
70552263 AATATATAT
1 AATATATAT
70552272 GTAAAAAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 15 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATATATTTCTAAAAAATTAA
Found at i:70562599 original size:47 final size:47
Alignment explanation
Indices: 70562536--70562838 Score: 407
Period size: 47 Copynumber: 6.4 Consensus size: 47
70562526 CCCTTCGGGA
* * *
70562536 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
70562583 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
70562630 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
70562677 CTTAT-ACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
70562723 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
70562770 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
70562819 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
70562839 GTACATCAAT
Statistics
Matches: 235, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.18
47 152 0.65
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:70562742 original size:93 final size:93
Alignment explanation
Indices: 70562557--70562827 Score: 382
Period size: 93 Copynumber: 2.9 Consensus size: 93
70562547 TATACACTTC
* *
70562557 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACA-TTTCACATTCATCACATTGGC
* * **
70562622 CATTCGGCCTTATCTCATATATGCATGTT
65 CATTCGGCCTTATCACACATACACATGTT
* *
70562651 CACATTCATCACATTGGCCATTCGACCTTAT-ACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAT-TTCACATTCATCACATTGGC
70562715 CATTCGGCCTTATCACACATACACATGTT
65 CATTCGGCCTTATCACACATACACATGTT
* *
70562744 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCA--CACATATACA-TTTCACATTCATCACATTG
* *
70562809 GCCACTCGGCCCTATCACA
63 GCCATTCGGCCTTATCACA
70562828 TATATATACT
Statistics
Matches: 158, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
92 1 0.01
93 84 0.53
94 30 0.19
96 42 0.27
97 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.31
Consensus pattern (93 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATTTCACATTCATCACATTGGCC
ATTCGGCCTTATCACACATACACATGTT
Found at i:70562750 original size:140 final size:140
Alignment explanation
Indices: 70562557--70562829 Score: 408
Period size: 140 Copynumber: 1.9 Consensus size: 140
70562547 TATACACTTC
* *
70562557 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATCCATCACATTGGCCATTCGGCCTTATCACACATACACACTTTCACATTCATCACATTGGC
* * * *
70562622 CATTCGGCCTTAT-CTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGACCTTATACA
66 CATTCGGCCTTATACGCATATATACACT-TTCACATTCATCACATTGGCCACTCGACCCTAT-CA
70562685 CATACACATGTT
129 CATACACATGTT
*
70562697 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
1 CACATCCATCACATTGGCCATTCGGCCTTATCACACATACACACT-TTCACATTCATCACATTGG
* *
70562761 CCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGCCCTATCA
65 CCATTCGGCCTTAT-ACGCATATATACACTTTCACATTCATCACATTGGCCACTCGACCCTATCA
70562826 CATA
129 CATA
70562830 TATATACTTG
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
139 1 0.01
140 73 0.61
141 6 0.05
142 39 0.32
143 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (140 bp):
CACATCCATCACATTGGCCATTCGGCCTTATCACACATACACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATACGCATATATACACTTTCACATTCATCACATTGGCCACTCGACCCTATCACA
TACACATGTT
Found at i:70566495 original size:15 final size:15
Alignment explanation
Indices: 70566477--70566520 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
70566467 GAAGCCCAGA
70566477 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
70566492 ATAAATAAATCCATG
1 ATAAAGAAATCCAAG
70566507 AT-AAGTAAATCCAA
1 ATAAAG-AAATCCAA
70566521 ATTACAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:70572044 original size:21 final size:21
Alignment explanation
Indices: 70572020--70572089 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
70572010 CACATACATC
70572020 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * * *
70572041 ATGAGTTCAAATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
70572065 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
70572086 ATGA
1 ATGA
70572090 GTTCAAATGA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 4 0.12
23 4 0.12
24 9 0.26
25 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:70572057 original size:45 final size:45
Alignment explanation
Indices: 70572007--70572098 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
70571997 CCAAAACATG
70572007 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
*
70572052 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
70572097 TG
1 TG
70572099 ACATAATTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:70578861 original size:28 final size:28
Alignment explanation
Indices: 70578790--70578852 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
70578780 TCGATATTTT
* *
70578790 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGAGCCATTCTCAATATCTC
* *
70578818 GCATACTAAGAGCCATTCTCAATATTTC
1 GCACACTAAGAGCCATTCTCAATATCTC
*
70578846 GTACACT
1 GCACACT
70578853 GAGTACCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGAGCCATTCTCAATATCTC
Found at i:70583837 original size:28 final size:28
Alignment explanation
Indices: 70583803--70583984 Score: 170
Period size: 28 Copynumber: 6.4 Consensus size: 28
70583793 AACCGATCTT
*
70583803 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** *
70583831 GCACACACAGTGCCTCAACAAC-CAATCTC
1 GCACACACAGTG-CTCGGTTACGGAA-CTC
70583860 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
70583888 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
* **** * *
70583916 ACACACACAGTGCCTCAACAATC-GATCTT
1 GCACACACAGTG-CTCGGTTA-CGGAACTC
* *
70583945 GCACACACAGTGCTCGATTAAGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
*
70583973 ACACACACAGTG
1 GCACACACAGTG
70583985 TCTATGTTCA
Statistics
Matches: 122, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 81 0.66
29 40 0.33
30 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:70583864 original size:57 final size:57
Alignment explanation
Indices: 70583773--70583900 Score: 202
Period size: 57 Copynumber: 2.2 Consensus size: 57
70583763 GATCTCATTT
* * *
70583773 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCCCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
70583832 CACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCCCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAACTCG
70583889 CACACACAGTGC
1 CACACACAGTGC
70583901 TCGGTTACGG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
57 58 0.89
59 7 0.11
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCCCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:70583921 original size:85 final size:85
Alignment explanation
Indices: 70583803--70583984 Score: 292
Period size: 85 Copynumber: 2.1 Consensus size: 85
70583793 AACCGATCTT
* *
70583803 GCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCTCAACAACCAATCTCGCACACAC
1 GCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCTCAACAACCAATCTCGCACACAC
* *
70583868 AGTGCTCGGTTACGGAACTC
66 AGTGCTCGATTAAGGAACTC
* * *
70583888 GCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCTCAACAATCGATCTTGCACACAC
1 GCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCTCAACAACCAATCTCGCACACAC
70583953 AGTGCTCGATTAAGGAACTC
66 AGTGCTCGATTAAGGAACTC
*
70583973 ACACACACAGTG
1 GCACACACAGTG
70583985 TCTATGTTCA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (85 bp):
GCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCTCAACAACCAATCTCGCACACAC
AGTGCTCGATTAAGGAACTC
Found at i:70586026 original size:28 final size:28
Alignment explanation
Indices: 70585958--70586027 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
70585948 GAATCATTCG
* * *
70585958 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGAGCCATTCTCA
* *
70585986 ATATCTCACACACTAAGAGCCATTCTCA
1 ATATTTCGCACACTAAGAGCCATTCTCA
*
70586014 ATATTTCGTACACT
1 ATATTTCGCACACT
70586028 GAGTACAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGAGCCATTCTCA
Found at i:70587934 original size:39 final size:40
Alignment explanation
Indices: 70587730--70587952 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
70587720 TTGAATGCTG
* * * * * *
70587730 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
70587770 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
70587810 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
70587850 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
70587890 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
70587929 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
70587953 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:70587972 original size:79 final size:80
Alignment explanation
Indices: 70587805--70587987 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
70587795 GTGCGAGATA
* * *
70587805 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
70587870 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
70587885 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
70587949 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
70587964 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
70587988 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:70611521 original size:23 final size:23
Alignment explanation
Indices: 70611484--70611551 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 23
70611474 CCCCTAGTTC
* *
70611484 GCAACTTAACAGGCGAACAATTT
1 GCAACTAAACTGGCGAACAATTT
*
70611507 GCAACTAAACTGGCGAAACCCAGTTT
1 GCAACTAAACTGGCG-AA--CAATTT
70611533 GCAACTAAACTGGCGAACA
1 GCAACTAAACTGGCGAACA
70611552 TTCAGCTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 15 0.38
24 2 0.05
25 2 0.05
26 20 0.51
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (23 bp):
GCAACTAAACTGGCGAACAATTT
Found at i:70613743 original size:3 final size:3
Alignment explanation
Indices: 70613735--70613762 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
70613725 AAATATATAT
70613735 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
70613763 AAAGCAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:70613934 original size:27 final size:28
Alignment explanation
Indices: 70613879--70613934 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
70613869 TCTTGCATAG
**
70613879 ATCTTAATCAATATATAATATTTTATTT
1 ATCTTAAAAAATATATAATATTTTATTT
*
70613907 ATCTTAAAAAATATA-AATATTTTTTTT
1 ATCTTAAAAAATATATAATATTTTATTT
70613934 A
1 A
70613935 AAAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
ATCTTAAAAAATATATAATATTTTATTT
Found at i:70613989 original size:22 final size:19
Alignment explanation
Indices: 70613949--70613988 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
70613939 TTTTTAAAAA
*
70613949 GAAGGAAATTGCATTTGAT
1 GAAGAAAATTGCATTTGAT
70613968 GAAGAAAATTGCATTTGAT
1 GAAGAAAATTGCATTTGAT
70613987 GA
1 GA
70613989 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (19 bp):
GAAGAAAATTGCATTTGAT
Found at i:70615331 original size:21 final size:21
Alignment explanation
Indices: 70615307--70615349 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
70615297 ATCAAATATA
70615307 CATACCATATCATACATCCAT
1 CATACCATATCATACATCCAT
70615328 CATACCATATCATACATCCAT
1 CATACCATATCATACATCCAT
70615349 C
1 C
70615350 GATATCAAGC
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:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (21 bp):
CATACCATATCATACATCCAT
Found at i:70620251 original size:49 final size:47
Alignment explanation
Indices: 70620191--70620549 Score: 547
Period size: 47 Copynumber: 7.6 Consensus size: 47
70620181 GATAATTGTG
* *
70620191 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
70620238 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70620285 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
70620334 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
70620383 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
70620430 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
70620477 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
70620524 CTGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
70620550 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 194 0.67
49 94 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:70622848 original size:40 final size:40
Alignment explanation
Indices: 70622538--70622919 Score: 384
Period size: 40 Copynumber: 9.6 Consensus size: 40
70622528 TCGAATGATG
* *
70622538 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
70622578 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
70622617 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
70622657 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
70622697 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
70622737 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
70622777 TCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
70622817 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
70622857 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
70622897 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
70622920 ATCATGCTGG
Statistics
Matches: 299, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.12
40 244 0.82
41 20 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:70629629 original size:122 final size:122
Alignment explanation
Indices: 70629400--70629642 Score: 380
Period size: 122 Copynumber: 2.0 Consensus size: 122
70629390 GGCGTGTGGC
* * * * *
70629400 ACGCCCATTTCTAGCACCTGTGGACGACACGAGCAAAATAACACGAGCGTGTGCAGAGGTGCACG
1 ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
* *
70629465 ACCGTGGGAGAAGGAAACCGCGCCAGACACTGTCGTGCGACACGATCATGTAGCCAT
66 ACCGTGGGAGAAGGAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCAT
* *
70629522 ACGCCCATGTCTAGCACCCGTTGACGACACGATCAAAATAACACGAGCATGTACAGAGGTACACG
1 ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
*
70629587 ACCGTGGGAGAAGCG-AACCGCGCCAGACACGGCCGTGTGACACGATCATGTAGCCA
66 ACCGTGGGAGAAG-GAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCA
70629643 CATGGCCTAG
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 109 0.99
123 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.28, T:0.14
Consensus pattern (122 bp):
ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
ACCGTGGGAGAAGGAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCAT
Found at i:70631586 original size:13 final size:13
Alignment explanation
Indices: 70631568--70631594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70631558 GAAGTAATCG
70631568 CACACGGGCGTGT
1 CACACGGGCGTGT
70631581 CACACGGGCGTGT
1 CACACGGGCGTGT
70631594 C
1 C
70631595 CTTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:70634143 original size:32 final size:32
Alignment explanation
Indices: 70634073--70634144 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
70634063 ACCACAATAT
* *
70634073 CATTCACACTTACGAGTTACCATCAGGCATAG
1 CATTCATACTTACAAGTTACCATCAGGCATAG
70634105 CATTCATACTTACAAGTTACCATCAGGCATAG
1 CATTCATACTTACAAGTTACCATCAGGCATAG
70634137 CATTCATA
1 CATTCATA
70634145 ATAATGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (32 bp):
CATTCATACTTACAAGTTACCATCAGGCATAG
Found at i:70638441 original size:20 final size:20
Alignment explanation
Indices: 70638408--70638454 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
70638398 AAATCTGTTT
* *
70638408 AGGGGTACCAAAGTACAAAC
1 AGGGGCACCAAAGTAAAAAC
*
70638428 AGGGGCACCGAAGTAAAAAC
1 AGGGGCACCAAAGTAAAAAC
70638448 AGGGGCA
1 AGGGGCA
70638455 AGTGTGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.32, T:0.06
Consensus pattern (20 bp):
AGGGGCACCAAAGTAAAAAC
Found at i:70638467 original size:40 final size:40
Alignment explanation
Indices: 70638423--70638508 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
70638413 TACCAAAGTA
* * * *
70638423 CAAACAGGGGCACCGAAGTAAAAACAGGGGCAAGTGTGTG
1 CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
* * *
70638463 CAAACAGGAGTACCAAAGTACAAACAGGGACACGTATGTG
1 CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
70638503 CAAACA
1 CAAACA
70638509 TTCAGTAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (40 bp):
CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
Found at i:70643241 original size:25 final size:24
Alignment explanation
Indices: 70643179--70643250 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
70643169 AGCTTATTAC
*
70643179 TTTCAGCTCATGAGAGCTTACTGA
1 TTTCAGCTCATGAGAGCTTACCGA
*
70643203 TTTTAGCTCATGAGAGCTTACCGA
1 TTTCAGCTCATGAGAGCTTACCGA
*
70643227 TTCTCAGCTCATGAGAGCATACCG
1 TT-TCAGCTCATGAGAGCTTACCG
70643251 GTTCATAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (24 bp):
TTTCAGCTCATGAGAGCTTACCGA
Found at i:70643260 original size:25 final size:24
Alignment explanation
Indices: 70643183--70643261 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 24
70643173 TATTACTTTC
* *
70643183 AGCTCATGAGAGCTTACTGATTTT
1 AGCTCATGAGAGCTTACCGATTCT
70643207 AGCTCATGAGAGCTTACCGATTCT
1 AGCTCATGAGAGCTTACCGATTCT
* *
70643231 CAGCTCATGAGAGCATACCGGTTCAT
1 -AGCTCATGAGAGCTTACCGATTC-T
70643257 AGCTC
1 AGCTC
70643262 GTATGAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 22 0.45
25 26 0.53
26 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCTCATGAGAGCTTACCGATTCT
Found at i:70645758 original size:50 final size:50
Alignment explanation
Indices: 70645704--70645982 Score: 326
Period size: 50 Copynumber: 5.5 Consensus size: 50
70645694 CTGGTATGCA
* * *
70645704 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
70645754 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * ** *
70645804 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCT-GGTACACG
* * *
70645855 TAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *** *
70645905 TAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCTGGTACACG
*
70645957 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
70645983 TGTGTTCTCA
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
50 118 0.61
51 39 0.20
52 35 0.18
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:70645888 original size:101 final size:99
Alignment explanation
Indices: 70645704--70645937 Score: 310
Period size: 101 Copynumber: 2.3 Consensus size: 99
70645694 CTGGTATGCA
* * *
70645704 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCTGGTACA-GTAGTAGCCTGCACTT
* * *
70645769 AGTACTACACACGTGACCTAACCATCTGATACACG
65 AGTACTAAACACGCGACCTAACAATCTGATACACG
* *
70645804 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGGGTATGCA-TAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAATCT-GGTA--CAGTAGTAGCCTGCA
* *
70645867 CTTAGTACTAAACATGCGACCTAACAATCTGGTACACG
62 CTTAGTACTAAACACGCGACCTAACAATCTGATACACG
*
70645905 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
70645938 TAAAACCATC
Statistics
Matches: 118, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
100 33 0.28
101 83 0.70
103 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCTGGTACAGTAGTAGCCTGCACTTA
GTACTAAACACGCGACCTAACAATCTGATACACG
Found at i:70645932 original size:151 final size:152
Alignment explanation
Indices: 70645696--70645982 Score: 495
Period size: 151 Copynumber: 1.9 Consensus size: 152
70645686 AAAGCTCTCT
* *
70645696 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACACGTAGTAGC
* * * *
70645761 CTGCACTTAGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
66 CTACACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACT
70645825 ACACACGTGATCGAAGCTATTG
131 ACACACGTGATCGAAGCTATTG
70645847 GGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACACGTAGTAGC
*
70645912 CTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTAC
66 CTACACTTAGTACTACACACGTGACCT-AAACCATCTGAAACACATAGTAGCCTGCACATAGTAC
70645977 TACACA
130 TACACA
70645983 TGTGTTCTCA
Statistics
Matches: 127, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
151 89 0.70
153 38 0.30
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (152 bp):
GGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACACGTAGTAGC
CTACACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACT
ACACACGTGATCGAAGCTATTG
Found at i:70646151 original size:13 final size:14
Alignment explanation
Indices: 70646133--70646166 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
70646123 CACTTCTCAT
*
70646133 ATAATAACA-AAAG
1 ATAATAACATAAAA
70646146 ATAATAACATAAAA
1 ATAATAACATAAAA
70646160 ATAATAA
1 ATAATAA
70646167 TTGATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (14 bp):
ATAATAACATAAAA
Found at i:70649284 original size:43 final size:42
Alignment explanation
Indices: 70649221--70649378 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
70649211 TATGTGTTTT
*
70649221 TGTGTAAGACCATGTTTGGGACGTTGGCATCGATTATGATTAA
1 TGTGTAAGACCATGTCTGGGACGTTGGCATCGATT-TGATTAA
* **
70649264 TGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATT--
1 TGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGATTAA
* *
70649305 TGATGTAAGACCCTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TG-TGTAAGACCATGTCTGGGAC-GTTGGCATCG--ATTTGATTA-A
* * *
70649351 --TGTAAGACCACGTCTGAGATGTTGGCAT
1 TGTGTAAGACCATGTCTGGGACGTTGGCAT
70649379 TGTATAAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 25 0.27
43 64 0.68
44 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGATTAA
Found at i:70663094 original size:27 final size:27
Alignment explanation
Indices: 70663064--70663118 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
70663054 ATTCAAGGAG
70663064 TTCATTCATCATTCAGGAAGTTTTACT
1 TTCATTCATCATTCAGGAAGTTTTACT
* *
70663091 TTCATTCATCATTCGGGATGTTTTACT
1 TTCATTCATCATTCAGGAAGTTTTACT
70663118 T
1 T
70663119 ATCTCCCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (27 bp):
TTCATTCATCATTCAGGAAGTTTTACT
Found at i:70667666 original size:43 final size:43
Alignment explanation
Indices: 70667583--70667668 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
70667573 AAAAATCGTA
*
70667583 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAGCCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATAT
*
70667626 CAATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAATCACATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAACCACATAT
70667669 TGAAATCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATAT
Found at i:70679034 original size:41 final size:41
Alignment explanation
Indices: 70678977--70679069 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
70678967 AGCCACCGGC
* ** * *
70678977 GGATCCACGGTCATCAAGCAACTATGGGATTCTTAATCGGT
1 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
70679018 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
1 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
70679059 GGATCCACGGT
1 GGATCCACGGT
70679070 TGGTAAGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (41 bp):
GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
Found at i:70679078 original size:41 final size:41
Alignment explanation
Indices: 70678977--70679095 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
70678967 AGCCACCGGC
* ** * *
70678977 GGATCCACGGTCATCAAGCAACTATGGGATTCTTAATCGGT
1 GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
*
70679018 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
1 GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
** **
70679059 GGATCCACGGTTGGT-AAGCAACAATGTGATCCTCAAT
1 GGATCCACGG-TCATCAAGCAACAATGCAATCCTCAAT
70679096 TTCTTCCTCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 65 0.97
42 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (41 bp):
GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
Found at i:70679392 original size:27 final size:27
Alignment explanation
Indices: 70679333--70679647 Score: 258
Period size: 27 Copynumber: 11.7 Consensus size: 27
70679323 TTTCACCCTA
* * * *
70679333 CAAGGGTGTTTTGGTAAATCTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
70679359 CTAAGGGTATTTTTTGTAATTTTGTAAAT
1 C-AAGGGTA-TTTTGGTAATTTTATAAAT
* * * *
70679388 CAGGGGTATTTTTGTAATTTTCTAGAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* **
70679415 CAAGAGTATTTTTATAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
70679442 CGAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
70679469 CGAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
70679496 TAAGGGTTTTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
70679523 CAGGGGTAATTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
70679550 CAGGGGTATTTTGGTAATTTTCT-AAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
70679576 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
70679603 CAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
70679629 CAAGGGTATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
70679648 CTACCCTACA
Statistics
Matches: 241, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
26 47 0.20
27 174 0.72
28 19 0.08
29 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:70679618 original size:26 final size:27
Alignment explanation
Indices: 70679536--70679647 Score: 111
Period size: 26 Copynumber: 4.2 Consensus size: 27
70679526 GGGTAATTTG
** * **
70679536 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTGTAAACCAAGGGTATTTCA
* * * **
70679563 GTAATTTTCT-AATCGAGGGTATTTTG
1 GTAATTTTGTAAACCAAGGGTATTTCA
70679589 GTAATTTTGTAAACCAAGGGTA-TTCA
1 GTAATTTTGTAAACCAAGGGTATTTCA
*
70679615 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAACCAAGGGTATTTCA
70679642 GTAATT
1 GTAATT
70679648 CTACCCTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
26 46 0.64
27 26 0.36
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAGGGTATTTCA
Found at i:70691861 original size:37 final size:37
Alignment explanation
Indices: 70691811--70691990 Score: 324
Period size: 37 Copynumber: 4.9 Consensus size: 37
70691801 CTTTAGCTCA
* * *
70691811 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
70691848 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
70691885 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
70691922 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
70691959 GACATAATCTCCACACGTAGTCATCGGGTCTT
1 GACATAATCTCCACACGTAGTCATCGGGTCTT
70691991 TAGAGCTCGG
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:70692212 original size:22 final size:22
Alignment explanation
Indices: 70692184--70692257 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
70692174 TTTTACATTC
70692184 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
70692206 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
70692228 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
70692251 ATCACAT
1 ATCACAT
70692258 ATATACACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:70692375 original size:49 final size:47
Alignment explanation
Indices: 70692109--70692466 Score: 567
Period size: 47 Copynumber: 7.6 Consensus size: 47
70692099 CCCTTCGGGA
* * * * * *
70692109 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
70692156 CCTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70692203 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70692248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70692295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
70692342 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70692391 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70692440 CTTATCACATATATATACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
70692467 TATTCAAATA
Statistics
Matches: 292, Mismatches: 15, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
45 44 0.15
47 156 0.53
49 92 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:70702361 original size:40 final size:40
Alignment explanation
Indices: 70702305--70702482 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
70702295 CGGATGATAA
* *
70702305 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
70702345 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
70702385 CCTGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
70702425 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
70702465 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
70702483 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:70710619 original size:40 final size:40
Alignment explanation
Indices: 70710564--70710781 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
70710554 CGAATGATAA
* * *
70710564 CCGGGCTAAGTCCCGAAGGCATTTGTTCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
70710604 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
70710644 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
70710684 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
70710725 -CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
70710764 CC-GGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
70710782 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 18 0.11
40 143 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:70715902 original size:42 final size:42
Alignment explanation
Indices: 70715793--70715954 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
70715783 CAATATGTGT
*
70715793 TTTCATGTAAGACCATATTTGGGACATTGGCATCG-ACTTATGA
1 TTTCATGTAAGACCATGTTTGGGACATTGGCATCGTA-TT-TGA
* * *
70715836 TTT-ATGTGTAAGACCATGTCTGGGACATTGACAGCGTATTTGA
1 TTTCA--TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGA
* * *
70715879 TTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGA
* * * * *
70715922 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTCATGTAAGACCATGTTTGGGACATTGGCAT
70715955 TTTACGAGCT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.27
43 41 0.43
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCATGTTTGGGACATTGGCATCGTATTTGA
Found at i:70721060 original size:43 final size:43
Alignment explanation
Indices: 70720911--70721065 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
70720901 ATACCATACA
* * *
70720911 ATGCCAACGTCCTAGATGTGGTCTTACAT-GCT-ATCTCATATCG
1 ATGCCAACGTCCCAGATATGGTCTTAC-TCG-TAATCACATATCG
* ** * * *
70720954 ATGCC-ACTTTCATAGATAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGATATGGTCTTACTCGTAATCACATATCG
* ** *
70720995 ATGCCAATGTCCCAGGCATGGTCTTACTCGTAACCACATATCG
1 ATGCCAACGTCCCAGATATGGTCTTACTCGTAATCACATATCG
*
70721038 ATGCCAACGTCCCAGATGTGGTCTTACT
1 ATGCCAACGTCCCAGATATGGTCTTACT
70721066 AGAGAACACA
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
41 22 0.26
42 16 0.19
43 47 0.55
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATATGGTCTTACTCGTAATCACATATCG
Found at i:70721076 original size:43 final size:43
Alignment explanation
Indices: 70720993--70721078 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
70720983 GAATCAAATA
* * * *
70720993 CGATGCCAATGTCCCAGGCATGGTCTTACTCGTAACCACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACTAGTAAACACATAT
**
70721036 CGATGCCAACGTCCCAGATGTGGTCTTACTAG-AGAACACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACTAGTA-AACACATAT
70721079 ATGTATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACTAGTAAACACATAT
Found at i:70725865 original size:16 final size:17
Alignment explanation
Indices: 70725839--70725879 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
70725829 TAAGTAAATG
* *
70725839 ATGAAAT-AAACTAATT
1 ATGAAATAAAACAAAGT
70725855 AT-AAATAAAACAAAGT
1 ATGAAATAAAACAAAGT
70725871 ATGAAATAA
1 ATGAAATAA
70725880 GGCTATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (17 bp):
ATGAAATAAAACAAAGT
Found at i:70726803 original size:43 final size:44
Alignment explanation
Indices: 70726743--70726860 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 44
70726733 TCTAGGACGT
* *
70726743 TGGCATCAACT-TATGATTTACATGTAAGACCATGTCCGGGACAT
1 TGGCATCAA-TATTTGATTTACATGTAAGACCATGTCCGGGACAG
* * ** * *
70726787 TGGTATC-GTATTTGATTT-TGTGTAAGACCTTGTCTGGGACAG
1 TGGCATCAATATTTGATTTACATGTAAGACCATGTCCGGGACAG
*
70726829 TGGCATCAATATTTGA-TTACATGTAAAACCAT
1 TGGCATCAATATTTGATTTACATGTAAGACCAT
70726861 ATTTGGGACG
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
42 28 0.49
43 23 0.40
44 6 0.11
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (44 bp):
TGGCATCAATATTTGATTTACATGTAAGACCATGTCCGGGACAG
Found at i:70728500 original size:54 final size:54
Alignment explanation
Indices: 70728437--70728544 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
70728427 TCAACTAAAG
70728437 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
1 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
70728491 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
1 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
70728545 CTAACCTGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (54 bp):
GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
Found at i:70729740 original size:43 final size:43
Alignment explanation
Indices: 70729693--70729827 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 43
70729683 GGACGTGGTA
* * *
70729693 TTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGTC
1 TTACACGTAATTCAATATCGATGCCTATGTCCCAGACACGGTC
** * * *
70729736 TTACACG-AAACCAGATA-CAATGCCAATGTCCCAGACATGGTC
1 TTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACACGGTC
* * *
70729778 TTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACACGGTC
1 TTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACACGGTC
70729821 TTACACG
1 TTACACG
70729828 ATGTCTTAGA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
42 32 0.45
43 36 0.51
44 2 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
TTACACGTAATTCAATATCGATGCCTATGTCCCAGACACGGTC
Found at i:70730117 original size:8 final size:8
Alignment explanation
Indices: 70730104--70730132 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
70730094 TACAATAAAA
70730104 ATTCAACC
1 ATTCAACC
70730112 ATTCAACC
1 ATTCAACC
70730120 ATTCAACC
1 ATTCAACC
70730128 ATTCA
1 ATTCA
70730133 TTTCATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTCAACC
Found at i:70732678 original size:37 final size:37
Alignment explanation
Indices: 70732616--70732761 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
70732606 AGCTCAGATG
* * *
70732616 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
70732653 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
70732690 TAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
70732727 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
70732762 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:70732966 original size:48 final size:48
Alignment explanation
Indices: 70732908--70733541 Score: 1090
Period size: 48 Copynumber: 13.1 Consensus size: 48
70732898 ACACATCGCC
* *
70732908 TACATATTTCACACTAGCCATTCGGCTTTACCGCATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
70732956 TACATTTTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
70733006 TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733054 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
70733102 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733150 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
70733198 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733246 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733294 TACATATTTCACATTAGCCATTCGGCTTTACCACAT-TACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
70733341 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733389 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
70733441 TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
70733489 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
70733537 TACAT
1 TACAT
70733542 CAATTTCCGC
Statistics
Matches: 556, Mismatches: 23, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 47 0.08
48 419 0.75
50 44 0.08
52 46 0.08
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:70749132 original size:16 final size:16
Alignment explanation
Indices: 70749104--70749154 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
70749094 AGTATTTAAG
*
70749104 TATA-TAATGTAATAA
1 TATATTAATATAATAA
70749119 TATATTAATATAATAA
1 TATATTAATATAATAA
70749135 TATATTAATATAATAA
1 TATATTAATATAATAA
70749151 TATA
1 TATA
70749155 ATATAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 4 0.12
16 30 0.88
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TATATTAATATAATAA
Found at i:70749134 original size:24 final size:24
Alignment explanation
Indices: 70749099--70749157 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
70749089 TACTTAGTAT
*
70749099 TTAAGTAT-ATAATGTAATAATATA
1 TTAA-TATAATAATATAATAATATA
*
70749123 TTAATATAATAATATATTAATATA
1 TTAATATAATAATATAATAATATA
*
70749147 ATAATATAATA
1 TTAATATAATA
70749158 TAATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TTAATATAATAATATAATAATATA
Found at i:70749163 original size:8 final size:8
Alignment explanation
Indices: 70749107--70749157 Score: 75
Period size: 8 Copynumber: 6.4 Consensus size: 8
70749097 ATTTAAGTAT
*
70749107 ATAATGTA
1 ATAATATA
70749115 ATAATATA
1 ATAATATA
*
70749123 TTAATATA
1 ATAATATA
70749131 ATAATATA
1 ATAATATA
*
70749139 TTAATATA
1 ATAATATA
70749147 ATAATATA
1 ATAATATA
70749155 ATA
1 ATA
70749158 TAATAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:70749163 original size:13 final size:13
Alignment explanation
Indices: 70749115--70749163 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
70749105 ATATAATGTA
*
70749115 ATAATATATTAAT
1 ATAATATAATAAT
70749128 AT-A-ATAAT-AT
1 ATAATATAATAAT
70749138 ATTAATATAATAAT
1 A-TAATATAATAAT
70749152 ATAATATAATAA
1 ATAATATAATAA
70749164 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
10 3 0.10
11 5 0.16
12 2 0.06
13 18 0.58
14 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:70749163 original size:16 final size:15
Alignment explanation
Indices: 70749104--70749163 Score: 79
Period size: 16 Copynumber: 4.0 Consensus size: 15
70749094 AGTATTTAAG
*
70749104 TATATAATGTAATAA
1 TATATAATATAATAA
70749119 TATATTAATATAATAA
1 TATA-TAATATAATAA
70749135 TATATTAATATAAT-A
1 TATA-TAATATAATAA
70749150 -ATATAATATAATAA
1 TATATAATATAATAA
70749164 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
13 9 0.21
14 4 0.10
15 5 0.12
16 24 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:70749223 original size:17 final size:17
Alignment explanation
Indices: 70749179--70749255 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
70749169 AAAATAGATG
*
70749179 AAAGAAAATAAAGAAAC
1 AAAGAAAAAAAAGAAAC
* *
70749196 AAA-ATAGAAAAAGGAAC
1 AAAGA-AAAAAAAGAAAC
70749213 AAAGAAAAAAACA-AAA-
1 AAAGAAAAAAA-AGAAAC
*
70749229 AAGGAGAAAAAAAGAAGA-
1 AAAGA-AAAAAAAGAA-AC
70749247 AAAGAAAAA
1 AAAGAAAAA
70749256 GAAAAGGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 6 0.13
17 34 0.72
18 7 0.15
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAGAAAC
Found at i:70749244 original size:8 final size:8
Alignment explanation
Indices: 70749179--70749255 Score: 64
Period size: 8 Copynumber: 9.1 Consensus size: 8
70749169 AAAATAGATG
70749179 AAAGAAAA
1 AAAGAAAA
70749187 TAAAGAAACA
1 -AAAGAAA-A
* *
70749197 AAATAGAA
1 AAAGAAAA
* *
70749205 AAAGGAAC
1 AAAGAAAA
70749213 AAAGAAAA
1 AAAGAAAA
*
70749221 AAACAAAA
1 AAAGAAAA
70749229 AAGGAGAAAA
1 AA--AGAAAA
*
70749239 AAAGAAGA
1 AAAGAAAA
70749247 AAAGAAAA
1 AAAGAAAA
70749255 A
1 A
70749256 GAAAAGGAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
8 33 0.62
9 12 0.23
10 8 0.15
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:70750989 original size:41 final size:42
Alignment explanation
Indices: 70750910--70750989 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
70750900 ATTTTGAGTC
* *
70750910 CACACGGCCTGACACATGGGCGTGTGATTAGACTGTGTGAGA
1 CACACGGCCTGACACATGGGCATGTGATTAGACCGTGTGAGA
* * *
70750952 CACACGG-CTTACACATGGGCATGTGGTTAGGCCGTGTG
1 CACACGGCCTGACACATGGGCATGTGATTAGACCGTGTG
70750990 TCCCCTGCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 26 0.79
42 7 0.21
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (42 bp):
CACACGGCCTGACACATGGGCATGTGATTAGACCGTGTGAGA
Found at i:70756996 original size:21 final size:22
Alignment explanation
Indices: 70756972--70757014 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
70756962 TGTTGGCCCA
*
70756972 TTTTGTCCTC-AAATTCATTTT
1 TTTTATCCTCAAAATTCATTTT
*
70756993 TTTTATCCTCAAAATTCCTTTT
1 TTTTATCCTCAAAATTCATTTT
70757015 GCTTTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTATCCTCAAAATTCATTTT
Found at i:70776728 original size:40 final size:40
Alignment explanation
Indices: 70776650--70776736 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
70776640 TGATGACATA
* *
70776650 TCGGCTAAATATGGTACTGAGTGTGCGGTTCGGTATAGCT
1 TCGGCTAAATATGGCACTGAGTGTGCGATTCGGTATAGCT
* * *
70776690 TCGGCTAAATTTGGCACTTAGTGTGCGATTTGAG-ATAGCT
1 TCGGCTAAATATGGCACTGAGTGTGCGATTCG-GTATAGCT
*
70776730 TCAGCTA
1 TCGGCTA
70776737 TGTACAACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (40 bp):
TCGGCTAAATATGGCACTGAGTGTGCGATTCGGTATAGCT
Found at i:70791155 original size:43 final size:43
Alignment explanation
Indices: 70791067--70791231 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
70791057 AATGTGATAT
* * * * *
70791067 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
*
70791110 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* *
70791153 TCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** *
70791196 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
70791232 TGAGTTTAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 12 0.11
43 73 0.68
44 16 0.15
45 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:70791312 original size:40 final size:41
Alignment explanation
Indices: 70791121--70791311 Score: 154
Period size: 43 Copynumber: 4.6 Consensus size: 41
70791111 CGGGCTTCGG
***
70791121 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
* *
70791164 GCCTAGTAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * ** *
70791207 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTTAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* * *** *
70791248 GTCTAGCAGGTTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
70791288 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
70791312 TTTGATAAAA
Statistics
Matches: 117, Mismatches: 27, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
40 29 0.25
41 28 0.24
42 11 0.09
43 48 0.41
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:70798668 original size:17 final size:18
Alignment explanation
Indices: 70798646--70798679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70798636 TACATTGAAG
*
70798646 TGTTTT-ATTTAAAACCT
1 TGTTTTCATTGAAAACCT
70798663 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
70798680 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Done.